FUNGAL XYLANASES AND XYLOSIDASES

Abstract

The present invention provides fungal xylanase and/or xylosidase enzymes suitable for use in saccharification reactions. The present invention provides xylanase and xylosidase enzymes suitable for use in saccharification reactions. The present application further provides genetically modified fungal organisms that produce xylanase(s) and/or xylosidase(s), as well as enzyme mixtures exhibiting enhanced hydrolysis of cellulosic material to fermentable sugars, enzyme mixtures produced by the genetically modified fungal organisms, and methods for producing fermentable sugars from cellulose using such enzyme mixtures. In some embodiments, the xylanase and xylosidase enzyme(s) are M. thermophila enzymes.

Description

[0001] The present application is a Divisional of U.S. patent application Ser. No. 13/914,475, filed Jun. 10, 2013, which claims priority to U.S. Prov. Pat. Appln. Ser. Nos. 61/774,695 and 61/774,706, both of which were filed Mar. 8, 2013, and U.S. Prov. Pat. Appln. Ser. Nos. 61/673,358, and 61/658,166, filed on Jul. 19, 2012 and Jun. 11, 2012, respectively. All of these applications are incorporated by reference in their entireities for all purposes.

FIELD OF THE INVENTION

[0002] The present invention provides xylanase and xylosidase enzymes suitable for use in saccharification reactions. The present application further provides genetically modified fungal organisms that produce xylanase(s) and/or xylosidase(s), as well as enzyme mixtures exhibiting enhanced hydrolysis of cellulosic material to fermentable sugars, enzyme mixtures produced by the genetically modified fungal organisms, and methods for producing fermentable sugars from cellulose using such enzyme mixtures.

BACKGROUND

[0003] Interest has arisen in fermentation of carbohydrate-rich biomass to provide alternatives to petrochemical sources for fuels and organic chemical precursors. There is great interest in using lignocellulosic feedstocks where the plant cellulose is broken down to sugars and subsequently converted to desired end products, such as organic chemical precursors. Lignocellulosic biomass is primarily composed of cellulose, hemicelluloses, and lignin. Cellulose and hemicellulose can be hydrolyzed in a saccharification process to sugars that can be subsequently converted to various products via fermentation. The major fermentable sugars obtained from lignocelluloses are glucose and xylose. For economical product yields, a process that can effectively convert all the major sugars present in cellulosic feedstock would be highly desirable.

SUMMARY OF THE INVENTION

[0004] The present invention provides xylanase and xylosidase enzymes suitable for use in saccharification reactions. The present application further provides genetically modified fungal organisms that produce xylanases and/or xylosidases, as well as enzyme mixtures exhibiting enhanced hydrolysis of cellulosic material to fermentable sugars, enzyme mixtures produced by the genetically modified fungal organisms, and methods for producing fermentable sugars from cellulose using such enzyme mixtures. The present application further provides genetically modified fungal organisms that produce xylanases and/or xylosidases, as well as enzyme mixtures exhibiting enhanced hydrolysis of cellulosic material to fermentable sugars, enzyme mixtures produced by the genetically modified fungal organisms, and methods for producing fermentable sugars from cellulose using such enzyme mixtures. In some embodiments, the xylanase and/or xylosidase is obtained from Myceliophthora thermophila.

[0005] The present invention provides an isolated xylanase and/or beta-xylosidase or biologically active xylanase and/or beta-xylosidase fragment comprising (a) an amino acid sequence comprising at least about 70%, at least about 71%, at least about 72%, at least about 73%, at least about 74%, at least about 75%, at least about 76%, at least about 77%, at least about 78%, at least about 79%, at least about 80%, at least about 81%, at least 82%, at least about 83%, at least about 84%, at least about 85%, at least about 86%, at least about 87%, at least about 88%, at least about 89%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or at least about 100% sequence identity to a SEQ ID NO:2, 3, 5, 6, 8 and/or 9. The present invention further provides an isolated xylanase and/or beta-xylosidase or biologically active xylanase and/or beta-xylosidase fragment comprising (a) an amino acid sequence comprising at least 70%, at least 71%, at least 72%, at least 73%, at least 74%, at least 75%, at least 76%, at least 77%, at least 78%, at least 79%, at least 80%, at least 81%, at least 82%, at least 83%, at least 84%, at least 85%, at least 86%, at least 87%, at least 88%, at least 89%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, or 100% sequence identity to a SEQ ID NO:2, 3, 5, 6, 8 and/or 9. In some embodiments, the isolated xylanase and/or beta-xylosidase or biologically active xylanase and/or beta-xylosidase fragment comprises at least one sequence selected from SEQ ID NO:2, 3, 5, 6, 8 and/or 9. In some embodiments, the isolated xylanase and/or beta-xylosidase or biologically active xylanase and/or beta-xylosidase fragment is a Myceliophthora thermophila xylanase and/or beta-xylosidase, and/or biologically active xylanase and/or beta-xylosidase fragment.

[0006] The present invention also provides enzyme compositions comprising the xylanase and/or beta-xylosidases provided herein, as well as biologically active xylanase and/or beta-xylosidase fragment(s). In some embodiments, the enzyme compositions further comprise at least one additional enzyme. In some further embodiments, the enzyme compositions comprise one or more enzymes selected from cellulases, hemicellulases, xylanases, amylases, glucoamylases, proteases, esterases, xylanases, beta-xylosidases, arabinofuranosidases, alpha-glucuronidases, acetylxylan esterases, feruloyl esterases, alpha-glucuronyl esterases, GH61 enzymes, and lipases. In some additional embodiments, the enzyme compositions further comprise one or more enzyme(s) selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), and/or Type 2 cellobiohydrolases (CBH2). In some embodiments, the EG is EG2, while in some additional embodiments, the EG is EG1 (e.g., EG1b). In some embodiments, the CBH1 is CBH1a, while in some additional embodiments, the CBH1 is CBH1b. In some further embodiments, the CBH2 is CBH2a, while in some additional embodiments, the CBH2 is CBH2b.

[0007] The present invention also provides an isolated polynucleotide comprising a nucleic acid sequence encoding the xylanase and/or beta-xylosidases provided herein, and/or a polynucleotide that hybridizes under stringent hybridization conditions to the polynucleotide and/or a complement of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of the xylanase and/or beta-xylosidases and/or biologically active xylanase and/or beta-xylosidase fragments provided herein. In some embodiments, the polynucleotide comprises a sequence that has least about 70%, at least about 71%, at least about 72%, at least about 73%, at least about 74%, at least about 75%, at least about 76%, at least about 77%, at least about 78%, at least about 79%, at least about 80%, at least about 81%, at least about 82%, at least about 83%, at least about 84%, at least about 85%, at least about 86%, at least about 87%, at least about 88%, at least about 89%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or about 100% identity to SEQ ID NOS:1, 4 and/or 7. In some embodiments, the polynucleotide comprises a sequence that has least 70%, at least 71%, at least 72%, at least 73%, at least 74%, at least 75%, at least 76%, at least 77%, at least 78%, at least 79%, at least 80%, at least 81%, at least 82%, at least 83%, at least 84%, at least 85%, at least 86%, at least 87%, at least 88%, at least 89%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, or 100% identity to SEQ ID NOS:1, 4 and/or 7. In some additional embodiments, the polynucleotide comprises at least one sequence selected from SEQ ID NOS:1, 4, and/or 7.

[0008] The present invention also provides a recombinant nucleic acid construct comprising at least one polynucleotide sequence, wherein the polynucleotide is selected from: a polynucleotide that encodes a polypeptide comprising an amino acid sequence comprising at least about 70%, at least about 71%, at least about 72%, at least about 73%, at least about 74%, at least about 75%, at least about 76%, at least about 77%, at least about 78%, at least about 79%, at least about 80%, at least about 81%, at least about 82%, at least about 83%, at least about 84%, at least about 85%, at least about 86%, at least about 87%, at least about 88%, at least about 89%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or at least about 100% identity to SEQ ID NOS:2, 3, 5, 6, 8 and/or 9; a polynucleotide that hybridizes under stringent hybridization conditions to at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NOS:2, 3, 5, 6, 8, and/or 9; and/or a polynucleotide that hybridizes under stringent hybridization conditions to the complement of at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NOS:2, 3, 5, 6, 8, and/or 9. In some embodiments, the recombinant nucleic acid construct comprises at least one sequence selected from SEQ ID NOS:2, 3, 5, 6, 8, and/or 9.

[0009] In some embodiments, the present invention further provides a recombinant nucleic acid construct comprising at least one polynucleotide sequence, wherein the polynucleotide is selected from: a polynucleotide that encodes a polypeptide comprising an amino acid sequence comprising at least 70%, at least 71%, at least 72%, at least 73%, at least 74%, at least 75%, at least 76%, at least 77%, at least 78%, at least 79%, at least 80%, at least 81%, at least 82%, at least 83%, at least 84%, at least 85%, at least 86%, at least 87%, at least 88%, at least 89%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, or at least 100% identity to SEQ ID NOS:2, 3, 5, 6, 8 and/or 9; a polynucleotide that hybridizes under stringent hybridization conditions to at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NOS:2, 3, 5, 6, 8, and/or 9; and/or a polynucleotide that hybridizes under stringent hybridization conditions to the complement of at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NOS:2, 3, 5, 6, 8, and/or 9. In some embodiments, the polypeptide sequence comprises SEQ ID NOS:2, 3, 5, 6, 8, and/or 9.

[0010] In some embodiments, the polynucleotide sequence is at least about 70%, at least about 71%, at least about 72%, at least about 73%, at least about 74%, at least about 75%, at least about 76%, at least about 77%, at least about 78%, at least about 79%, at least about 80%, at least about 81%, at least about 82%, at least about 83%, at least about 84%, at least about 85%, at least about 86%, at least about 87%, at least about 88%, at least about 89%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or at least about 100% identical to SEQ ID NOS:1, 4, and/or 7. In some additional embodiments, the polynucleotide sequence is at least 70%, at least 71%, at least 72%, at least 73%, at least 74%, at least 75%, at least 76%, at least 77%, at least 78%, at least 79%, at least 80%, at least 81%, at least 82%, at least 83%, at least 84%, at least 85%, at least 86%, at least 87%, at least 88%, at least 89%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, or 100% identical to SEQ ID NOS:1, 4, and/or 7. In some further embodiments, the polynucleotide sequence comprises SEQ ID NOS:1, 4, and/or 7. In some embodiments, the polynucleotide sequence is operably linked to a promoter. In some further embodiments, the promoter is a heterologous promoter. In some additional embodiments, the nucleic acid sequence is operably linked to at least one additional regulatory sequence.

[0011] The present invention also provides recombinant host cells that express at least one polynucleotide sequence encoding at least one xylanase and/or beta-xylosidase and/or at least one biologically active xylanase and/or beta-xylosidase fragment. In some embodiments, the host cell comprises at least one nucleic acid construct as provided herein. In some embodiments, the host cell comprises at least one polypeptide sequence set forth in SEQ ID NOS:2, 3, 5, 6, 8, and/or 9. In some additional embodiments, the host cell comprises at least one polynucleotide sequence set forth in SEQ ID NOS:1, 4, and/or 7. In some further embodiments, at least one xylanase and/or beta-xylosidase and/or at least one biologically active xylanase and/or beta-xylosidase is produced by said cell. In some additional embodiments, the produced xylanase and/or beta-xylosidase is secreted from the host cell. In some further embodiments, at least one xylanase and/or beta-xylosidase and/or at least one biologically active xylanase and/or beta-xylosidase is produced by said cell. In some additional embodiments, the produced xylanase and/or beta-xylosidase is secreted from the host cell. In some embodiments, the host cell further produces one or more enzymes selected from cellulases, hemicellulases, xylanases, amylases, glucoamylases, proteases, esterases, xylanases, beta-xylosidases, arabinofuranosidases, alpha-glucuronidases, acetylxylan esterases, feruloyl esterases, alpha-glucuronyl esterases, GH61 enzymes, and lipases. In some additional embodiments, the host cells further comprise one or more enzyme(s) selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), and/or Type 2 cellobiohydrolases (CBH2). In some embodiments, the EG is EG2, while in some additional embodiments, the EG is EG1 (e.g., EG1b). In some embodiments, the CBH1 is CBH1a, while in some additional embodiments, the CBH1 is CBH1b. In some further embodiments, the CBH2 is CBH2a, while in some additional embodiments, the CBH2 is CBH2b. In some further embodiments, the host cell produces at least two recombinant cellulases, while in some other embodiments, the host cell produces at least three, at least four or at least five recombinant cellulases. In some additional embodiments, the cell is a prokaryotic or eukaryotic cell. In some embodiments, the host cell is a yeast cell or filamentous fungal cell. In some further embodiments, the filamentous fungal cell is a Myceliophthora, a Thielavia, a Trichoderma, or an Aspergillus cell. In some alternative embodiments, the host cell is selected from Saccharomyces and Myceliophthora. In some embodiments, the filamentous fungal cell is a Myceliophthora thermophila cell. In some additional embodiments, the host cell is a yeast cell. In some embodiments, the yeast cell is Saccharomyces cerevisiae.

[0012] The present invention also provides methods for producing at least one fermentable sugar from a feedstock, comprising contacting the feedstock with at least one enzyme composition provided herein, under culture conditions whereby fermentable sugars are produced. In some embodiments, the enzyme compositions of the methods further comprise at least one additional enzyme. In some further embodiments of the methods, the enzyme compositions comprise one or more enzymes selected from cellulases, hemicellulases, xylanases, amylases, glucoamylases, proteases, esterases, xylanases, beta-xylosidases, arabinofuranosidases, alpha-glucuronidases, acetylxylan esterases, feruloyl esterases, alpha-glucuronyl esterases, GH61 enzymes, and lipases. In some additional embodiments of the methods, the enzyme compositions further comprise one or more enzyme(s) selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), and/or Type 2 cellobiohydrolases (CBH2). In some embodiments of the methods, the EG is EG2, while in some additional embodiments, the EG is EG1 (e.g., EG1b). In some embodiments of the methods, the CBH1 is CBH1a, while in some additional embodiments, the CBH1 is CBH1b. In some further embodiments of the methods, the CBH2 is CBH2a, while in some additional embodiments, the CBH2 is CBH2b. In some embodiments, the methods further comprise pretreating the feedstock prior to contacting the enzyme composition and feedstock. In some embodiments of the methods, the feedstock comprises wheat grass, wheat straw, barley straw, sorghum, rice grass, sugarcane, sugar beet, bagasse, tops, leaves, seed pods, fruit, switchgrass, corn stover, corn fiber, grains, and/or a combination thereof. In some embodiments, the fermentable sugar comprises glucose and/or xylose. In some additional embodiments, the methods further comprise recovering at least one fermentable sugar. In some further embodiments, the methods further comprise contacting at least one fermentable sugar with a microorganism under conditions such that said microorganism produces at least one fermentation end product. In some embodiments, the fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams. In some embodiments of the methods, the fermentation product is an alcohol selected from ethanol and butanol. In some further embodiments of the methods, the alcohol is ethanol. In some additional embodiments, the feedstock is a cellulosic and/or lignocellulosic feedstock.

[0013] The present invention also provides methods of producing an end product from a feedstock, comprising: contacting the feedstock with a composition according to any of claims 3 to 6, under conditions whereby at least one fermentable sugar is produced from the substrate; and contacting the fermentable sugar with a microorganism under conditions such that the microorganism uses the fermentable sugar to produce an end-product. In some embodiments, the methods comprise simultaneous saccharification and fermentation reactions (SSF). In some alternative embodiments, the methods comprise separate saccharification and fermentation reactions (SHF). In some embodiments, the feedstock is a cellulosic and/or lignocellulosic feedstock.

[0014] The present invention also provides methods of producing a fermentation end product from a feedstock, comprising: obtaining at least one fermentable sugar produced according to at least one method provided herein; and contacting the fermentable sugar with a microorganism in a fermentation to produce at least one fermentation end product. In some embodiments, the fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams. In some embodiments, the fermentation end product is at least one alcohol selected from ethanol and butanol. In some additional embodiments, the microorganism is a yeast. In some further embodiments, the yeast cell is Saccharomyces cerevisiae. In some further embodiments, the methods further comprise recovering the fermentation end product.

[0015] The present invention also provides recombinant organisms comprising a xylanase and/or beta-xylosidase and/or biologically active xylanase and/or beta-xylosidase fragment comprising (a) an amino acid sequence comprising at least about 70%, at least about 75%, at least about 80%, at least about 81%, at least 82%, at least about 83%, at least about 84%, at least about 85%, at least about 86%, at least about 87%, at least about 88%, at least about 89%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, or at least about 99% sequence identity to a SEQ ID NO:2, 3, 5, 6, 8 and/or 9. In some embodiments, the recombinant organisms comprise a xylanase and/or beta-xylosidase and/or biologically active xylanase and/or beta-xylosidase fragment comprising (a) an amino acid sequence comprising at least 70%, at least 75%, at least 80%, at least 81%, at least 82%, at least 83%, at least 84%, at least 85%, at least 86%, at least 87%, at least 88%, at least 89%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, or 100% sequence identity to a SEQ ID NO:2, 3, 5, 6, 8 and/or 9.

[0016] The present invention further provides methods for producing at least one fermentable sugar from a feedstock, comprising contacting the feedstock with the recombinant organism and/or the recombinant host cell set forth herein, under culture conditions whereby fermentable sugars are produced. In some embodiments, the recombinant organism and/or recombinant host cell further comprises at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), Type 2 cellobiohydrolases (CBH2), and GH61 enzymes. In some additional embodiments, at least one enzyme is a recombinant enzyme. In some additional embodiments, at least one enzyme is a heterologous enzyme. In some further embodiments, the methods further comprise pretreating the feedstock prior to contacting the feedstock with the recombinant organism. In some further embodiments, the feedstock comprises wheat grass, wheat straw, barley straw, sorghum, rice grass, sugarcane, sugar beet, bagasse, switchgrass, corn stover, corn fiber, grains, or a combination thereof. In some additional embodiments, the fermentable sugar comprises glucose and/or xylose. In some embodiments, the methods further comprise recovering at least one fermentable sugar. In some embodiments, the methods further comprise contacting at least one fermentable sugar with a microorganism under conditions such that the microorganism produces at least one fermentation end product. In some embodiments, the fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams. In some embodiments, the fermentation product is an alcohol selected from ethanol and butanol. In some additional embodiments, the alcohol is ethanol. In some further embodiments, the feedstock is a cellulosic and/or lignocellulosic feedstock.

[0017] The present invention also provides methods of producing an end product from a feedstock, comprising: a) contacting the feedstock with a recombinant organism and/or recombinant host cell under conditions whereby at least one fermentable sugar is produced from the substrate; and b) contacting the fermentable sugar with a microorganism under conditions such that the microorganism uses the fermentable sugar to produce an end-product. In some embodiments, the recombinant organism and/or recombinant host cell further comprises at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), and Type 2 cellobiohydrolases (CBH2). In some additional embodiments, at least one enzyme is a recombinant enzyme. In some further embodiments, at least one enzyme is a heterologous enzyme. In some embodiments, the methods comprise a simultaneous saccharification and fermentation reactions (SSF), while in some additional embodiments, the methods comprise separate saccharification and fermentation reactions (SHF). In some embodiments, the feedstock is a cellulosic and/or lignocellulosic feedstock.

[0018] The present invention also provides methods of producing a fermentation end product from a feedstock, comprising: a) obtaining at least one fermentable sugar produced according to any of the methods provided herein; and b) contacting the fermentable sugar with a microorganism in a fermentation to produce at least one fermentation end product. In some embodiments, the fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams. In some additional embodiments, the fermentation end product is at least one alcohol selected from ethanol and butanol. In some embodiments, the microorganism is a yeast. In some embodiments, the methods further comprise recovering the fermentation end product.

[0019] The present invention also provides an isolated xylanase and/or xylosidase and/or biologically active xylanase and/or xylosidase fragment comprising (a) an amino acid sequence comprising at least about 70%, at least about 75%, at least about 80%, at least about 81%, at least about 82%, at least about 83%, at least about 84%, at least about 85%, at least about 86%, at least about 87%, at least about 88%, at least about 89%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, or at least about 99% sequence identity to SEQ ID NO: 2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65. In some embodiments, the isolated xylanase and/or xylosidase or biologically active xylanase and/or xylosidase fragment is a Myceliophthora thermophila xylanase and/or xylosidase. In some embodiments, the present invention also provides an isolated xylanase and/or xylosidase and/or biologically active xylanase and/or xylosidase fragment comprising (a) an amino acid sequence comprising at least 70%, at least 75%, at least 80%, at least 81%, at least 82%, at least 83%, at least 84%, at least 85%, at least 86%, at least 87%, at least 88%, at least 89%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% sequence identity to SEQ ID NO: 2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65. In some embodiments, the isolated xylanase and/or xylosidase or biologically active xylanase and/or xylosidase fragment is a Myceliophthora thermophila xylanase and/or xylosidase.

[0020] The present invention also provides enzyme compositions comprising the xylanase and/or xylosidase and/or biologically active xylanase and/or xylosidase fragment(s). The present invention also provides enzyme compositions comprising the xylanase and/or xylosidases. In some additional embodiments, the enzyme compositions of claim 3, further comprise: (i) at least one additional enzyme; wherein said at least one additional enzyme is selected from: (ii) one or more enzymes selected from cellulases, hemicellulases, xylanases, amylases, glucoamylases, proteases, esterases, and/or lipases; and/or (iii) one or more enzyme(s) selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), Type 2 cellobiohydrolases (CBH2), and/or GH61 enzymes.

[0021] The present invention also provides a recombinant fungal organism comprising at least one xylanase and/or xylosidase and/or biologically active xylanase and/or xylosidase fragment as provided herein. The present invention further provides a recombinant fungal organism comprising at least one polynucleotide comprising at least one nucleic acid sequence encoding the xylanase and/or xylosidase of provided herein, or a polynucleotide that hybridizes under stringent hybridization conditions to the polynucleotide and/or a complement of a polynucleotide that encodes a polypeptide comprising the amino acid sequence provided herein, optionally wherein said polynucleotide comprises a sequence that has least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, or 100% identity to SEQ ID NO:1, 4, 7, 10, 12, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 53, 56, 58, 60, 62, and/or 64. In some embodiments, the present invention further provides a recombinant fungal organism comprising at least one polynucleotide comprising at least one nucleic acid sequence encoding the xylanase and/or xylosidase of provided herein, or a polynucleotide that hybridizes under stringent hybridization conditions to the polynucleotide and/or a complement of a polynucleotide that encodes a polypeptide comprising the amino acid sequence provided herein, optionally wherein said polynucleotide comprises a sequence that has least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or 100% identity to SEQ ID NO:1, 4, 7, 10, 12, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 53, 56, 58, 60, 62, and/or 64. In some additional embodiments, the present invention further provides a recombinant fungal organism comprising at least one polynucleotide comprising at least one nucleic acid sequence encoding the xylanase and/or xylosidase of provided herein, or a polynucleotide that hybridizes under stringent hybridization conditions to the polynucleotide and/or a complement of a polynucleotide that encodes a polypeptide comprising the amino acid sequence provided herein, optionally wherein said polynucleotide comprises SEQ ID NO:1, 4, 7, 10, 12, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 53, 56, 58, 60, 62, and/or 64.

[0022] The present invention also provides recombinant nucleic acid constructs comprising at least one polynucleotide sequence, wherein the polynucleotide is selected from: (a) a polynucleotide that encodes a polypeptide comprising an amino acid sequence comprising at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, or at least about 99% identity to SEQ ID NO:2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65; (b) a polynucleotide that hybridizes under stringent hybridization conditions to at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NO:2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65; and/or (c) a polynucleotide that hybridizes under stringent hybridization conditions to the complement of at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NO: 2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65. In some embodiments, (i) the polynucleotide sequence is at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, or 100% identical to SEQ ID NO:1, 4, 7, 10, 12, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 53, 56, 58, 60, 62, and/or 64; (ii) the polynucleotide sequence is operably linked to a promoter, optionally wherein said promoter is a heterologous promoter; and/or (iii) the polynucleotide sequence is operably linked to at least one additional regulatory sequence. The present invention also provides recombinant nucleic acid constructs comprising at least one polynucleotide sequence, wherein the polynucleotide is selected from: (a) a polynucleotide that encodes a polypeptide comprising an amino acid sequence comprising at least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identity to SEQ ID NO:2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65; (b) a polynucleotide that hybridizes under stringent hybridization conditions to at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NO:2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65; and/or (c) a polynucleotide that hybridizes under stringent hybridization conditions to the complement of at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NO: 2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65. In some embodiments, (i) the polynucleotide sequence is at least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NO:1, 4, 7, 10, 12, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 53, 56, 58, 60, 62, and/or 64; (ii) the polynucleotide sequence is operably linked to a promoter, optionally wherein said promoter is a heterologous promoter; and/or (iii) the polynucleotide sequence is operably linked to at least one additional regulatory sequence.

[0023] The present invention further provides a recombinant host cell that expresses at least one polynucleotide sequence encoding at least one xylanase and/or xylosidase as provided herein. In some embodiments, the host cell comprises at least one nucleic acid construct as provided herein; (ii) said host cell comprises the polypeptide sequence set forth in SEQ ID NOS: 2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65; (iii) said host cell comprises the polynucleotide sequence set forth in SEQ ID NOS: 1, 4, 7, 10, 12, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 53, 56, 58, 60, 62, and/or 64; (iv) at least one xylanase and/or xylosidase is produced by said cell; (v) the produced xylanase and/or xylosidase is secreted from the host cell; (vi) said host cell further produces at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), Type 2 cellobiohydrolases (CBH2), and GH61 enzymes; (vii) said cell produces at least two recombinant cellulases; (vii) said cell produces at least three, at least four or at least five recombinant cellulases; (viii) said cell is a prokaryotic or eukaryotic cell, such as wherein said cell is a yeast cell or filamentous fungal cell, for example wherein the filamentous fungal cell is a Myceliophthora, a Thielavia, a Trichoderma, or an Aspergillus cell; and/or (ix) said cell is selected from Saccharomyces and Myceliophthora, such as wherein the filamentous fungal cell is a Myceliophthora thermophila or wherein the yeast cell is Saccharomyces cerevisiae.

[0024] The present invention also provides methods for producing at least one fermentable sugar from a feedstock, comprising contacting the feedstock with the xylanase(s) and/or xylosidase(s) provided herein, the enzyme composition provided herein, the recombinant organism provided herein, and/or the host cell provided herein, under culture conditions whereby fermentable sugars are produced. In some embodiments of the methods, (i) the enzyme composition comprises at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), Type 2 cellobiohydrolases (CBH2), and GH61 enzymes, or said at least one enzyme is a recombinant enzyme; (ii) further comprising pretreating the feedstock prior to said contacting; (iii) wherein the feedstock comprises wheat grass, wheat straw, barley straw, sorghum, rice grass, sugarcane, sugar beet, bagasse, switchgrass, corn stover, corn fiber, grains, or a combination thereof; (iv) wherein the fermentable sugar comprises glucose and/or xylose; (v) further comprising recovering at least one fermentable sugar; (vi) further comprising contacting the at least one fermentable sugar with a microorganism under conditions such that said microorganism produces at least one fermentation end product, optionally wherein said fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams, such as wherein said fermentation product is an alcohol selected from ethanol and butanol, for example wherein said alcohol is ethanol; and/or (vii) the feedstock is a cellulosic and/or lignocellulosic feedstock.

[0025] The present invention further provides methods of producing an end product from a feedstock, comprising: a) contacting the feedstock with at least one xylanase and/or xylosidase enzyme as provided herein, an enzyme composition as provided herein, the recombinant organism as provided herein, and/or the host cell as provided herein, under conditions whereby at least one fermentable sugar is produced from the substrate; and b) contacting the fermentable sugar with a microorganism under conditions such that the microorganism uses the fermentable sugar to produce an end-product. In some embodiments, (i) the recombinant host cell further comprises at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), Type 2 cellobiohydrolases (CBH2), and GH61 enzymes, such as wherein said at least one enzyme is a recombinant enzyme and/or wherein said at least one enzyme is a heterologous enzyme; (ii) the method comprises a simultaneous saccharification and fermentation reactions (SSF); or comprises separate saccharification and fermentation reactions (SHF); and/or (iii) the feedstock is a cellulosic and/or lignocellulosic feedstock.

[0026] The present invention also provides methods of producing a fermentation end product from a feedstock, comprising: a) obtaining at least one fermentable sugar produced according to a method provided herein; and b) contacting the fermentable sugar with a microorganism in a fermentation to produce at least one fermentation end product, optionally: (i) wherein said fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams, such as wherein said fermentation end product is at least one alcohol selected from ethanol and butanol; (ii) wherein the microorganism is a yeast; and/or (iii) further comprising recovering the fermentation end product.

[0027] The present invention also provides a recombinant organisms comprising at least one xylanase and/or xylosidase and/or biologically active xylanase and/or xylosidase fragment comprising (a) an amino acid sequence comprising at least about 70%, at least about 75%, at least about 80%, at least about 81%, at least about 82%, at least about 83%, at least about 84%, at least about 85%, at least about 86%, at least about 87%, at least about 88%, at least about 89%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, or at least about 99% sequence identity to SEQ ID NO: 2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65. The present invention also provides recombinant organisms comprising a xylanase and/or xylosidase and/or biologically active xylanase and/or xylosidase fragment comprising (a) an amino acid sequence comprising at least 70%, at least 75%, at least 80%, at least 81%, at least 82%, at least 83%, at least 84%, at least 85%, at least 86%, at least 87%, at least 88%, at least 89%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, or 100% sequence identity to SEQ ID NO: 2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65. In some embodiments, the present invention also provides recombinant organisms comprising a xylanase and/or xylosidase and/or biologically active xylanase and/or xylosidase fragment comprising (a) an amino acid sequence comprising SEQ ID NO: 2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65. In some embodiments, the xylanase and/or xylosidase or biologically active xylanase and/or xylosidase fragment is a Myceliophthora thermophila xylanase and/or xylosidase. The present invention also provides enzyme compositions comprising xylanase and/or xylosidase or biologically active xylanase and/or xylosidase fragment(s). In some further embodiments, the enzyme compositions comprise at least one additional enzyme and/or additional component (e.g., stabilizer(s), preservative(s), builder(s), etc.). In some additional embodiments, the additional enzyme is selected from cellulases, hemicellulases, xylanases, amylases, glucoamylases, proteases, esterases, and lipases. In some embodiments, the enzyme compositions comprise one or more enzyme(s) selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), Type 2 cellobiohydrolases (CBH2), and/or GH61 enzymes.

[0028] The present invention further provides recombinant organisms comprising at least one polynucleotide comprising at least one nucleic acid sequence, wherein said polynucleotide comprises a sequence that has least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or at least about 100% identity to SEQ ID NO:1, 4, 7, 10, 12, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 53, 56, 58, 60, 62, and/or 64. In some embodiments, the polynucleotide comprises a sequence that has least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, or 100% identity to SEQ ID NO:1, 4, 7, 10, 12, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 53, 56, 58, 60, 62, and/or 64. In some embodiments, the recombinant organism comprises at least one polynucleotide comprising at least one nucleic acid sequence encoding the xylanase and/or xylosidase, wherein said polynucleotide comprises SEQ ID NO:1, 4, 7, 10, 12, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 53, 56, 58, 60, 62, and/or 64.

[0029] The present invention also provides recombinant nucleic acid constructs comprising at least one polynucleotide sequence, wherein the polynucleotide is selected from: (a) a polynucleotide that encodes a polypeptide comprising an amino acid sequence comprising at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or about 100% identity to SEQ ID NO: 2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65; (b) a polynucleotide that hybridizes under stringent hybridization conditions to at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NO:2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65; and/or (c) a polynucleotide that hybridizes under stringent hybridization conditions to the complement of at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NO:2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65. In some embodiments, the recombinant nucleic acid constructs comprise at least one polynucleotide sequence, wherein the polynucleotide is selected from: (a) a polynucleotide that encodes a polypeptide comprising an amino acid sequence comprising at least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identity to SEQ ID NO: 2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65; (b) a polynucleotide that hybridizes under stringent hybridization conditions to at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NO:2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65; and/or (c) a polynucleotide that hybridizes under stringent hybridization conditions to the complement of at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NO:2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65. In some additional embodiments, the recombinant nucleic acid constructs comprise at least one polynucleotide sequence, wherein the polynucleotide is selected from: (a) a polynucleotide that encodes a polypeptide comprising an amino acid sequence comprising SEQ ID NO: 2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65; (b) a polynucleotide that hybridizes under stringent hybridization conditions to at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NO:2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65; and/or (c) a polynucleotide that hybridizes under stringent hybridization conditions to the complement of at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NO:2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65. In some further embodiments of the recombinant nucleic acid constructs the polynucleotide sequence is at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, at least about 99%, or about 100% identical to SEQ ID NO: 1, 4, 7, 10, 12, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 53, 56, 58, 60, 62, and/or 64. In some additional embodiments, the polynucleotide sequence is at least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, at least 99%, or 100% identical to SEQ ID NO: 1, 4, 7, 10, 12, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 53, 56, 58, 60, 62, and/or 64. In still some additional embodiments, the polynucleotide sequence comprises SEQ ID NO: 1, 4, 7, 10, 12, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 53, 56, 58, 60, 62, and/or 64. In some further embodiments, the polynucleotide sequence is operably linked to a promoter. In some additional embodiments, the promoter is a heterologous promoter. In some additional embodiments, the nucleic acid sequence is operably linked to at least one additional regulatory sequence.

[0030] The present invention also provides recombinant host cells that express at least one polynucleotide sequence encoding at least one xylanase, xylosidase, xylanase fragment, and/or xylosidase fragment, as provided herein. In some embodiments, the recombinant host cell comprises at least one nucleic acid construct as provided herein. In some embodiments, the recombinant host cell comprises the polypeptide sequence set forth in SEQ ID NO:2, 3, 5, 6, 8, 9, 11, 13, 15, 16, 18, 19, 21, 22, 24, 25, 27, 28, 30, 31, 33, 34, 36, 37, 39, 40, 42, 43, 45, 46, 48, 49, 51, 52, 54, 55, 57, 59, 61, 63, and/or 65. In some further embodiments, the recombinant host cell comprises the polynucleotide sequence set forth in SEQ ID NO: 1, 4, 7, 10, 12, 14, 17, 20, 23, 26, 29, 32, 35, 38, 41, 44, 47, 50, 53, 56, 58, 60, 62, and/or 64. In some additional embodiments, at least one xylanase and/or xylosidase is produced by the recombinant host cell. In some further embodiments, the produced xylanase and/or xylosidase is secreted from the host cell. In some additional embodiments, the recombinant host cell further produces at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), Type 2 cellobiohydrolases (CBH2), and GH61 enzymes. In some embodiments, the recombinant host cell produces at least two recombinant cellulases, while in some other embodiments, the recombinant host cell produces at least three, at least four, or at least five recombinant cellulases. In some embodiments, the recombinant host cell is a prokaryotic or eukaryotic cell. In some further embodiments, the recombinant host cell is a yeast cell or filamentous fungal cell. In some embodiments, the filamentous fungal cell is a Myceliophthora, a Thielavia, a Trichoderma, an Aspergillus or a Saccharomyces cell. In some other embodiments, the filamentous fungal cell is a Myceliophthora thermophila, while in some alternative embodiments, the yeast cell is Saccharomyces cerevisiae.

[0031] The present invention also provides methods for producing at least one fermentable sugar from a feedstock, comprising contacting the feedstock with any of the enzyme composition(s) comprisign at least one xylanase, xylosidase, xylanase fragment, and/or xylosidase fragment, as provided herein, under culture conditions whereby fermentable sugars are produced. In some embodiments, the enzyme composition further comprises at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), Type 2 cellobiohydrolases (CBH2), and GH61 enzymes. In some embodiments, at least one enzyme in the enzyme composition is a recombinant enzyme. In some additional embodiments, the methods further comprise pretreating the feedstock prior to said contacting the enzyme composition with the feedstock. In some further embodiments, the feedstock is a cellulosic and/or lignocellulosic feedstock. In some other embodiments, the feedstock comprises wheat grass, wheat straw, barley straw, sorghum, rice grass, sugarcane, sugar beet, bagasse, switchgrass, corn stover, corn fiber, grains, or a combination thereof. In some additional embodiments, the fermentable sugar comprises glucose and/or xylose. In some embodiments, the methods further comprise the step of recovering at least one fermentable sugar. In still some further embodiments, the methods further comprise the step of contacting at least one fermentable sugar with a microorganism under conditions such that said microorganism produces at least one fermentation end product. In some embodiments, the fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams. In some additional embodiments, the fermentation product is an alcohol selected from ethanol and butanol. In some embodiments, the alcohol is ethanol.

[0032] The present invention also provides methods of producing an end product from a feedstock, comprising: contacting the feedstock with at least one enzyme composition comprising at least one xylanase, xylosidase, xylanase fragment, and/or xylosidase fragment, as provided herein, under conditions whereby at least one fermentable sugar is produced from the feedstock; and b) contacting the fermentable sugar with a microorganism under conditions such that the microorganism uses the fermentable sugar to produce an end-product. In some embodiments, the methods comprise a simultaneous saccharification and fermentation reactions (SSF), while in some other embodiments, the method comprises separate saccharification and fermentation reactions (SHF). In some further embodiments, the feedstock is a cellulosic and/or lignocellulosic feedstock. In some embodiments, the feedstock comprises wheat grass, wheat straw, barley straw, sorghum, rice grass, sugarcane, sugar beet, bagasse, switchgrass, corn stover, corn fiber, grains, or a combination thereof. In some additional embodiments, the methods comprise contacting the fermentable sugar with a microorganism in a fermentation to produce at least one ferrmentation end product. In some embodiments, the fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams. In some additional embodiments, the fermentation product is an alcohol selected from ethanol and butanol. In some embodiments, the alcohol is ethanol. In some embodiments, the microorganism is a yeast. In some embodiments, the yeast is Saccharomyces, while in some further embodiments, the yeast is S. cerevisiae. In some embodiments, the methods further comprise the step of recovering the fermentation end product.

[0033] The present invention also provides methods for producing at least one fermentable sugar from a feedstock, comprising contacting the feedstock with the recombinant organism provided herein and/or the recombinant host cell provided herein, wherein the recombinant organism and/or recombinant host cell comprise at least one xylanase, xylosidase, xylanase fragment and/or xylosidase fragment, and wherein the contact occurs under culture conditions whereby fermentable sugars are produced. In some embodiments, the recombinant organism and/or recombinant host cell further comprises at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), Type 2 cellobiohydrolases (CBH2), and/or GH61 enzymes. In some embodiments, at least one enzyme is a recombinant enzyme. In some further embodiments, at least one enzyme is a heterologous enzyme. In some additional embodiments, the methods further comprise pretreating the feedstock prior to said contacting. In some embodiments, the feedstock is a cellulosic and/or lignocellulosic feedstock. In some further embodiments, the feedstock comprises wheat grass, wheat straw, barley straw, sorghum, rice grass, sugarcane, sugar beet, bagasse, switchgrass, corn stover, corn fiber, grains, or a combination thereof. In some embodiments, the fermentable sugar comprises glucose and/or xylose. In some further embodiments, the methods further comprise the step of recovering at least one fermentable sugar. In some additional embodiments, the methods further comprise the step of contacting at least one fermentable sugar with a microorganism under conditions such that said microorganism produces at least one fermentation end product. In some embodiments, the fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams. In some additional embodiments, the fermentation product is an alcohol selected from ethanol and butanol. In some embodiments, the alcohol is ethanol. In some embodiments, the microorganism is a yeast. In some embodiments, the yeast is Saccharomyces, while in some further embodiments, the yeast is S. cerevisiae. In some embodiments, the methods further comprise the step of recovering the fermentation end product.

[0034] The present invention also provides methods of producing a fermentation end product from a feedstock, comprising: a) obtaining at least one fermentable sugar produced according to any of the methods provided herein, and b) contacting the fermentable sugar with a microorganism in a fermentation to produce at least one fermentation end product. In some embodiments, the fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams. In some embodiments, the alcohol is ethanol. In some embodiments, the microorganism is a yeast. In some embodiments, the yeast is Saccharomyces, while in some further embodiments, the yeast is S. cerevisiae. In some embodiments, the methods further comprise the step of recovering the fermentation end product.

[0035] The present invention also provides the following further Embodiments:

[0036] 1. A recombinant organism comprising a xylanase and/or beta-xylosidase and/or biologically active xylanase and/or beta-xylosidase fragment comprising (a) an amino acid sequence comprising at least about 70%, at least about 75%, at least about 80%, at least about 81%, at least 82%, at least about 83%, at least about 84%, at least about 85%, at least about 86%, at least about 87%, at least about 88%, at least about 89%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, or at least about 99% sequence identity to a SEQ ID NO:2, 3, 5, 6, 8 and/or 9.

[0037] 2. The isolated xylanase and/or beta-xylosidase or biologically active xylanase and/or beta-xylosidase fragment of Embodiment 1, wherein said xylanase and/or beta-xylosidase is a Myceliophthora thermophila xylanase and/or beta-xylosidase.

[0038] 3. An enzyme composition comprising the xylanase and/or beta-xylosidase of Embodiment 1 or 2.

[0039] 4. The enzyme composition of Embodiment 3, further comprising at least one additional enzyme.

[0040] 5. The enzyme composition of Embodiment 3 and/or 4, further comprising one or more enzymes selected from cellulases, hemicellulases, xylanases, amylases, glucoamylases, proteases, esterases, and lipases.

[0041] 6. The enzyme composition of Embodiment 3, 4, and/or 5, further comprising one or more enzyme(s) selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), and/or Type 2 cellobiohydrolases (CBH2).

[0042] 7. A recombinant fungal organism comprising at least one polynucleotide comprising at least one nucleic acid sequence encoding the xylanase and/or beta-xylosidase of Embodiment 1 and/or 2, or a polynucleotide that hybridizes under stringent hybridization conditions to the polynucleotide and/or a complement of a polynucleotide that encodes a polypeptide comprising the amino acid sequence provided in Embodiment 1 and/or 2.

[0043] 8. The polynucleotide of Embodiment 7, wherein said polynucleotide comprises a sequence that has least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identity to SEQ ID NOS:1, 4 and/or 7.

[0044] 9. A recombinant nucleic acid construct comprising at least one polynucleotide sequence, wherein the polynucleotide is selected from: (a) a polynucleotide that encodes a polypeptide comprising an amino acid sequence comprising at least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identity to SEQ ID NOS:2, 3, 5, 6, 8 and/or 9; (b) a polynucleotide that hybridizes under stringent hybridization conditions to at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NOS:2, 3, 5, 6, 8, and/or 9; and/or (c) a polynucleotide that hybridizes under stringent hybridization conditions to the complement of at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NOS:2, 3, 5, 6, 8, and/or 9.

[0045] 10. The recombinant nucleic acid construct of Embodiment 9, wherein the polynucleotide sequence is at least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identical to SEQ ID NOS:1, 4, and/or 7.

[0046] 11. The nucleic acid construct of Embodiment 8 and/or 9, wherein the polynucleotide sequence is operably linked to a promoter.

[0047] 12. The nucleic acid construct of Embodiment 11, wherein said promoter is a heterologous promoter.

[0048] 13. The nucleic acid construct of any of Embodiments 8-12, wherein said nucleic acid sequence is operably linked to at least one additional regulatory sequence.

[0049] 14. A recombinant host cell that expresses at least one polynucleotide sequence encoding at least one xylanase and/or beta-xylosidase of Embodiment 1 and/or 2.

[0050] 15. The recombinant host cell of Embodiment 14, wherein said host cell comprises at least one nucleic acid construct as provided in any of Embodiments 9-13.

[0051] 16. The recombinant host cell of Embodiment 14 or 15, wherein said host cell comprises the polypeptide sequence set forth in SEQ ID NOS:2, 3, 5, 6, 8, and/or 9.

[0052] 17. The recombinant host cell of any of Embodiments 14-16, wherein said host cell comprises the polynucleotide sequence set forth in SEQ ID NOS:1, 4, and/or 7.

[0053] 18. The recombinant host cell of any of Embodiments 14-17, wherein at least one xylanase and/or beta-xylosidase is expressed by said cell.

[0054] 19. The recombinant host cell of Embodiment 18, wherein the expressed xylanase and/or beta-xylosidase is secreted from the host cell.

[0055] 20. The recombinant host cell of any of Embodiments 14-19, wherein said host cell further produces at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), Type 2 cellobiohydrolases (CBH2), and GH61s.

[0056] 21. The recombinant host cell of any of Embodiments 14-20, wherein said cell produces at least two recombinant cellulases.

[0057] 22. The recombinant cell of any of Embodiments 14-21, wherein said cell produces at least three, at least four or at least five recombinant cellulases.

[0058] 23. The recombinant cell of any of Embodiments 14-22, wherein said cell is a prokaryotic or eukaryotic cell.

[0059] 24. The recombinant cell of Embodiment 23, wherein said cell is a yeast cell or filamentous fungal cell.

[0060] 25. The recombinant host cell of Embodiment 23 or 24, wherein the filamentous fungal cell is a Myceliophthora, a Thielavia, a Trichoderma, or an Aspergillus cell.

[0061] 26. The recombinant cell of any of Embodiments 14-24, wherein said cell is selected from Saccharomyces and Myceliophthora.

[0062] 27. The recombinant host cell of Embodiment 26, wherein the filamentous fungal cell is a Myceliophthora thermophila.

[0063] 28. The recombinant host cell of Embodiment 26, wherein the yeast cell is Saccharomyces cerevisiae.

[0064] 29. A method for producing at least one fermentable sugar from a feedstock, comprising contacting the feedstock with the enzyme composition according to any of Embodiments 3 to 6, under culture conditions whereby fermentable sugars are produced.

[0065] 30. The method of Embodiment 29, wherein the enzyme composition comprises at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), and Type 2 cellobiohydrolases (CBH2).

[0066] 31. The method of Embodiment 29, wherein said at least one enzyme is a recombinant enzyme.

[0067] 32. The method of any of Embodiments 29-31, further comprising pretreating the feedstock prior to said contacting.

[0068] 33. The method of any of Embodiments 29 to 32, wherein the feedstock comprises wheat grass, wheat straw, barley straw, sorghum, rice grass, sugarcane, sugar beet, bagasse, switchgrass, corn stover, corn fiber, grains, or a combination thereof.

[0069] 34. The method of any of Embodiments 29 to 33, wherein the fermentable sugar comprises glucose and/or xylose.

[0070] 35. The method of any of Embodiments 29 to 34, further comprising recovering at least one fermentable sugar.

[0071] 36. The method of any of Embodiments 29 to 35, further comprising contacting the at least one fermentable sugar with a microorganism under conditions such that said microorganism produces at least one fermentation end product.

[0072] 37. The method of Embodiment 36, wherein said fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams.

[0073] 38. The method of Embodiment 37, wherein said fermentation product is an alcohol selected from ethanol and butanol.

[0074] 39. The method of Embodiment 38, wherein said alcohol is ethanol.

[0075] 40. The method of any of Embodiments 29-39, wherein the feedstock is a cellulosic and/or lignocellulosic feedstock.

[0076] 41. A method of producing an end product from a feedstock, comprising: a) contacting the feedstock with at least one enzyme composition according to any of Embodiments 3 to 6, under conditions whereby at least one fermentable sugar is produced from the substrate; and b) contacting the fermentable sugar with a microorganism under conditions such that the microorganism uses the fermentable sugar to produce an end-product.

[0077] 42. The method of Embodiment 41, wherein the method comprises a simultaneous saccharification and fermentation reactions (SSF).

[0078] 43. The method of Embodiment 41, wherein the method comprises separate saccharification and fermentation reactions (SHF).

[0079] 44. The method of any of Embodiments 41 to 43, wherein the feedstock is a cellulosic and/or lignocellulosic feedstock.

[0080] 45. A method of producing a fermentation end product from a feedstock, comprising: a) obtaining at least one fermentable sugar produced according to the method of any of Embodiments 29 to 44; and b) contacting the fermentable sugar with a microorganism in a fermentation to produce at least one fermentation end product.

[0081] 46. The method of Embodiment 45, wherein said fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams.

[0082] 47. The method of Embodiment 45 and/or 46, wherein said fermentation end product is at least one alcohol selected from ethanol and butanol.

[0083] 48. The method of any of Embodiments 45 to 47, wherein the microorganism is a yeast.

[0084] 49. The method of any of Embodiments 45 to 48, further comprising recovering the fermentation end product.

[0085] 50. A method for producing at least one fermentable sugar from a feedstock, comprising contacting the feedstock with the recombinant organism of Embodiment 1 and/or the recombinant host cell set forth in any of Embodiments 14 to 28, under culture conditions whereby fermentable sugars are produced.

[0086] 51. The method of Embodiment 50, wherein the recombinant organism and/or recombinant host cell further comprises at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), and Type 2 cellobiohydrolases (CBH2).

[0087] 52. The method of Embodiment 51, wherein said at least one enzyme is a recombinant enzyme.

[0088] 53. The method of Embodiment 51 and/or 52, wherein said at least one enzyme is a heterologous enzyme.

[0089] 54. The method of any of Embodiments 50-53, further comprising pretreating the feedstock prior to said contacting.

[0090] 55. The method of any of Embodiments 50 to 54, wherein the feedstock comprises wheat grass, wheat straw, barley straw, sorghum, rice grass, sugarcane, sugar beet, bagasse, switchgrass, corn stover, corn fiber, grains, or a combination thereof.

[0091] 56. The method of any of Embodiments 50 to 55, wherein the fermentable sugar comprises glucose and/or xylose.

[0092] 57. The method of any of Embodiments 50 to 56, further comprising recovering at least one fermentable sugar.

[0093] 58. The method of any of Embodiments 50 to 57, further comprising contacting the at least one fermentable sugar with a microorganism under conditions such that said microorganism produces at least one fermentation end product.

[0094] 59. The method of Embodiment 58, wherein said fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams.

[0095] 60. The method of Embodiment 59, wherein said fermentation product is an alcohol selected from ethanol and butanol.

[0096] 61. The method of Embodiment 60, wherein said alcohol is ethanol.

[0097] 62. The method of any of Embodiments 50-61, wherein the feedstock is a cellulosic and/or lignocellulosic feedstock.

[0098] 63. A method of producing an end product from a feedstock, comprising: a) contacting the feedstock with the recombinant organism of Embodiment 1 and/or the recombinant host cell set forth in any of Embodiments 14 to 28, under conditions whereby at least one fermentable sugar is produced from the substrate; and b) contacting the fermentable sugar with a microorganism under conditions such that the microorganism uses the fermentable sugar to produce an end-product.

[0099] 64. The method of Embodiment 63, wherein the recombinant organism and/or recombinant host cell further comprises at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), and Type 2 cellobiohydrolases (CBH2).

[0100] 65. The method of Embodiment 64, wherein said at least one enzyme is a recombinant enzyme.

[0101] 66. The method of Embodiment 63 and/or 64, wherein said at least one enzyme is a heterologous enzyme.

[0102] 67. The method of any of Embodiment 63-66, wherein the method comprises a simultaneous saccharification and fermentation reactions (SSF).

[0103] 68. The method of any of Embodiments 63-66, wherein the method comprises separate saccharification and fermentation reactions (SHF).

[0104] 69. The method of any of Embodiments 63 to 68, wherein the feedstock is a cellulosic and/or lignocellulosic feedstock.

[0105] 70. A method of producing a fermentation end product from a feedstock, comprising: a) obtaining at least one fermentable sugar produced according to the method of any of Embodiments 63-69; and b) contacting the fermentable sugar with a microorganism in a fermentation to produce at least one fermentation end product.

[0106] 71. The method of Embodiment 70, wherein said fermentation end product is selected from alcohols, fatty acids, lactic acid, acetic acid, 3-hydroxypropionic acid, acrylic acid, succinic acid, citric acid, malic acid, fumaric acid, succinic acid, amino acids, 1,3-propanediol, ethylene, glycerol, and β-lactams.

[0107] 72. The method of Embodiment 70 and/or 71, wherein said fermentation end product is at least one alcohol selected from ethanol and butanol.

[0108] 73. The method of any of Embodiments 70 to 72, wherein the microorganism is a yeast.

[0109] 74. The method of any of Embodiments 70-73, further comprising recovering the fermentation end product.

DESCRIPTION OF THE DRAWINGS

[0110] FIG. 1 provides the maps of the constructs used to transform M. thermophila with the xylanase (Xyl5) and beta-xylosidases (BXyl7 and BXyl8) provided herein.

[0111] FIG. 2 provides the map of the construct used to transform S. cerevisiae with BXyl8.

[0112] FIG. 3 provides a graph showing that increasing the concentration of BXyl7 or BXyl8 results in increased cleavage of PNP-X.

[0113] FIG. 4 provides a graph showing that increasing the concentration of Xyl5 leads to greater cleavage of birchwood xylan.

[0114] FIG. 5 provides a graph showing that BXyl7 and BXyl8 increase conversion of xylobiose to xylose in a saccharification reaction.

[0115] FIG. 6 provides a graph showing that broth containing Xyl5 increases the level of xylobiose and xylose production in saccharification reactions, as compared to control broth.

[0116] FIG. 7 provides a graph showing the temperature/pH activity profiles of BXyl8 after 1 hour incubation at 40-60° C., at pH 5, 5.5, and 6.

[0117] FIG. 8 provides a graph showing the temperature/pH activity profiles of BXyl7 after 1 hour incubation at 40-60° C., at pH 5, 5.5, and 6.

[0118] FIG. 9 provides a graph showing the temperature/pH activity profiles of BXyl8 after 17 hours incubation at 40-60° C., at pH 6, 5.5, 5.3, and 5.0.

[0119] FIG. 10 provides a graph showing the activity of xylanase and beta-xylosidases produced by transformed M. thermophila strains in saccharification reactions, as measured by HPLC and as compared to untransformed controls.

DESCRIPTION OF THE INVENTION

[0120] The present invention provides xylanase and xylosidase enzymes suitable for use in saccharification reactions. The present application further provides genetically modified fungal organisms that produce xylanase(s) and/or xylosidase(s), as well as enzyme mixtures exhibiting enhanced hydrolysis of cellulosic material to fermentable sugars, enzyme mixtures produced by the genetically modified fungal organisms, and methods for producing fermentable sugars from cellulose using such enzyme mixtures. The present application further provides genetically modified fungal organisms that produce xylanase and xylosidases, as well as enzyme mixtures exhibiting enhanced hydrolysis of cellulosic material to fermentable sugars, enzyme mixtures produced by the genetically modified fungal organisms, and methods for producing fermentable sugars from cellulose using such enzyme mixtures. In some embodiments, the xylanase and xylosidase is obtained from Myceliophthora thermophila.

[0121] All patents and publications, including all sequences disclosed within such patents and publications, referred to herein are expressly incorporated by reference. Unless otherwise indicated, the practice of the present invention involves conventional techniques commonly used in molecular biology, fermentation, microbiology, and related fields, which are known to those of skill in the art. Unless defined otherwise herein, all technical and scientific terms used herein have the same meaning as commonly understood by one of ordinary skill in the art to which this invention belongs. Although any methods and materials similar or equivalent to those described herein can be used in the practice or testing of the present invention, the some methods and materials are described herein. Indeed, it is intended that the present invention not be limited to the particular methodology, protocols, and reagents described herein, as these may vary, depending upon the context in which they are used. The headings provided herein are not limitations of the various aspects or embodiments of the present invention.

[0122] Nonetheless, in order to facilitate understanding of the present invention, a number of terms are defined below. Numeric ranges are inclusive of the numbers defining the range. Thus, every numerical range disclosed herein is intended to encompass every narrower numerical range that falls within such broader numerical range, as if such narrower numerical ranges were all expressly written herein. It is also intended that every maximum (or minimum) numerical limitation disclosed herein includes every lower (or higher) numerical limitation, as if such lower (or higher) numerical limitations were expressly written herein.

[0123] As used herein, the term "comprising" and its cognates are used in their inclusive sense (i.e., equivalent to the term "including" and its corresponding cognates).

[0124] As used herein and in the appended claims, the singular "a", "an" and "the" include the plural reference unless the context clearly dictates otherwise. Thus, for example, reference to a "host cell" includes a plurality of such host cells.

[0125] Unless otherwise indicated, nucleic acids are written left to right in 5' to 3' orientation; amino acid sequences are written left to right in amino to carboxy orientation, respectively. The headings provided herein are not limitations of the various aspects or embodiments of the invention that can be had by reference to the specification as a whole. Accordingly, the terms defined below are more fully defined by reference to the specification as a whole.

[0126] As used herein, the term "cellulase" refers to any enzyme that is capable of degrading cellulose. Thus, the term encompasses enzymes capable of hydrolyzing cellulose (β-1,4-glucan or β-D-glucosidic linkages) to shorter cellulose chains, oligosaccharides, cellobiose and/or glucose. "Cellulases" are divided into three sub-categories of enzymes: 1,4-β-D-glucan glucanohydrolase ("endoglucanase" or "EG"); 1,4-β-D-glucan cellobiohydrolase ("exoglucanase," "cellobiohydrolase," or "CBH"); and β-D-glucoside-glucohydrolase ("β-glucosidase," "cellobiase," "BG," or "BGL"). These enzymes act in concert to catalyze the hydrolysis of cellulose-containing substrates. Endoglucanases break internal bonds and disrupt the crystalline structure of cellulose, exposing individual cellulose polysaccharide chains ("glucans"). Cellobiohydrolases incrementally shorten the glucan molecules, releasing mainly cellobiose units (a water-soluble β-1,4-linked dimer of glucose) as well as glucose, cellotriose, and cellotetrose. β-glucosidases split the cellobiose into glucose monomers.

[0127] As used herein, the term "xylanase" refers to enzymes within EC 3.2.1.8, that catalyze the hydrolysis of 1,4-beta-D-xylans, to cleave polymers or oligomers of xylose-containing xylans or hemicellulose into shorter chains. This enzyme may also be referred to as endo-1,4-beta-xylanase, 4-beta-D-xylan xylanohydrolase, endo-xylanase, or beta-xylanase.

[0128] As used herein, the term "xylanase polynucleotide" refers to a polynucleotide encoding a polypeptide comprising beta-xylanase activity.

[0129] As used herein, the term "xylanase activity" refers to the enzymatic activity of xylanase (i.e., hydrolyzing a cellulose-containing substrate).

[0130] As used herein, the terms "wild-type xylanase polynucleotide," "wild-type xylanase DNA," and "wild-type xylanase nucleic acid" refer to SEQ ID NO:1 of Xyl5, expressed by a naturally occurring Myceliophthora thermophila strain. This is sequence encoding the pre-mature peptide (i.e., containing the signal peptide).

[0131] As used herein, the term "xylosidase" refers to a group of enzymes that catalyze the hydrolysis of alpha- or beta-xylosidic linkages. Enzymes in class EC 3.2.1.8 catalyze the endo-hydrolysis of 1,4-beta-D-xylosidic linkages; while those in class EC 3.2.1.32 catalyze the endo-hydrolysis of 1,3-beta-D-xylosidic linkages; those in class EC 3.2.1.37 catalyze the exo-hydrolysis of 1,4-beta-D-linkages from the non-reducing termini of xylans; and those in class EC 3.2.1.72 catalyze the exo-hydrolysis of 1,3-beta-D-linkages from the non-reducing termini of xylans. Additional xylosidases have been identified that catalyze the hydrolysis of alpha-xylosidic bonds. As used herein, the term encompasses alpha-xylosidases and beta-xylosidases, as well as any other enzymes that have xylosidase activity (e.g., gamma-xylosidases).

[0132] As used herein the term "xylosidase polynucleotide" refers to a polynucleotide encoding a polypeptide comprising xylosidase activity.

[0133] As used herein, the term "xylosidase activity" refers to the enzymatic activity of xylosidase (i.e., hydrolyzing a cellulose-containing substrate).

[0134] As used herein, the term "alpha-xylosidase" refers to enzymes within EC 3.2.1 that remove the alpha-1,6-linked xylose residue from xyloglucan. In some embodiments, the removal of the alpha-1,6-linked xylose residue from xyloglucan facilitates the breakdown of xyloglucan to monomeric sugars (e.g., glucose and xylose).

[0135] As used herein the term "alpha-xylosidase polynucleotide" refers to a polynucleotide encoding a polypeptide comprising alpha-xylosidase activity.

[0136] As used herein, the term "alpha-xylosidase activity" refers to the enzymatic activity of alpha-xylosidase (i.e., removing the alpha-1,6-linked xylose residues from xyloglucan).

[0137] As used herein, the term "beta-xylosidase" refers to enzymes within EC 3.2.1.37, that catalyze the hydrolysis of 1,4-beta-D-xylans, to remove successive D-xylose residues from the non-reducing termini. This enzyme may also be referred to as xylan 1, beta-β-xylosidase, 1,4-beta-D-xylan xylohydrolase, exo-1,4-beta-xylosidase or xylobiase.

[0138] As used herein, the term "beta-xylosidase polynucleotide" refers to a polynucleotide encoding a polypeptide comprising beta-xylosidase activity.

[0139] As used herein, the term "beta-xylosidase activity" refers to the enzymatic activity of beta-xylosidase (i.e., hydrolyzing a cellulose-containing substrate).

[0140] As used herein, in some embodiments, the terms "wild-type beta-xylosidase polynucleotide," "wild-type beta-xylosidase DNA," and "wild-type beta-xylosidase nucleic acid" refer to SEQ ID NO:4, 7, and/or SEQ ID NO:10; these sequences encode the pre-mature peptide sequences (i.e., containing a signal peptide) of BXyl7 (also referred to herein and in the Figures as "b-xyl7"), and BXyl8 (also referred to herein and in the Figures as "b-xyl8"), respectively expressed by a naturally occurring Myceliophthora thermophila strain.

[0141] As used herein, the terms "endoglucanase" and "EG" refer to a category of cellulases (EC 3.2.1.4) that catalyze the hydrolysis of internal β-1,4 glucosidic bonds of cellulose.

[0142] As used herein, the term "xylosidase polypeptide" refers to a polypeptide comprising xylosidase activity. In some embodiments, the xylosidase is a "C1 xylosidase" derived from a strain C1 of M. thermophila.

[0143] As used herein, the term "alpha-xylosidase polypeptide" refers to a polypeptide comprising alpha-xylosidase activity. In some embodiments, the alpha-xylosidase is a "C1 alpha-xylosidase" derived from a strain C1 of M. thermophila (e.g., AXyl267 and AXyl6158).

[0144] As used herein, the term "beta-xylosidase polypeptide" refers to a polypeptide comprising beta-xylosidase activity. In some embodiments, the beta-xylosidase is a "C1 beta-xylosidase" derived from a strain C1 of M. thermophila (e.g., BXyl7 and BXyl8).

[0145] As used herein, the terms "enzyme variant" and "variant enzyme" are used in reference to enzymes that are similar to a reference enzyme, particularly in their function, but have mutations in their amino acid sequence that make them different in sequence from the wild-type or another reference enzyme. Enzyme variants can be made by a wide variety of different mutagenesis techniques well known to those skilled in the art. In addition, mutagenesis kits are also available from many commercial molecular biology suppliers. Methods are available to make specific substitutions at defined amino acids (site-directed), specific or random mutations in a localized region of the gene (regio-specific) or random mutagenesis over the entire gene (e.g., saturation mutagenesis). Numerous suitable methods are known to those in the art to generate enzyme variants, including but not limited to site-directed mutagenesis of single-stranded DNA or double-stranded DNA using PCR, cassette mutagenesis, gene synthesis, error-prone PCR, shuffling, and chemical saturation mutagenesis, or any other suitable method known in the art. After the variants are produced, they can be screened for the desired property (e.g., high or increased; or low or reduced activity, increased thermal and/or alkaline stability, etc.).

[0146] As used herein, "combinatorial variant" refers to any variant that has a combination of two or more mutations (e.g., substitutions). In some embodiments, the combination of mutations results in changes in enzyme activity (e.g., improved thermostability, improved thermoactivity, improved specific activity, etc.).

[0147] The terms "improved" or "improved properties," as used herein in the context of describing the properties of a xylanase and/or xylosidase, refers to a xylanase and/or xylosidase polypeptide that exhibits an improvement in a property or properties as compared to another xylanase, xylosidase and/or a specified reference polypeptide. Improved properties include, but are not limited to such properties as increased protein expression, increased thermoactivity, increased thermostability, increased pH activity, increased stability (e.g., increased pH stability), increased product specificity, increased specific activity, increased substrate specificity, increased resistance to substrate or end-product inhibition, increased chemical stability, reduced inhibition by glucose, increased resistance to inhibitors (e.g., acetic acid, lectins, tannic acids, and phenolic compounds), and altered pH/temperature profile.

[0148] As used herein, the phrase "improved thermoactivity" or "increased thermoactivity" refers to an enzyme displaying an increase, relative to a reference enzyme, in the amount of xylanase or xylosidase enzymatic activity (e.g., substrate hydrolysis) in a specified time under specified reaction conditions, for example, elevated temperature. Exemplary methods for measuring xylanase and xylosidase activity are provided in the Examples herein. In addition, cells expressing and secreting the recombinant proteins can be cultured under the same conditions and the xylanase or xylosidase activity per volume culture medium can be compared.

[0149] As used herein, the term "improved thermostability" or "increased thermostability" refers to an enzyme displaying an increase in "residual activity" relative to a reference enzyme. Residual activity is determined by (1) exposing the test enzyme or reference enzyme to stress conditions of elevated temperature, optionally at lowered pH, for a period of time and then determining xylanase or xylosidase activity; (2) exposing the test enzyme or reference enzyme to unstressed conditions for the same period of time and then determining xylanase or xylosidase activity; and (3) calculating residual activity as the ratio of activity obtained under stress conditions (1) over the activity obtained under unstressed conditions (2). For example, the xylanase or xylosidase activity of the enzyme exposed to stress conditions ("a") is compared to that of a control in which the enzyme is not exposed to the stress conditions ("b"), and residual activity is equal to the ratio a/b. An enzyme with increased thermostability will have greater residual activity than the reference enzyme. In some embodiments, the enzymes are exposed to stress conditions of 55° C. at pH 5.0 for 1 hr, but other cultivation conditions, such as conditions described herein, can be used. Exemplary methods for measuring residual xylosidase activity are provided in the Examples herein.

[0150] As used herein, "EG1" refers to a carbohydrate active enzyme expressed from a nucleic acid sequence coding for a glycohydrolase (GH) Family 7 catalytic domain classified under EC 3.2.1.4 or any protein, polypeptide or catalytically active fragment thereof. In some embodiments, the EG1 is functionally linked to a carbohydrate binding module (CBM), such as a Family 1 cellulose binding domain. As used herein, the term "EG1b polypeptide" refers to a polypeptide comprising EG1b activity.

[0151] As used herein, the term "EG2" refers to a carbohydrate active enzyme expressed from a nucleic acid sequence coding for a glycohydrolase (GH) Family 5 catalytic domain classified under EC 3.2.1.4 or any protein, polypeptide or catalytically active fragment thereof. In some embodiments, the EG2 is functionally linked to a carbohydrate binding module (CBM), such as a Family 1 cellulose binding domain.

[0152] As used herein, the term "EG3" refers to a carbohydrate active enzyme expressed from a nucleic acid sequence coding for a glycohydrolase (GH) Family 12 catalytic domain classified under EC 3.2.1.4 or any protein, polypeptide or catalytically active fragment thereof. In some embodiments, the EG3 is functionally linked to a carbohydrate binding module (CBM), such as a Family 1 cellulose binding domain.

[0153] As used herein, the term "EG4" refers to a carbohydrate active enzyme expressed from a nucleic acid sequence coding for a glycohydrolase (GH) Family 61 catalytic domain classified under EC 3.2.1.4 or any protein, polypeptide or fragment thereof. In some embodiments, the EG4 is functionally linked to a carbohydrate binding module (CBM), such as a Family 1 cellulose binding domain.

[0154] As used herein, the term "EG5" refers to a carbohydrate active enzyme expressed from a nucleic acid sequence coding for a glycohydrolase (GH) Family 45 catalytic domain classified under EC 3.2.1.4 or any protein, polypeptide or fragment thereof. In some embodiments, the EG5 is functionally linked to a carbohydrate binding module (CBM), such as a Family 1 cellulose binding domain.

[0155] As used herein, the term "EG6" refers to a carbohydrate active enzyme expressed from a nucleic acid sequence coding for a glycohydrolase (GH) Family 6 catalytic domain classified under EC 3.2.1.4 or any protein, polypeptide or fragment thereof. In some embodiments, the EG6 is functionally linked to a carbohydrate binding module (CBM), such as a Family 1 cellulose binding domain.

[0156] As used herein, the terms "cellobiohydrolase" and "CBH" refer to a category of cellulases (EC 3.2.1.91) that hydrolyze glycosidic bonds in cellulose.

[0157] As used herein, the terms "CBH1" and "type 1 cellobiohydrolase" refer to a carbohydrate active enzyme expressed from a nucleic acid sequence coding for a glycohydrolase (GH) Family 7 catalytic domain classified under EC 3.2.1.91 or any protein, polypeptide or catalytically active fragment thereof. In some embodiments, the CBH1 is functionally linked to a carbohydrate binding module (CBM), such as a Family 1 cellulose binding domain.

[0158] As used herein, the terms "CBH2" and "type 2 cellobiohydrolase" refer to a carbohydrate active enzyme expressed from a nucleic sequence coding for a glycohydrolase (GH) Family 6 catalytic domain classified under EC 3.2.1.91 or any protein, polypeptide or catalytically active fragment thereof. Type 2 cellobiohydrolases are also commonly referred to as "the Ce16 family." The CBH2 may be functionally linked to a carbohydrate binding module (CBM), such as a Family 1 cellulose binding domain.

[0159] As used herein, the terms "β-glucosidase," "cellobiase," and "BGL" refers to a category of cellulases (EC 3.2.1.21) that catalyze the hydrolysis of cellobiose to glucose.

[0160] As used herein, the term "glycoside hydrolase 61" and "GH61" refers to a category of cellulases that enhance cellulose hydrolysis when used in conjunction with one or more additional cellulases. The GH61 family of cellulases is described, for example, in the Carbohydrate Active Enzymes (CAZY) database (See e.g., Harris et al., Biochem., 49(15):3305-16

[2010]).

[0161] A "hemicellulase" as used herein, refers to a polypeptide that can catalyze hydrolysis of hemicellulose into small polysaccharides such as oligosaccharides, or monomeric saccharides. Hemicelluloses include xylan, glucuonoxylan, arabinoxylan, glucomannan and xyloglucan. In some embodiments, hemicelluloses constitute major fractions of plant cell walls, including xyloglucan, glucuronarabinoxylan, mannan, galactan, arabinan, mixed-linked glucan, and/or glucuronarabinoyxlan. In some embodiments, the major hemicellulose in the primary walls of herbaceous dicotyledons is xyloglucan, comprising a backbone of beta-1,4-glucose substituted with an alpha-1,6-linked xylose, beta-linked galactose, and in some embodiments, alpha-linked fucose. In some embodiments, alpha-linked xylose is a major component of xyloglucans in the cell walls of higher plants that find use as feedstock in the methods of the present invention. Hemicellulases include, for example, the following: endoxylanases, b-xylosidases, α-L-arabinofuranosidases, α-D-glucuronidases, feruloyl esterases, coumaroyl esterases, a-galactosidases, b-galactosidases, b-mannanases, and b-mannosidases. In some embodiments, the present invention provides enzyme mixtures that comprise at least one xylanase and/or at least one xylosidase and one or more hemicellulases.

[0162] As used herein, "protease" includes enzymes that hydrolyze peptide bonds (peptidases), as well as enzymes that hydrolyze bonds between peptides and other moieties, such as sugars (glycopeptidases). Many proteases are characterized under EC 3.4, and are suitable for use in the present invention. Some specific types of proteases include but are not limited to, cysteine proteases including pepsin, papain and serine proteases including chymotrypsins, carboxypeptidases and metalloendopeptidases.

[0163] As used herein, "lipase" includes enzymes that hydrolyze lipids, fatty acids, and acylglycerides, including phosphoglycerides, lipoproteins, diacylglycerols, and the like. In plants, lipids are used as structural components to limit water loss and pathogen infection. These lipids include waxes derived from fatty acids, as well as cutin and suberin.

[0164] As used herein, the terms "isolated" and "purified" are used to refer to a molecule (e.g., an isolated nucleic acid, polypeptide, etc.) or other component that is removed from at least one other component with which it is naturally associated.

[0165] As used herein, "polynucleotide" refers to a polymer of deoxyribonucleotides or ribonucleotides in either single- or double-stranded form, and complements thereof.

[0166] The terms "protein" and "polypeptide" are used interchangeably herein to refer to a polymer of amino acid residues.

[0167] The term "xylosidase polynucleotide" refers to a polynucleotide that encodes a xylosidase polypeptide.

[0168] In addition, the terms "amino acid" "polypeptide," and "peptide" encompass naturally-occurring and synthetic amino acids, as well as amino acid analogs. Naturally occurring amino acids are those encoded by the genetic code, as well as those amino acids that are later modified (e.g., hydroxyproline, γ-carboxyglutamate, and O-phosphoserine). As used herein, the term "amino acid analogs" refers to compounds that have the same basic chemical structure as a naturally occurring amino acid (i.e., an α-carbon that is bound to a hydrogen, a carboxyl group, an amino group, and an R group, including but not limited to homoserine, norleucine, methionine sulfoxide, and methionine methyl sulfonium). In some embodiments, these analogs have modified R groups (e.g., norleucine) and/or modified peptide backbones, but retain the same basic chemical structure as a naturally occurring amino acid.

[0169] Amino acids are referred to herein by either their commonly known three letter symbols or by the one-letter symbols recommended by the IUPAC-IUB Biochemical Nomenclature Commission. Nucleotides, likewise, may be referred to by their commonly accepted single-letter codes.

[0170] An amino acid or nucleotide base "position" is denoted by a number that sequentially identifies each amino acid (or nucleotide base) in the reference sequence based on its position relative to the N-terminus (or 5'-end). Due to deletions, insertions, truncations, fusions, and the like that must be taken into account when determining an optimal alignment, the amino acid residue number in a test sequence determined by simply counting from the N-terminus will not necessarily be the same as the number of its corresponding position in the reference sequence. For example, in a case where a test sequence has a deletion relative to an aligned reference sequence, there will be no amino acid in the variant that corresponds to a position in the reference sequence at the site of deletion. Where there is an insertion in an aligned test sequence, that insertion will not correspond to a numbered amino acid position in the reference sequence. In the case of truncations or fusions there can be stretches of amino acids in either the reference or aligned sequence that do not correspond to any amino acid in the corresponding sequence.

[0171] As used herein, the terms "numbered with reference to" or "corresponding to," when used in the context of the numbering of a given amino acid or polynucleotide sequence, refers to the numbering of the residues of a specified reference sequence when the given amino acid or polynucleotide sequence is compared to the reference sequence. The following nomenclature may be used to describe substitutions in a test sequence relative to a reference sequence polypeptide or nucleic acid sequence: "R-#-V," where # refers to the position in the reference sequence, R refers to the amino acid (or base) at that position in the reference sequence, and V refers to the amino acid (or base) at that position in the test sequence. In some embodiments, an amino acid (or base) may be called "X," by which is meant any amino acid (or base).

[0172] As used herein, the term "reference enzyme" refers to an enzyme to which another enzyme of the present invention (e.g., a "test" enzyme, such as a xylanase or xylosidase) is compared in order to determine the presence of an improved property in the other enzyme being evaluated. In some embodiments, a reference enzyme is a wild-type enzyme (e.g., a wild-type xylanase or xylosidase). In some embodiments, the reference enzyme is an enzyme to which a test enzyme of the present invention is compared in order to determine the presence of an improved property in the test enzyme being evaluated, including but not limited to improved thermoactivity, improved thermostability, and/or improved stability. In some embodiments, a reference enzyme is a wild-type enzyme (e.g., a wild-type xylanase or xylosidase).

[0173] As used herein, the terms "biologically active fragment" and "fragment" refer to a polypeptide that has an amino-terminal and/or carboxy-terminal deletion(s) and/or internal deletion(s), but where the remaining amino acid sequence is identical to the corresponding positions in the sequence to which it is being compared (e.g., a full-length xylanase or xylosidase of the present invention) and that retains substantially all of the activity of the full-length polypeptide. In some embodiments, the biologically active fragment is a biologically active xylanase or xylosidase fragment. A biologically active fragment can comprise about 60%, about 65%, about 70%, about 75%, about 80%, about 85%, at about 90%, about 91%, about 92%, about 93%, about 94%, about 95%, about 96%, about 97%, about 98%, or about 99% of a full-length xylanase or xylosidase polypeptide. In some embodiments, the biologically active fragments comprise about 20%, about 21%, about 22%, about 23%, about 24%, about 25%, about 26%, about 27%, about 28%, about 29%, about 30%, about 35%, about 40%, about 45%, about 50%, or about 55% of a full-length xylosidase (e.g., BXyl8).

[0174] As used herein, the term "overexpress" is intended to encompass increasing the expression of a protein to a level greater than the cell normally produces. It is intended that the term encompass overexpression of endogenous, as well as heterologous proteins.

[0175] As used herein, the term "recombinant" refers to a polynucleotide or polypeptide that does not naturally occur in a host cell. In some embodiments, recombinant molecules contain two or more naturally-occurring sequences that are linked together in a way that does not occur naturally. In some embodiments, "recombinant cells" express genes that are not found in identical form within the native (i.e., non-recombinant) form of the cell and/or express native genes that are otherwise abnormally over-expressed, under-expressed, and/or not expressed at all due to deliberate human intervention. As used herein, "recombinant cells," as well as recombinant host cells," "recombinant microorganisms," and "recombinant fungal cells," contain at least one recombinant polynucleotide or polypeptide.

[0176] As used herein, "recombinant" used in reference to a cell or vector, refers to a cell or vector that has been modified by the introduction of a heterologous nucleic acid sequence or that the cell is derived from a cell so modified. Thus, for example, recombinant cells express genes that are not found in identical form within the native (non-recombinant) form of the cell or express native genes that are otherwise abnormally expressed, under expressed or not expressed at all as a result of deliberate human intervention. Thus, "recombinant" or "engineered" or "non-naturally occurring" when used with reference to a cell, nucleic acid, or polypeptide, refers to a material, or a material corresponding to the natural or native form of the material, that has been modified in a manner that would not otherwise exist in nature, or is identical thereto but produced or derived from synthetic materials and/or by manipulation using recombinant techniques. Non-limiting examples include, among others, recombinant cells expressing genes that are not found within the native (non-recombinant) form of the cell or express native genes that are otherwise expressed at a different level. "Recombination," "recombining" and generating a "recombined" nucleic acid generally encompass the assembly of at least two nucleic acid fragments. In some embodiments, "Recombination," "recombining," and generating a "recombined" nucleic acid also encompass the assembly of two or more nucleic acid fragments wherein the assembly gives rise to a chimeric gene.

[0177] As used herein, when used with reference to a nucleic acid or polypeptide, the term "heterologous" refers to a sequence that is not normally expressed and secreted by an organism (e.g., a wild-type organism). In some embodiments, the term encompasses a sequence that comprises two or more subsequences which are not found in the same relationship to each other as normally found in nature, or is recombinantly engineered so that its level of expression, or physical relationship to other nucleic acids or other molecules in a cell, or structure, is not normally found in nature. For instance, a heterologous nucleic acid is typically recombinantly produced, having two or more sequences from unrelated genes arranged in a manner not found in nature (e.g., a nucleic acid open reading frame (ORF) of the invention operatively linked to a promoter sequence inserted into an expression cassette, such as a vector).

[0178] A nucleic acid construct, nucleic acid (e.g., a polynucleotide), polypeptide, or host cell is referred to herein as "recombinant" when it is non-naturally occurring, artificial or engineered. The present invention also provides recombinant nucleic acid constructs comprising a xylanase and/or xylosidase polynucleotide sequence that hybridizes under stringent hybridization conditions to the complement of a polynucleotide which encodes a polypeptide comprising the amino acid sequence of SEQ ID NO:2, 3, 5, 6, 8 and/or 9.

[0179] Nucleic acids "hybridize" when they associate, typically in solution. Nucleic acids hybridize due to a variety of well-characterized physico-chemical forces, such as hydrogen bonding, solvent exclusion, base stacking and the like. As used herein, the term "stringent hybridization wash conditions" in the context of nucleic acid hybridization experiments, such as Southern and Northern hybridizations, are sequence dependent, and are different under different environmental parameters. An extensive guide to the hybridization of nucleic acids is found in Tijssen, 1993, "Laboratory Techniques in Biochemistry and Molecular Biology-Hybridization with Nucleic Acid Probes," Part I, Chapter 2 (Elsevier, New York), which is incorporated herein by reference. For polynucleotides of at least 100 nucleotides in length, low to very high stringency conditions are defined as follows: prehybridization and hybridization at 42° C. in 5×SSPE, 0.3% SDS, 200 μg/ml sheared and denatured salmon sperm DNA, and either 25% formamide for low stringencies, 35% formamide for medium and medium-high stringencies, or 50% formamide for high and very high stringencies, following standard Southern blotting procedures. For polynucleotides of at least 100 nucleotides in length, the carrier material is finally washed three times each for 15 minutes using 2×SSC, 0.2% SDS 50° C. (low stringency), at 55° C. (medium stringency), at 60° C. (medium-high stringency), at 65° C. (high stringency), or at 70° C. (very high stringency).

[0180] As used herein, "identity" or "percent identity," in the context of two or more polypeptide sequences, refers to two or more sequences or subsequences that are the same or have a specified percentage of amino acid residues that are the same (e.g., share at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 88% identity, at least about 89%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, or at least about 99% identity) over a specified region to a reference sequence, when compared and aligned for maximum correspondence over a comparison window, or designated region as measured using a sequence comparison algorithms or by manual alignment and visual inspection.

[0181] In some embodiments, the terms "percent identity," "% identity", "percent identical," and "% identical," are used interchangeably herein to refer to the percent amino acid or polynucleotide sequence identity that is obtained by ClustalW analysis (version W 1.8 available from European Bioinformatics Institute, Cambridge, UK), counting the number of identical matches in the alignment and dividing such number of identical matches by the length of the reference sequence, and using the following ClustalW parameters to achieve slow/more accurate pairwise optimal alignments--DNA/Protein Gap Open Penalty: 15/10; DNA/Protein Gap Extension Penalty: 6.66/0.1; Protein weight matrix: Gonnet series; DNA weight matrix: Identity.

[0182] As used herein the term "comparison window," includes reference to a segment of any one of a number of contiguous positions from about 20 to about 464 (e.g., about 50 to about 300 contiguous positions, about 50 to 250 contiguous positions, or also about 100 to about 200 contiguous positions), in which a sequence may be compared to a reference sequence of the same number of contiguous positions after the two sequences are optimally aligned. As noted, in some embodiments the comparison is between the entire length of the two sequences, or, if one sequence is a fragment of the other, the entire length of the shorter of the two sequences. Optimal alignment of sequences for comparison and determination of sequence identity can be determined by a sequence comparison algorithm or by visual inspection, as well-known in the art. When optimally aligning sequences and determining sequence identity by visual inspection, percent sequence identity is calculated as the number of residues of the test sequence that are identical to the reference sequence divided by the number of non-gap positions and multiplied by 100. When using a sequence comparison algorithm, test and reference sequences are entered into a computer, subsequence coordinates and sequence algorithm program parameters are designated. The sequence comparison algorithm then calculates the percent sequence identities for the test sequences relative to the reference sequence, based on the program parameters.

[0183] Two sequences are "aligned" when they are aligned for similarity scoring using a defined amino acid substitution matrix (e.g., BLOSUM62), gap existence penalty and gap extension penalty so as to arrive at the highest score possible for that pair of sequences Amino acid substitution matrices and their use in quantifying the similarity between two sequences are well known in the art (See, e.g., Dayhoff et al., in Dayhoff [ed.], Atlas of Protein Sequence and Structure," Vol. 5, Suppl. 3, Natl. Biomed. Res. Round., Washington D.C.

[1978]; pp. 345-352; and Henikoff et al., Proc. Natl. Acad. Sci. USA, 89:10915-10919

[1992], both of which are incorporated herein by reference). The BLOSUM62 matrix is often used as a default scoring substitution matrix in sequence alignment protocols such as Gapped BLAST 2.0. The gap existence penalty is imposed for the introduction of a single amino acid gap in one of the aligned sequences, and the gap extension penalty is imposed for each additional empty amino acid position inserted into an already opened gap. The alignment is defined by the amino acid position of each sequence at which the alignment begins and ends, and optionally by the insertion of a gap or multiple gaps in one or both sequences so as to arrive at the highest possible score. While optimal alignment and scoring can be accomplished manually, the process is facilitated by the use of a computer-implemented alignment algorithm (e.g., gapped BLAST 2.0; See, Altschul et al., Nucleic Acids Res., 25:3389-3402

[1997], which is incorporated herein by reference), and made available to the public at the National Center for Biotechnology Information Website). Optimal alignments, including multiple alignments can be prepared using readily available programs such as PSI-BLAST (See e.g., Altschul et al., supra).

[0184] The present invention also provides a recombinant nucleic acid construct comprising at least one xylanase and/or xylosidase polynucleotide sequence that hybridizes under stringent hybridization conditions to the complement of a polynucleotide which encodes a polypeptide comprising the amino acid sequence of SEQ ID NO:2, 3, 5, 6, 8, and/or 9, wherein the polypeptide is capable of catalyzing the degradation of cellulose. Two nucleic acid or polypeptide sequences that have 100% sequence identity are said to be "identical." A nucleic acid or polypeptide sequence are said to have "substantial sequence identity" to a reference sequence when the sequences have at least about 70%, at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, or at least about 99%, or greater sequence identity as determined using the methods described herein, such as BLAST using standard parameters.

[0185] As used herein, the term "pre-protein" refers to a protein including an amino-terminal signal peptide (or leader sequence) region attached. The signal peptide is cleaved from the pre-protein by a signal peptidase prior to secretion to result in the "mature" or "secreted" protein.

[0186] As used herein, a "vector" is a DNA construct for introducing a DNA sequence into a cell. In some embodiments, the vector is an expression vector that is operably linked to a suitable control sequence capable of effecting the expression in a suitable host of the polypeptide encoded in the DNA sequence. An "expression vector" has a promoter sequence operably linked to the DNA sequence (e.g., transgene) to drive expression in a host cell, and in some embodiments a transcription terminator sequence.

[0187] As used herein, the term "expression" includes any step involved in the production of the polypeptide including, but not limited to, transcription, post-transcriptional modification, translation, and post-translational modification. In some embodiments, the term also encompasses secretion of the polypeptide from a cell.

[0188] As used herein, the term "produces" refers to the production of proteins and/or other compounds by cells. It is intended that the term encompass any step involved in the production of polypeptides including, but not limited to, transcription, post-transcriptional modification, translation, and post-translational modification. In some embodiments, the term also encompasses secretion of the polypeptide from a cell.

[0189] As used herein, the term "operably linked" refers to a configuration in which a control sequence is appropriately placed at a position relative to the coding sequence of the DNA sequence such that the control sequence influences the expression of a polypeptide.

[0190] As used herein, an amino acid or nucleotide sequence (e.g., a promoter sequence, signal peptide, terminator sequence, etc.) is "heterologous" to another sequence with which it is operably linked if the two sequences are not associated in nature.

[0191] As used herein, the terms "host cell" and "host strain" refer to suitable hosts for expression vectors comprising DNA provided herein. In some embodiments, the host cells are prokaryotic or eukaryotic cells that have been transformed or transfected with vectors constructed using recombinant DNA techniques as known in the art. Transformed hosts are capable of either replicating vectors encoding at least one protein of interest and/or expressing the desired protein of interest. In addition, reference to a cell of a particular strain refers to a parental cell of the strain as well as progeny and genetically modified derivatives. Genetically modified derivatives of a parental cell include progeny cells that contain a modified genome or episomal plasmids that confer for example, antibiotic resistance, improved fermentation, etc. In some embodiments, host cells are genetically modified to have characteristics that improve protein secretion, protein stability or other properties desirable for expression and/or secretion of a protein. For example, knockout of Alp1 function results in a cell that is protease deficient. Knockout of pyr5 function results in a cell with a pyrimidine deficient phenotype. In some embodiments, host cells are modified to delete endogenous cellulase protein-encoding sequences or otherwise eliminate expression of one or more endogenous cellulases. In some embodiments, expression of one or more endogenous cellulases is inhibited to increase production of cellulases of interest. Genetic modification can be achieved by any suitable genetic engineering techniques and/or classical microbiological techniques (e.g., chemical or UV mutagenesis and subsequent selection). Using recombinant technology, nucleic acid molecules can be introduced, deleted, inhibited or modified, in a manner that results in increased yields of xylanase and/or xylosidase within the organism or in the culture. For example, knockout of Alp1 function results in a cell that is protease deficient. Knockout of pyr5 function results in a cell with a pyrimidine deficient phenotype. In some genetic engineering approaches, homologous recombination is used to induce targeted gene modifications by specifically targeting a gene in vivo to suppress expression of the encoded protein. In an alternative approach, siRNA, antisense, and/or ribozyme technology finds use in inhibiting gene expression.

[0192] As used herein, the term "introduced" used in the context of inserting a nucleic acid sequence into a cell, means transformation, transduction, conjugation, transfection, and/or any other suitable method(s) known in the art for inserting nucleic acid sequences into host cells. Any suitable means for the introduction of nucleic acid into host cells find use in the present invention.

[0193] As used herein, the terms "transformed" and "transformation" used in reference to a cell refer to a cell that has a non-native nucleic acid sequence integrated into its genome or has an episomal plasmid that is maintained through multiple generations.

[0194] As used herein, the term "C1" refers to strains of Myceliophthora thermophila, including the fungal strain described by Garg (See, Garg, Mycopathol., 30: 3-4

[1966]). As used herein, "Chrysosporium lucknowense" includes the strains described in U.S. Pat. Nos. 6,015,707, 5,811,381 and 6,573,086; US Pat. Pub. Nos. 2007/0238155, US 2008/0194005, US 2009/0099079; International Pat. Pub. Nos., WO 2008/073914 and WO 98/15633, all of which are incorporated herein by reference, and include, without limitation, Chrysosporium lucknowense Garg 27K, VKM-F 3500 D (Accession No. VKM F-3500-D), C1 strain UVβ-6 (Accession No. VKM F-3632 D), C1 strain NG7C-19 (Accession No. VKM F-3633 D), and C1 strain UV18-25 (VKM F-3631 D), all of which have been deposited at the All-Russian Collection of Microorganisms of Russian Academy of Sciences (VKM), Bakhurhina St. 8, Moscow, Russia, 113184, and any derivatives thereof. Although initially described as Chrysosporium lucknowense, C1 may currently be considered a strain of Myceliophthora thermophila. Other C1 strains include cells deposited under accession numbers ATCC 44006, CBS (Centraalbureau voor Schimmelcultures) 122188, CBS 251.72, CBS 143.77, CBS 272.77, CBS122190, CBS122189, and VKM F-3500D. Exemplary C1 derivatives include modified organisms in which one or more endogenous genes or sequences have been deleted or modified and/or one or more heterologous genes or sequences have been introduced. Derivatives include, but are not limited to UV18#100f Δalp1, UV 18#100f Δpyr5 Δalp1, UV18#100.f Δalp1 Δpep4 Δalp2, UV18#100.f Δpyr5 Δalp1 Δpep4 Δalp2 and UV18#100.f Δpyr4 Δpyr5 ΔaIp1 Δpep4 Δalp2, as described in WO2008073914 and WO2010107303, each of which is incorporated herein by reference.

[0195] As used herein, the terms "improved thermoactivity" and "increased thermoactivity" refer to an enzyme (e.g., a "test" enzyme of interest) displaying an increase, relative to a reference enzyme, in the amount of enzymatic activity (e.g., substrate hydrolysis) in a specified time under specified reaction conditions, for example, elevated temperature.

[0196] As used herein, the terms "improved thermostability" and "increased thermostability" refer to an enzyme (e.g., a "test" enzyme of interest) displaying an increase in "residual activity" relative to a reference enzyme. Residual activity is determined by (1) exposing the test enzyme or reference enzyme to stress conditions of elevated temperature, optionally at lowered pH, for a period of time and then determining xylanase or xylosidase activity; (2) exposing the test enzyme or reference enzyme to unstressed conditions for the same period of time and then determining xylanase or xylosidase activity; and (3) calculating residual activity as the ratio of activity obtained under stress conditions (1) over the activity obtained under unstressed conditions (2). For example, the xylanase or xylosidase activity of the enzyme exposed to stress conditions ("a") is compared to that of a control in which the enzyme is not exposed to the stress conditions ("b"), and residual activity is equal to the ratio a/b. A test enzyme with increased thermostability will have greater residual activity than the reference enzyme. In some embodiments, the enzymes are exposed to stress conditions of 55° C. at pH 5.0 for 1 hr, but other cultivation conditions can be used.

[0197] As used herein, the term "culturing" refers to growing a population of microbial cells under suitable conditions in a liquid or solid medium.

[0198] As used herein, the term "saccharification" refers to the process in which substrates (e.g., cellulosic biomass) are broken down via the action of cellulases to produce fermentable sugars (e.g. monosaccharides such as but not limited to glucose).

[0199] As used herein, the term "fermentable sugars" refers to simple sugars (e.g., monosaccharides, disaccharides and short oligosaccharides), including but not limited to glucose, xylose, galactose, arabinose, mannose and sucrose. Indeed, a fermentable sugar is any sugar that a microorganism can utilize or ferment.

[0200] As used herein the term "soluble sugars" refers to water-soluble hexose monomers and oligomers of up to about six monomer units.

[0201] As used herein, the term "fermentation" is used broadly to refer to the cultivation of a microorganism or a culture of microorganisms that use simple sugars, such as fermentable sugars, as an energy source to obtain a desired product.

[0202] As used herein, the term "feedstock" refers to any material that is suitable for use in production of an end product. It is intended that the term encompass any material suitable for use in saccharification reactions. In some embodiments, the term encompasses material obtained from nature that is in an unprocessed or minimally processed state, although it is not intended that the term be limited to these embodiments. In some embodiments, the term encompasses biomass and biomass substrates comprising any suitable compositions for use in production of fermentable sugars. In some embodiments, the feedstock is "pre-treated" before and/or while it is being used as a substrate in a saccharification reaction.

[0203] The terms "biomass," and "biomass substrate," encompass any suitable materials for use in saccharification reactions. The terms encompass, but are not limited to materials that comprise cellulose (i.e., "cellulosic biomass," "cellulosic feedstock," and "cellulosic substrate"). Biomass can be derived from plants, animals, or microorganisms, and may include, but is not limited to agricultural, industrial, and forestry residues, industrial and municipal wastes, and terrestrial and aquatic crops grown for energy purposes. Examples of biomass substrates include, but are not limited to, wood, wood pulp, paper pulp, corn fiber, corn grain, corn cobs, crop residues such as corn husks, corn stover, grasses, wheat, wheat straw, barley, barley straw, hay, rice, rice straw, switchgrass, waste paper, paper and pulp processing waste, woody or herbaceous plants, fruit or vegetable pulp, distillers grain, grasses, rice hulls, cotton, hemp, flax, sisal, sugar cane bagasse, sorghum, soy, switchgrass, components obtained from milling of grains, trees, branches, roots, leaves, tops, wood chips, sawdust, shrubs, bushes, seed pods, vegetables, fruits, and flowers and any suitable mixtures thereof. In some embodiments, the biomass comprises, but is not limited to cultivated crops (e.g., grasses, including C4 grasses, such as switch grass, cord grass, rye grass, miscanthus, reed canary grass, or any combination thereof), sugar processing residues, for example, but not limited to, bagasse (e.g., sugar cane bagasse, beet pulp [e.g., sugar beet], or a combination thereof), agricultural residues (e.g., soybean stover, corn stover, corn fiber, rice straw, sugar cane straw, rice, rice hulls, barley straw, corn cobs, wheat straw, canola straw, oat straw, oat hulls, corn fiber, hemp, flax, sisal, cotton, tops, stems, leaves, seed pods, fruit pods, or any combination thereof), fruit pulp, vegetable pulp, distillers' grains, forestry biomass (e.g., wood, wood pulp, paper pulp, recycled wood pulp fiber, sawdust, hardwood, such as aspen wood, softwood, or a combination thereof). Furthermore, in some embodiments, the biomass comprises cellulosic waste material and/or forestry waste materials, including but not limited to, paper and pulp processing waste, municipal paper waste, newsprint, cardboard and the like. In some embodiments, biomass comprises one species of fiber, while in some alternative embodiments, the biomass comprises a mixture of fibers that originate from different biomasses. In some embodiments, the biomass may also comprise transgenic plants that express ligninase and/or cellulase enzymes (See e.g., US 2008/0104724 A1).

[0204] A biomass substrate is said to be "pretreated" when it has been processed by some physical and/or chemical means to facilitate saccharification. As described further herein, in some embodiments, the biomass substrate is "pretreated," or treated using methods known in the art, such as chemical pretreatment (e.g., ammonia pretreatment, dilute acid pretreatment, dilute alkali pretreatment, or solvent exposure), physical pretreatment (e.g., steam explosion or irradiation), mechanical pretreatment (e.g., grinding or milling) and biological pretreatment (e.g., application of lignin-solubilizing microorganisms) and combinations thereof, to increase the susceptibility of cellulose to hydrolysis. Thus, the term "biomass" encompasses any living or dead biological material that contains a polysaccharide substrate, including but not limited to cellulose, starch, other forms of long-chain carbohydrate polymers, and mixtures of such sources. It may or may not be assembled entirely or primarily from glucose or xylose, and may optionally also contain various other pentose or hexose monomers. Xylose is an aldopentose containing five carbon atoms and an aldehyde group. It is the precursor to hemicellulose, and is often a main constituent of biomass. In some embodiments, the substrate is slurried prior to pretreatment. In some embodiments, the consistency of the slurry is between about 2% and about 30% and more typically between about 4% and about 15%. In some embodiments, the slurry is subjected to a water and/or acid soaking operation prior to pretreatment. In some embodiments, the slurry is dewatered using any suitable method to reduce steam and chemical usage prior to pretreatment. Examples of dewatering devices include, but are not limited to pressurized screw presses (See e.g., WO 2010/022511, incorporated herein by reference) pressurized filters and extruders.

[0205] In some embodiments, the pretreatment is carried out to hydrolyze hemicellulose, and/or a portion thereof present in the cellulosic substrate to monomeric pentose and hexose sugars (e.g., xylose, arabinose, mannose, galactose, and/or any combination thereof). In some embodiments, the pretreatment is carried out so that nearly complete hydrolysis of the hemicellulose and a small amount of conversion of cellulose to glucose occurs. In some embodiments, an acid concentration in the aqueous slurry from about 0.02% (w/w) to about 2% (w/w), or any amount therebetween, is typically used for the treatment of the cellulosic substrate. Any suitable acid finds use in these methods, including but not limited to, hydrochloric acid, nitric acid, and/or sulfuric acid. In some embodiments, the acid used during pretreatment is sulfuric acid. Steam explosion is one method of performing acid pretreatment of biomass substrates (See e.g., U.S. Pat. No. 4,461,648). Another method of pretreating the slurry involves continuous pretreatment (i.e., the cellulosic biomass is pumped though a reactor continuously). This methods are well-known to those skilled in the art (See e.g., U.S. Pat. No. 7,754,457).

[0206] In some embodiments, alkali is used in the pretreatment. In contrast to acid pretreatment, pretreatment with alkali may not hydrolyze the hemicellulose component of the biomass. Rather, the alkali reacts with acidic groups present on the hemicellulose to open up the surface of the substrate. In some embodiments, the addition of alkali alters the crystal structure of the cellulose so that it is more amenable to hydrolysis. Examples of alkali that find use in the pretreatment include, but are not limited to ammonia, ammonium hydroxide, potassium hydroxide, and sodium hydroxide. One method of alkali pretreatment is Ammonia Freeze Explosion, Ammonia Fiber Explosion or Ammonia Fiber Expansion ("AFEX" process; See e.g., U.S. Pat. Nos. 5,171,592; 5,037,663; 4,600,590; 6,106,888; 4,356,196; 5,939,544; 6,176,176; 5,037,663 and 5,171,592). During this process, the cellulosic substrate is contacted with ammonia or ammonium hydroxide in a pressure vessel for a sufficient time to enable the ammonia or ammonium hydroxide to alter the crystal structure of the cellulose fibers. The pressure is then rapidly reduced, which allows the ammonia to flash or boil and explode the cellulose fiber structure. In some embodiments, the flashed ammonia is then recovered using methods known in the art. In some alternative methods, dilute ammonia pretreatment is utilized. The dilute ammonia pretreatment method utilizes more dilute solutions of ammonia or ammonium hydroxide than AFEX (See e.g., WO2009/045651 and US 2007/0031953). This pretreatment process may or may not produce any monosaccharides.

[0207] An additional pretreatment process for use in the present invention includes chemical treatment of the cellulosic substrate with organic solvents, in methods such as those utilizing organic liquids in pretreatment systems (See e.g., U.S. Pat. No. 4,556,430; incorporated herein by reference). These methods have the advantage that the low boiling point liquids easily can be recovered and reused. Other pretreatments, such as the Organosolv® process, also use organic liquids (See e.g., U.S. Pat. No. 7,465,791, which is also incorporated herein by reference). Subjecting the substrate to pressurized water may also be a suitable pretreatment method (See e.g., Weil et al. (1997) Appl. Biochem. Biotechnol., 68(1-2): 21-40

[1997], which is incorporated herein by reference). In some embodiments, the pretreated cellulosic biomass is processed after pretreatment by any of several steps, such as dilution with water, washing with water, buffering, filtration, or centrifugation, or any combination of these processes, prior to enzymatic hydrolysis, as is familiar to those skilled in the art. The pretreatment produces a pretreated feedstock composition (e.g., a "pretreated feedstock slurry") that contains a soluble component including the sugars resulting from hydrolysis of the hemicellulose, optionally acetic acid and other inhibitors, and solids including unhydrolyzed feedstock and lignin. In some embodiments, the soluble components of the pretreated feedstock composition are separated from the solids to produce a soluble fraction. In some embodiments, the soluble fraction, including the sugars released during pretreatment and other soluble components (e.g., inhibitors), is then sent to fermentation. However, in some embodiments in which the hemicellulose is not effectively hydrolyzed during the pretreatment one or more additional steps are included (e.g., a further hydrolysis step(s) and/or enzymatic treatment step(s) and/or further alkali and/or acid treatment) to produce fermentable sugars. In some embodiments, the separation is carried out by washing the pretreated feedstock composition with an aqueous solution to produce a wash stream and a solids stream comprising the unhydrolyzed, pretreated feedstock. Alternatively, the soluble component is separated from the solids by subjecting the pretreated feedstock composition to a solids-liquid separation, using any suitable method (e.g., centrifugation, microfiltration, plate and frame filtration, cross-flow filtration, pressure filtration, vacuum filtration, etc.). Optionally, in some embodiments, a washing step is incorporated into the solids-liquids separation. In some embodiments, the separated solids containing cellulose, then undergo enzymatic hydrolysis with cellulase enzymes in order to convert the cellulose to glucose. In some embodiments, the pretreated feedstock composition is fed into the fermentation process without separation of the solids contained therein. In some embodiments, the unhydrolyzed solids are subjected to enzymatic hydrolysis with cellulase enzymes to convert the cellulose to glucose after the fermentation process. In some embodiments, the pretreated cellulosic feedstock is subjected to enzymatic hydrolysis with cellulase enzymes.

[0208] As used herein, the term "lignocellulosic biomass" refers to any plant biomass comprising cellulose and hemicellulose, bound to lignin. In some embodiments, the biomass may optionally be pretreated to increase the susceptibility of cellulose to hydrolysis by chemical, physical and biological pretreatments (such as steam explosion, pulping, grinding, acid hydrolysis, solvent exposure, and the like, as well as combinations thereof). Various lignocellulosic feedstocks find use, including those that comprise fresh lignocellulosic feedstock, partially dried lignocellulosic feedstock, fully dried lignocellulosic feedstock, and/or any combination thereof. In some embodiments, lignocellulosic feedstocks comprise cellulose in an amount greater than about 20%, more preferably greater than about 30%, more preferably greater than about 40% (w/w). For example, in some embodiments, the lignocellulosic material comprises from about 20% to about 90% (w/w) cellulose, or any amount therebetween, although in some embodiments, the lignocellulosic material comprises less than about 19%, less than about 18%, less than about 17%, less than about 16%, less than about 15%, less than about 14%, less than about 13%, less than about 12%, less than about 11%, less than about 10%, less than about 9%, less than about 8%,less than about 7%, less than about 6%, or less than about 5% cellulose (w/w). Furthermore, in some embodiments, the lignocellulosic feedstock comprises lignin in an amount greater than about 10%, more typically in an amount greater than about 15% (w/w). In some embodiments, the lignocellulosic feedstock comprises small amounts of sucrose, fructose and/or starch. The lignocellulosic feedstock is generally first subjected to size reduction by methods including, but not limited to, milling, grinding, agitation, shredding, compression/expansion, or other types of mechanical action. Size reduction by mechanical action can be performed by any type of equipment adapted for the purpose, for example, but not limited to, hammer mills, tub-grinders, roll presses, refiners and hydrapulpers. In some embodiments, at least 90% by weight of the particles produced from the size reduction have lengths less than between about 1/16 and about 4 in (the measurement may be a volume or a weight average length). In some embodiments, the equipment used to reduce the particle size reduction is a hammer mill or shredder. Subsequent to size reduction, the feedstock is typically slurried in water, as this facilitates pumping of the feedstock. In some embodiments, lignocellulosic feedstocks of particle size less than about 6 inches do not require size reduction.

[0209] As used herein, the term "lignocellulosic feedstock" refers to any type of lignocellulosic biomass that is suitable for use as feedstock in saccharification reactions.

[0210] As used herein, the term "pretreated lignocellulosic feedstock," refers to lignocellulosic feedstocks that have been subjected to physical and/or chemical processes to make the fiber more accessible and/or receptive to the actions of cellulolytic enzymes, as described above.

[0211] As used herein, the term "recovered" refers to the harvesting, isolating, collecting, or recovering of protein from a cell and/or culture medium. In the context of saccharification, it is used in reference to the harvesting of fermentable sugars produced during the saccharification reaction from the culture medium and/or cells. In the context of fermentation, it is used in reference to harvesting the fermentation product from the culture medium and/or cells. Thus, a process can be said to comprise "recovering" a product of a reaction (such as a soluble sugar recovered from saccharification) if the process includes separating the product from other components of a reaction mixture subsequent to at least some of the product being generated in the reaction.

[0212] As used herein, the term "slurry" refers to an aqueous solution in which are dispersed one or more solid components, such as a cellulosic substrate.

[0213] As used herein, "increasing" the yield of a product (such as a fermentable sugar) from a reaction occurs when a particular component of interest is present during the reaction (e.g., xylanase or xylosidase) causes more product to be produced, compared with a reaction conducted under the same conditions with the same substrate and other substituents, but in the absence of the component of interest (e.g., without xylanase or xylosidase).

[0214] As used herein, a reaction is said to be "substantially free" of a particular enzyme if the amount of that enzyme compared with other enzymes that participate in catalyzing the reaction is less than about 2%, about 1%, or about 0.1% (wt/wt).

[0215] As used herein, "fractionating" a liquid (e.g., a culture broth) means applying a separation process (e.g., salt precipitation, column chromatography, size exclusion, and filtration) or a combination of such processes to provide a solution in which a desired protein (such as xylanase, xylosidase, a cellulase enzyme, and/or a combination thereof) comprises a greater percentage of total protein in the solution than in the initial liquid product.

[0216] As used herein, the term "enzymatic hydrolysis", refers to a process comprising at least one cellulases and at least one glycosidase enzyme and/or a mixture glycosidases that act on polysaccharides, (e.g., cellulose), to convert all or a portion thereof to fermentable sugars. "Hydrolyzing" cellulose or other polysaccharide occurs when at least some of the glycosidic bonds between two monosaccharides present in the substrate are hydrolyzed, thereby detaching from each other the two monomers that were previously bonded.

[0217] It is intended that the enzymatic hydrolysis be carried out with any suitable type of cellulase enzymes capable of hydrolyzing the cellulose to glucose, regardless of their source, including those obtained from fungi, such as Trichoderma spp., Aspergillus spp., Hypocrea spp., Humicola spp., Neurospora spp., Orpinomyces spp., Gibberella spp., Emericella spp., Chaetomium spp., Chrysosporium spp., Fusarium spp., Penicillium spp., Magnaporthe spp., Phanerochaete spp., Trametes spp., Lentinula edodes, Gleophyllum trabeiu, Ophiostoma piliferum, Corpinus cinereus, Geomyces pannorum, Cryptococcus laurentii, Aureobasidium pullulans, Amorphotheca resinae, Leucosporidium scotti, Cunninghamella elegans, Thermomyces lanuginosus, Myceliopthora thermophila, and Sporotrichum thermophile, as well as those obtained from bacteria of the genera Bacillus, Thermomyces, Clostridium, Streptomyces and Thermobifida. Cellulase compositions typically comprise one or more cellobiohydrolase, endoglucanase, and beta-glucosidase enzymes. In some cases, the cellulase compositions additionally contain hemicellulases, esterases, swollenins, cips, etc. Many of these enzymes are readily commercially available.

[0218] In some embodiments, the enzymatic hydrolysis is carried out at a pH and temperature that is at or near the optimum for the cellulase enzymes being used. For example, the enzymatic hydrolysis may be carried out at about 30° C. to about 75° C., or any suitable temperature therebetween, for example a temperature of about 30° C., about 35° C., about 40° C., about 45° C., about 50° C., about 55° C., about 60° C., about 65° C., about 70° C., about 75° C., or any temperature therebetween, and a pH of about 3.5 to about 7.5, or any pH therebetween (e.g., about 3.5, about 4.0, about 4.5, about 5.0, about 5.5, about 6.0, about 6.5, about 7.0, about 7.5, or any suitable pH therebetween). In some embodiments, the initial concentration of cellulose, prior to the start of enzymatic hydrolysis, is preferably about 0.1% (w/w) to about 20% (w/w), or any suitable amount therebetween (e.g., about 0.1%, about 0.5%, about 1%, about 2%, about 4%, about 6%, about 8%, about 10%, about 12%, about 14%, about 15%, about 18%, about 20%, or any suitable amount therebetween.) In some embodiments, the combined dosage of all cellulase enzymes is about 0.001 to about 100 mg protein per gram cellulose, or any suitable amount therebetween (e.g., about 0.001, about 0.01, about 0.1, about 1, about 5, about 10, about 15, about 20, about 25, about 30, about 40, about 50, about 60, about 70, about 80, about 90, about 100 mg protein per gram cellulose or any amount therebetween. The enzymatic hydrolysis is carried out for any suitable time period. In some embodiments, the enzymatic hydrolysis is carried out for a time period of about 0.5 hours to about 200 hours, or any time therebetween (e.g., about 2 hours to about 100 hours, or any suitable time therebetween). For example, in some embodiments, it is carried out for about 0.5, about 1, about 2, about 5, about 7, about 10, about 12, about 14, about 15, about 20, about 25, about 30, about 35, about 40, about 45, about 50, about 55, about 60, about 65, about 70, about 75, about 80, about 85, about 90, about 95, about 100, about 120, about 140, about 160, about 180, about 200, or any suitable time therebetween.)

[0219] In some embodiments, the enzymatic hydrolysis is batch hydrolysis, continuous hydrolysis, and/or a combination thereof. In some embodiments, the hydrolysis is agitated, unmixed, or a combination thereof. The enzymatic hydrolysis is typically carried out in a hydrolysis reactor. The cellulase enzyme composition is added to the pretreated lignocellulosic substrate prior to, during, or after the addition of the substrate to the hydrolysis reactor. Indeed it is not intended that reaction conditions be limited to those provided herein, as modifications are well-within the knowledge of those skilled in the art. In some embodiments, following cellulose hydrolysis, any insoluble solids present in the resulting lignocellulosic hydrolysate, including but not limited to lignin, are removed using conventional solid-liquid separation techniques prior to any further processing. In some embodiments, these solids are burned to provide energy for the entire process.

[0220] As used herein, the term "by-product" refers to an organic molecule that is an undesired product of a particular process (e.g., saccharification).

DETAILED DESCRIPTION OF THE INVENTION

[0221] The present invention provides xylanase and xylosidase enzymes suitable for use in saccharification reactions. The present application further provides genetically modified fungal organisms that produce xylanase(s) and/or xylosidase(s), as well as enzyme mixtures exhibiting enhanced hydrolysis of cellulosic material to fermentable sugars, enzyme mixtures produced by the genetically modified fungal organisms, and methods for producing fermentable sugars from cellulose using such enzyme mixtures. In some embodiments, the xylanase and xylosidase is obtained from a Myceliophthora thermophila strain.

[0222] In some embodiments, the present invention provides methods and compositions suitable for use in the degradation of cellulose. In some additional embodiments, the present invention provides xylanase and xylosidase enzymes suitable for use in saccharification reactions to hydrolyze cellulose components in biomass feedstock. In some additional embodiments, the xylanase and xylosidase enzymes are used in combination with additional enzymes, including but not limited to EG1a, Eg1b, EG2, EG3, EG5, EG6, cellobiohydrolase(s), GH61s, etc., in saccharification reactions.

[0223] Fungi, bacteria, and other organisms produce a variety of cellulases and other enzymes that act in concert to catalyze decrystallization and hydrolysis of cellulose to yield fermentable sugars. One such fungus is M. thermophila, which is described herein. Cellulases of interest include the xylanase and xylosidase enzymes provided herein. The xylanase and xylosidase sequences provided herein are particularly useful for the production of fermentable sugars from cellulosic biomass. In some embodiments, the present invention provides methods of generating fermentable sugars from cellulosic biomass, by contacting the biomass with a cellulase composition comprising at least one xylanase and/or xylosidase described herein under conditions suitable for the production of fermentable sugars

[0224] For example, mutagenesis and directed evolution methods can be readily applied to polynucleotides to generate variant libraries that can be expressed, screened, and assayed. Mutagenesis and directed evolution methods are well known in the art (See e.g., U.S. Pat. Nos. 5,605,793, 5,830,721, 6,132,970, 6,420,175, 6,277,638, 6,365,408, 6,602,986, 7,288,375, 6,287,861, 6,297,053, 6,576,467, 6,444,468, 5,811238, 6,117,679, 6,165,793, 6,180,406, 6,291,242, 6,995,017, 6,395,547, 6,506,602, 6,519,065, 6,506,603, 6,413,774, 6,573,098, 6,323,030, 6,344,356, 6,372,497, 7,868,138, 5,834,252, 5,928,905, 6,489,146, 6,096,548, 6,387,702, 6,391,552, 6,358,742, 6,482,647, 6,335,160, 6,653,072, 6,355,484,6,03,344, 6,319,713, 6,613,514, 6,455,253, 6,579,678, 6,586,182, 6,406,855, 6,946,296, 7,534,564, 7,776,598, 5,837,458, 6,391,640, 6,309,883, 7,105,297, 7,795,030, 6,326,204, 6,251,674, 6,716,631, 6,528,311, 6,287,862, 6,335,198, 6,352,859, 6,379,964, 7,148,054, 7,629,170, 7,620,500, 6,365,377, 6,358,740, 6,406,910, 6,413,745, 6,436,675, 6,961,664, 7,430,477, 7,873,499, 7,702,464, 7,783,428, 7,747,391, 7,747,393, 7,751,986, 6,376,246, 6,426,224, 6,423,542, 6,479,652, 6,319,714, 6,521,453, 6,368,861, 7,421,347, 7,058,515, 7,024,312, 7,620,502, 7,853,410, 7,957,912, 7,904,249, and all related non-US counterparts; Ling et al., Anal. Biochem., 254(2):157-78

[1997]; Dale et al., Meth. Mol. Biol., 57:369-74

[1996]; Smith, Ann. Rev. Genet., 19:423-462

[1985]; Botstein et al., Science, 229:1193-1201

[1985]; Carter, Biochem. J., 237:1-7

[1986]; Kramer et al., Cell, 38:879-887

[1984]; Wells et al., Gene, 34:315-323

[1985]; Minshull et al., Curr. Op. Chem. Biol., 3:284-290

[1999]; Christians et al., Nat. Biotechnol., 17:259-264

[1999]; Crameri et al., Nature, 391:288-291

[1998]; Crameri, et al., Nat. Biotechnol., 15:436-438

[1997]; Zhang et al., Proc. Nat. Acad. Sci. U.S.A., 94:4504-4509

[1997]; Crameri et al., Nat. Biotechnol., 14:315-319

[1996]; Stemmer, Nature, 370:389-391

[1994]; Stemmer, Proc. Nat. Acad. Sci. USA, 91:10747-10751

[1994]; WO 95/22625; WO 97/0078; WO 97/35966; WO 98/27230; WO 00/42651; WO 01/75767; and WO 2009/152336, all of which are incorporated herein by reference).

[0225] Xylanase and xylosidase activity and thermostability can be determined by methods described in the Examples, and/or using other suitable assay methods known in the art (e.g., the PAHBAH kit [Megazyme] and/or HPLC). Additional methods of cellobiose quantification include, but are not limited chromatographic methods (e.g., HPLC; See e.g., U.S. Pat. Nos. 6,090,595 and 7,419,809, both of which are incorporated by reference in their entireties).

[0226] The present invention provides xylanase and xylosidases suitable for use in saccharification reactions. In some embodiments, the present invention provides methods and compositions suitable for use in the degradation of cellulose. In some additional embodiments, the present invention provides xylanase and xylosidase enzymes suitable for use in saccharification reactions to hydrolyze cellulose components in biomass feedstock. In some additional embodiments, the xylanase and xylosidase(s) are used in combination with additional enzymes, including but not limited to at least one EG (e.g., EG1b, EG1a, EG2, EG3, EG4, EG5, and/or EG6), cellobiohydrolase, GH61, and/or beta-glucosidases, etc., in saccharification reactions.

[0227] Fungi, bacteria, and other organisms produce a variety of cellulases and other enzymes that act in concert to catalyze decrystallization and hydrolysis of cellulose to yield fermentable sugars. One such fungus is M. thermophila, which is described herein. The xylanase and xylosidase sequences provided herein are particularly useful for the production of fermentable sugars from cellulosic biomass and other feedstocks. In some additional embodiments, the present invention provides methods for generating fermentable sugars from biomass, involving contacting the biomass with a cellulase composition comprising at least one xylanase and/or at least one xylosidase as described herein, under conditions suitable for the production of fermentable sugars.

[0228] In some embodiments, the xylanase and xylosidases of the present invention further comprise additional sequences which do not alter the encoded activity of the enzyme. For example, in some embodiments, the xylanase or xylosidases are linked to an epitope tag or to another sequence useful in purification.

[0229] In some embodiments, the xylanase and xylosidase polypeptides of the present invention are secreted from the host cell in which they are produced (e.g., a yeast or filamentous fungal host cell) and are produced as a pre-protein including a signal peptide (i.e., an amino acid sequence linked to the amino terminus of a polypeptide and which directs the encoded polypeptide into the cell secretory pathway). In some embodiments, the signal peptide is an endogenous M. thermophila xylanase and xylosidase signal peptide. In some other embodiments, signal peptides from other M. thermophila secreted proteins are used. In some embodiments, other signal peptides find use, depending on the host cell and other factors. Effective signal peptide coding regions for filamentous fungal host cells include, but are not limited to, the signal peptide coding regions obtained from Aspergillus oryzae TAKA amylase, Aspergillus niger neutral amylase, Aspergillus niger glucoamylase, Rhizomucor miehei aspartic proteinase, Humicola insolens cellulase, Humicola lanuginosa lipase, and T. reesei cellobiohydrolase II. Signal peptide coding regions for bacterial host cells include, but are not limited to the signal peptide coding regions obtained from the genes for Bacillus NC1B 11837 maltogenic amylase, Bacillus stearothermophilus alpha-amylase, Bacillus licheniformis subtilisin, Bacillus licheniformisβ-lactamase, Bacillus stearothermophilus neutral proteases (nprT, nprS, nprM), and Bacillus subtilis prsA. In some additional embodiments, other signal peptides find use in the present invention (See e.g., Simonen and Palva, Microbiol. Rev., 57: 109-137

[1993], incorporated herein by reference). Additional useful signal peptides for yeast host cells include those from the genes for Saccharomyces cerevisiae alpha-factor, Saccharomyces cerevisiae SUC2 invertase (See e.g., Taussig and Carlson, Nucl. Acids Res., 11:1943-54

[1983]; SwissProt Accession No. P00724; and Romanos et al., Yeast 8:423-488

[1992]). In some embodiments, variants of these signal peptides and other signal peptides find use.

[0230] In some embodiments, the present invention provides polynucleotides encoding xylanase and/or xylosidase polypeptides, and/or biologically active fragments thereof, as described herein. In some embodiments, the polynucleotide is operably linked to one or more heterologous regulatory or control sequences that control gene expression to create a recombinant polynucleotide capable of expressing the polypeptide. In some embodiments, expression constructs containing a heterologous polynucleotide encoding xylanase and/or xylosidase is introduced into appropriate host cells to express the xylanase and/or xylosidase.

[0231] Those of ordinary skill in the art understand that due to the degeneracy of the genetic code, a multitude of nucleotide sequences encoding xylanase and xylosidase polypeptides of the present invention exist. For example, the codons AGA, AGG, CGA, CGC, CGG, and CGU all encode the amino acid arginine. Thus, at every position in the nucleic acids of the invention where an arginine is specified by a codon, the codon can be altered to any of the corresponding codons described above without altering the encoded polypeptide. It is understood that "U" in an RNA sequence corresponds to "T" in a DNA sequence. The invention contemplates and provides each and every possible variation of nucleic acid sequence encoding a polypeptide of the invention that could be made by selecting combinations based on possible codon choices.

[0232] A DNA sequence may also be designed for high codon usage bias codons (codons that are used at higher frequency in the protein coding regions than other codons that code for the same amino acid). The preferred codons may be determined in relation to codon usage in a single gene, a set of genes of common function or origin, highly expressed genes, the codon frequency in the aggregate protein coding regions of the whole organism, codon frequency in the aggregate protein coding regions of related organisms, or combinations thereof. A codon whose frequency increases with the level of gene expression is typically an optimal codon for expression. In particular, a DNA sequence can be optimized for expression in a particular host organism. A variety of methods are well-known in the art for determining the codon frequency (e.g., codon usage, relative synonymous codon usage) and codon preference in specific organisms, including multivariate analysis (e.g., using cluster analysis or correspondence analysis,) and the effective number of codons used in a gene. The data source for obtaining codon usage may rely on any available nucleotide sequence capable of coding for a protein. These data sets include nucleic acid sequences actually known to encode expressed proteins (e.g., complete protein coding sequences-CDS), expressed sequence tags (ESTs), or predicted coding regions of genomic sequences, as is well-known in the art. Polynucleotides encoding xylanase and/or xylosidases can be prepared using any suitable methods known in the art. Typically, oligonucleotides are individually synthesized, then joined (e.g., by enzymatic or chemical ligation methods, or polymerase-mediated methods) to form essentially any desired continuous sequence. In some embodiments, polynucleotides of the present invention are prepared by chemical synthesis using, any suitable methods known in the art, including but not limited to automated synthetic methods. For example, in the phosphoramidite method, oligonucleotides are synthesized (e.g., in an automatic DNA synthesizer), purified, annealed, ligated and cloned in appropriate vectors. In some embodiments, double stranded DNA fragments are then obtained either by synthesizing the complementary strand and annealing the strands together under appropriate conditions, or by adding the complementary strand using DNA polymerase with an appropriate primer sequence. There are numerous general and standard texts that provide methods useful in the present invention are well known to those skilled in the art.

[0233] The present invention also provides recombinant constructs comprising a sequence encoding at least one xylanase and/or at least one xylosidase, as provided herein. In some embodiments, the present invention provides an expression vector comprising a xylanase and/or xylosidase polynucleotide operably linked to a heterologous promoter. In some embodiments, expression vectors of the present invention are used to transform appropriate host cells to permit the host cells to express the xylanase and/or xylosidase protein. Methods for recombinant expression of proteins in fungi and other organisms are well known in the art, and a number expression vectors are available or can be constructed using routine methods. In some embodiments, nucleic acid constructs of the present invention comprise a vector, such as, a plasmid, a cosmid, a phage, a virus, a bacterial artificial chromosome (BAC), a yeast artificial chromosome (YAC), and the like, into which a nucleic acid sequence of the invention has been inserted. In some embodiments, polynucleotides of the present invention are incorporated into any one of a variety of expression vectors suitable for expressing xylanase and/or xylosidase polypeptide(s). Suitable vectors include, but are not limited to chromosomal, nonchromosomal and synthetic DNA sequences (e.g., derivatives of SV40), as well as bacterial plasmids, phage DNA, baculovirus, yeast plasmids, vectors derived from combinations of plasmids and phage DNA, viral DNA such as vaccinia, adenovirus, fowl pox virus, pseudorabies, adenovirus, adeno-associated virus, retroviruses, and many others. Any suitable vector that transduces genetic material into a cell, and, if replication is desired, which is replicable and viable in the relevant host finds use in the present invention. In some embodiments, the construct further comprises regulatory sequences, including but not limited to a promoter, operably linked to the protein encoding sequence. Large numbers of suitable vectors and promoters are known to those of skill in the art. Indeed, in some embodiments, in order to obtain high levels of expression in a particular host it is often useful to express the xylanase and/or xylosidases of the present invention under the control of a heterologous promoter. In some embodiments, a promoter sequence is operably linked to the 5' region of the xylanase and/or xylosidase coding sequence using any suitable method known in the art. Examples of useful promoters for expression of xylanase and/or xylosidases include, but are not limited to promoters from fungi. In some embodiments, a promoter sequence that drives expression of a gene other than a xylanase and/or xylosidase gene in a fungal strain finds use. As a non-limiting example, a fungal promoter from a gene encoding an endoglucanase may be used. In some embodiments, a promoter sequence that drives the expression of a xylanase and/or xylosidase gene in a fungal strain other than the fungal strain from which the xylanase and/or xylosidases were derived finds use. Examples of other suitable promoters useful for directing the transcription of the nucleotide constructs of the present invention in a filamentous fungal host cell include, but are not limited to promoters obtained from the genes for Aspergillus oryzae TAKA amylase, Rhizomucor miehei aspartic proteinase, Aspergillus niger neutral alpha-amylase, Aspergillus niger acid stable alpha-amylase, Aspergillus niger or Aspergillus awamori glucoamylase (glaA), Rhizomucor miehei lipase, Aspergillus oryzae alkaline protease, Aspergillus oryzae triose phosphate isomerase, Aspergillus nidulans acetamidase, and Fusarium oxysporum trypsin-like protease (See e.g., WO 96/00787, incorporated herein by reference), as well as the NA2-tpi promoter (a hybrid of the promoters from the genes for Aspergillus niger neutral alpha-amylase and Aspergillus oryzae triose phosphate isomerase), promoters such as cbh1, cbh2, egl1, egl2, pepA, hfb1, 102, xyn1, amy, and glaA (See e.g., Nunberg et al., Mol. Cell. Biol., 4:2306-2315

[1984]; Boel et al., EMBO J. 3:1581-85

[1984]; and European Patent Appln. 137280, all of which are incorporated herein by reference), and mutant, truncated, and hybrid promoters thereof. In a yeast host, useful promoters include, but are not limited to those from the genes for Saccharomyces cerevisiae enolase (eno-1), Saccharomyces cerevisiae galactokinase (gal1), Saccharomyces cerevisiae alcohol dehydrogenase/glyceraldehyde-3-phosphate dehydrogenase (ADH2/GAP), and S. cerevisiae 3-phosphoglycerate kinase. Additional useful promoters useful for yeast host cells are known in the art (See e.g., Romanos et al., Yeast 8:423-488

[1992], incorporated herein by reference). In addition, promoters associated with chitinase production in fungi find use in the present invention (See e.g., Blaiseau and Lafay, Gene 120243-248

[1992]; and Limon et al., Curr. Genet, 28:478-83

[1995], both of which are incorporated herein by reference).

[0234] In some embodiments, cloned xylanase and/or xylosidases of the present invention also have a suitable transcription terminator sequence, a sequence recognized by a host cell to terminate transcription. The terminator sequence is operably linked to the 3' terminus of the nucleic acid sequence encoding the polypeptide. Any terminator that is functional in the host cell of choice finds use in the present invention. Exemplary transcription terminators for filamentous fungal host cells include, but are not limited to those obtained from the genes for Aspergillus oryzae TAKA amylase, Aspergillus niger glucoamylase, Aspergillus nidulans anthranilate synthase, Aspergillus niger alpha-glucosidase, and Fusarium oxysporum trypsin-like protease (See also, U.S. Pat. No. 7,399,627, incorporated herein by reference). In some embodiments, exemplary terminators for yeast host cells include those obtained from the genes for Saccharomyces cerevisiae enolase, Saccharomyces cerevisiae cytochrome C(CYC1), and Saccharomyces cerevisiae glyceraldehyde-3-phosphate dehydrogenase. Other useful terminators for yeast host cells are well-known to those skilled in the art (See e.g., Romanos et al., Yeast 8:423-88

[1992]).

[0235] In some embodiments, a suitable leader sequence is part of a cloned xylanase and/or xylosidase sequence, which is a nontranslated region of an mRNA that is important for translation by the host cell. The leader sequence is operably linked to the 5' terminus of the nucleic acid sequence encoding the polypeptide. Any leader sequence that is functional in the host cell of choice finds use in the present invention. Exemplary leaders for filamentous fungal host cells include, but are not limited to those obtained from the genes for Aspergillus oryzae TAKA amylase and Aspergillus nidulans triose phosphate isomerase. Suitable leaders for yeast host cells include, but are not limited to those obtained from the genes for Saccharomyces cerevisiae enolase (ENO-1), Saccharomyces cerevisiae 3-phosphoglycerate kinase, Saccharomyces cerevisiae alpha-factor, and Saccharomyces cerevisiae alcohol dehydrogenase/glyceraldehyde-3-phosphate dehydrogenase (ADH2/GAP).

[0236] In some embodiments, the sequences of the present invention also comprise a polyadenylation sequence, which is a sequence operably linked to the 3' terminus of the nucleic acid sequence and which, when transcribed, is recognized by the host cell as a signal to add polyadenosine residues to transcribed mRNA. Any polyadenylation sequence which is functional in the host cell of choice finds use in the present invention. Exemplary polyadenylation sequences for filamentous fungal host cells include, but are not limited to those obtained from the genes for Aspergillus oryzae TAKA amylase, Aspergillus niger glucoamylase, Aspergillus nidulans anthranilate synthase, Fusarium oxysporum trypsin-like protease, and Aspergillus niger alpha-glucosidase. Useful polyadenylation sequences for yeast host cells are known in the art (See e.g., Guo and Sherman, Mol Cell Biol., 15:5983-5990

[1995]).

[0237] In some embodiments, the expression vector of the present invention contains one or more selectable markers, which permit easy selection of transformed cells. A "selectable marker" is a gene, the product of which provides for biocide or viral resistance, resistance to antimicrobials or heavy metals, prototrophy to auxotrophs, and the like. Any suitable selectable markers for use in a filamentous fungal host cell find use in the present invention, including, but are not limited to, amdS (acetamidase), argB (ornithine carbamoyltransferase), bar (phosphinothricin acetyltransferase), hph (hygromycin phosphotransferase), niaD (nitrate reductase), pyrG (orotidine-5'-phosphate decarboxylase), sC (sulfate adenyltransferase), and trpC (anthranilate synthase), as well as equivalents thereof. Additional markers useful in host cells such as Aspergillus, include but are not limited to the amdS and pyrG genes of Aspergillus nidulans or Aspergillus oryzae and the bar gene of Streptomyces hygroscopicus. Suitable markers for yeast host cells include, but are not limited to ADE2, HIS3, LEU2, LYS2, MET3, TRP1, and URA3.

[0238] In some embodiments, a vector comprising a sequence encoding at least one xylanase and/or xylosidase is transformed into a host cell in order to allow propagation of the vector and expression of the xylanase and/or xylosidase(s). In some embodiments, the xylanase and/or xylosidases are post-translationally modified to remove the signal peptide and in some cases may be cleaved after secretion. In some embodiments, the transformed host cell described above is cultured in a suitable nutrient medium under conditions permitting the expression of the xylanase and/or xylosidase(s). Any suitable medium useful for culturing the host cells finds use in the present invention, including, but not limited to minimal or complex media containing appropriate supplements. In some embodiments, host cells are grown in HTP media. Suitable media are available from various commercial suppliers or may be prepared according to published recipes (e.g., in catalogues of the American Type Culture Collection).

[0239] In some embodiments, the host cell is a eukaryotic cell. Suitable eukaryotic host cells include, but are not limited to, fungal cells, algal cells, insect cells, and plant cells. Suitable fungal host cells include, but are not limited to, Ascomycota, Basidiomycota, Deuteromycota, Zygomycota, Fungi imperfecti. In some embodiments, the fungal host cells are yeast cells and filamentous fungal cells. The filamentous fungal host cells of the present invention include all filamentous forms of the subdivision Eumycotina and Oomycota. Filamentous fungi are characterized by a vegetative mycelium with a cell wall composed of chitin, cellulose and other complex polysaccharides. The filamentous fungal host cells of the present invention are morphologically distinct from yeast.

[0240] In some embodiments of the present invention, the filamentous fungal host cells are of any suitable genus and species, including, but not limited to Achlya, Acremonium, Aspergillus, Aureobasidium, Bjerkandera, Ceriporiopsis, Cephalosporium, Chrysosporium, Cochliobolus, Corynascus, Cryphonectria, Cryptococcus, Coprinus, Coriolus, Diplodia, Endothis, Fusarium, Gibberella, Gliocladium, Humicola, Hypocrea, Myceliophthora, Mucor, Neurospora, Penicillium, Podospora, Phlebia, Piromyces, Pyricularia, Rhizomucor, Rhizopus, Schizophyllum, Scytalidium, Sporotrichum, Talaromyces, Thermoascus, Thielavia, Trametes, Tolypocladium, Trichoderma, Verticillium, and/or Volvariella, and/or teleomorphs, or anamorphs, and synonyms, basionyms, or taxonomic equivalents thereof.

[0241] In some embodiments of the present invention, the filamentous fungal host cell is of the Trichoderma species (e.g., T. longibrachiatum, T. viride [e.g., ATCC 32098 and 32086]), Hypocrea jecorina or T. reesei (NRRL 15709, ATTC 13631, 56764, 56765, 56466, 56767 and RL-P37 and derivatives thereof (See e.g., Sheir-Neiss et al., Appl. Microbiol. Biotechnol., 20:46-53

[1984]), T. koningii, and T. harzianum. In addition, the term "Trichoderma" refers to any fungal strain that was previously and/or currently classified as Trichoderma. In some embodiments of the present invention, the filamentous fungal host cell is of the Aspergillus species (e.g., A. awamori, A. fumigatus, A. japonicus, A. nidulans, A. niger, A. aculeatus, A. foetidus, A. oryzae, A. sojae, and A. kawachi; See e.g., Kelly and Hynes, EMBO J., 4:475-479

[1985]; NRRL 3112, ATCC 11490, 22342, 44733, and 14331; Yelton et al., Proc. Natl. Acad. Sci. USA, 81, 1470-1474

[1984]; Tilburn et al., Gene 26:205-221

[1982]; and Johnston, et al., EMBO J., 4:1307-1311

[1985]). In some embodiments of the present invention, the filamentous fungal host cell is a Chrysosporium species (e.g., C. lucknowense, C. keratinophilum, C. tropicum, C. merdarium, C. inops, C. pannicola, and C. zonatum). In some embodiments of the present invention, the filamentous fungal host cell is a Myceliophthora species (e.g., M. thermophila). In some embodiments of the present invention, the filamentous fungal host cell is a Fusarium species (e.g., F. bactridioides, F. cerealis, F. crookwellense, F. culmorum, F. graminearum, F. graminum. F. oxysporum, F. roseum, and F. venenatum). In some embodiments of the present invention, the filamentous fungal host cell is a Neurospora species (e.g., N. crassa; See e.g., Case et al., Proc. Natl. Acad. Sci. USA, 76:5259-5263

[1979]; U.S. Pat. No. 4,486,553; and Kinsey and Rambosek (1984) Mol. Cell. Biol., 4:117-122

[1984], all of which are hereby incorporated by reference). In some embodiments of the present invention, the filamentous fungal host cell is a Humicola species (e.g., H. insolens, H. grisea, and H. lanuginosa). In some embodiments of the present invention, the filamentous fungal host cell is a Mucor species (e.g., M. miehei and M. circinelloides). In some embodiments of the present invention, the filamentous fungal host cell is a Rhizopus species (e.g., R. oryzae and R. niveus.). In some embodiments of the invention, the filamentous fungal host cell is a Penicillium species (e.g., P. purpurogenum, P. chrysogenum, and P. verruculosum). In some embodiments of the invention, the filamentous fungal host cell is a Talaromyces species (e.g., T. emersonii, T. flavus, T. helicus, T. rotundus, and T. stipitatus). In some embodiments of the invention, the filamentous fungal host cell is a Thielavia species (e.g., T. terrestris and T. heterothallica). In some embodiments of the present invention, the filamentous fungal host cell is a Tolypocladium species (e.g., T. inflatum and T. geodes). In some embodiments of the present invention, the filamentous fungal host cell is a Trametes species (e.g., T. villosa and T. versicolor). In some embodiments of the present invention, the filamentous fungal host cell is a Sporotrichum species. In some embodiments of the present invention, the filamentous fungal host cell is a Corynascus species.

[0242] In some embodiments of the present invention, the host cell is a yeast cell, including but not limited to cells of Candida, Hansenula, Saccharomyces, Schizosaccharomyces, Pichia, Kluyveromyces, or Yarrowia species. In some embodiments of the present invention, the yeast cell is Hansenula polymorpha, Saccharomyces cerevisiae, Saccharomyces carlsbergensis, Saccharomyces diastaticus, Saccharomyces norbensis, Saccharomyces kluyveri, Schizosaccharomyces pombe, Pichia pastoris, Pichia finlandica, Pichia trehalophila, Pichia kodamae, Pichia membranaefaciens, Pichia opuntiae, Pichia thermotolerans, Pichia salictaria, Pichia quercuum, Pichia pijperi, Pichia stipitis, Pichia methanolica, Pichia angusta, Kluyveromyces lactis, Candida albicans, or Yarrowia lipolytica.

[0243] In some embodiments of the invention, the host cell is an algal cell such as Chlamydomonas (e.g., C. reinhardtii) and Phormidium (P. sp. ATCC29409).

[0244] In some other embodiments, the host cell is a prokaryotic cell. Suitable prokaryotic cells include, but are not limited to Gram-positive, Gram-negative and Gram-variable bacterial cells. Any suitable bacterial organism finds use in the present invention, including but not limited to Agrobacterium, Alicyclobacillus, Anabaena, Anacystis, Acinetobacter, Acidothermus, Arthrobacter, Azobacter, Bacillus, Bifidobacterium, Brevibacterium, Butyrivibrio, Buchnera, Campestris, Camplyobacter, Clostridium, Corynebacterium, Chromatium, Coprococcus, Escherichia, Enterococcus, Enterobacter, Erwinia, Fusobacterium, Faecalibacterium, Francisella, Flavobacterium, Geobacillus, Haemophilus, Helicobacter, Klebsiella, Lactobacillus, Lactococcus, Ilyobacter, Micrococcus, Microbacterium, Mesorhizobium, Methylobacterium, Methylobacterium, Mycobacterium, Neisseria, Pantoea, Pseudomonas, Prochlorococcus, Rhodobacter, Rhodopseudomonas, Rhodopseudomonas, Roseburia, Rhodospirillum, Rhodococcus, Scenedesmus, Streptomyces, Streptococcus, Synecoccus, Saccharomonospora, Staphylococcus, Serratia, Salmonella, Shigella, Thermoanaerobacterium, Tropheryma, Tularensis, Temecula, Thermosynechococcus, Thermococcus, Ureaplasma, Xanthomonas, Xylella, Yersinia and Zymomonas. In some embodiments, the host cell is a species of Agrobacterium, Acinetobacter, Azobacter, Bacillus, Bifidobacterium, Buchnera, Geobacillus, Campylobacter, Clostridium, Corynebacterium, Escherichia, Enterococcus, Erwinia, Flavobacterium, Lactobacillus, Lactococcus, Pantoea, Pseudomonas, Staphylococcus, Salmonella, Streptococcus, Streptomyces, or Zymomonas. In some embodiments, the bacterial host strain is non-pathogenic to humans. In some embodiments the bacterial host strain is an industrial strain. Numerous bacterial industrial strains are known and suitable in the present invention. In some embodiments of the present invention, the bacterial host cell is an Agrobacterium species (e.g., A. radiobacter, A. rhizogenes, and A. rubi). In some embodiments of the present invention, the bacterial host cell is an Arthrobacter species (e.g., A. aurescens, A. citreus, A. globformis, A. hydrocarboglutamicus, A. mysorens, A. nicotianae, A. paraffineus, A. protophonniae, A. roseoparqffinus, A. sulfureus, and A. ureafaciens). In some embodiments of the present invention, the bacterial host cell is a Bacillus species (e.g., B. thuringensis, B. anthracia, B. megaterium, B. subtilis, B. lentus, B. circulans, B. pumilus, B. lautus, B.coagulans, B. brevis, B. firmus, B. alkaophius, B. licheniformis, B. clausii, B. stearothermophilus, B. halodurans, and B. amyloliquefaciens). In some embodiments, the host cell is an industrial Bacillus strain including but not limited to B. subtilis, B. pumilus, B. licheniformis, B. megaterium, B. clausii, B. stearothermophilus, or B. amyloliquefaciens. In some embodiments, the Bacillus host cells are B. subtilis, B. licheniformis, B. megaterium, B. stearothermophilus, and/or B. amyloliquefaciens. In some embodiments, the bacterial host cell is a Clostridium species (e.g., C. acetobutylicum, C. tetani E88, C. lituseburense, C. saccharobutylicum, C. perfringens, and C. beijerinckii). In some embodiments, the bacterial host cell is a Corynebacterium species (e.g., C. glutamicum and C. acetoacidophilum). In some embodiments the bacterial host cell is a Escherichia species (e.g., E. coli). In some embodiments, the bacterial host cell is an Erwinia species (e.g., E. uredovora, E. carotovora, E. ananas, E. herbicola, E. punctata, and E. terreus). In some embodiments, the bacterial host cell is a Pantoea species (e.g., P. citrea, and P. agglomerans). In some embodiments the bacterial host cell is a Pseudomonas species (e.g., P. putida, P. aeruginosa, P. mevalonii, and P. sp. D-01 10). In some embodiments, the bacterial host cell is a Streptococcus species (e.g., S. equisimiles, S. pyogenes, and S. uberis). In some embodiments, the bacterial host cell is a Streptomyces species (e.g., S. ambofaciens, S. achromogenes, S. avermitilis, S. coelicolor, S. aureofaciens, S. aureus, S. fungicidicus, S. griseus, and S. lividans). In some embodiments, the bacterial host cell is a Zymomonas species (e.g., Z. mobilis, and Z. lipolytica).

[0245] Many prokaryotic and eukaryotic strains that find use in the present invention are readily available to the public from a number of culture collections such as American Type Culture Collection (ATCC), Deutsche Sammlung von Mikroorganismen and Zellkulturen GmbH (DSM), Centraalbureau Voor Schimmelcultures (CBS), and Agricultural Research Service Patent Culture Collection, Northern Regional Research Center (NRRL).

[0246] In some embodiments, host cells are genetically modified to have characteristics that improve protein secretion, protein stability and/or other properties desirable for expression and/or secretion of a protein. For example, knockout of Alp1 function results in a cell that is protease deficient. Knockout of pyr5 function results in a cell with a pyrimidine deficient phenotype. In some embodiments, the host cells are modified to delete endogenous cellulase protein-encoding sequences or otherwise eliminate expression of one or more endogenous cellulases. In some embodiments, expression of one or more endogenous cellulases is inhibited to increase production of cellulases of interest. Genetic modification can be achieved by genetic engineering techniques and/or classical microbiological techniques (e.g., chemical or UV mutagenesis and subsequent selection). Indeed, in some embodiments, combinations of recombinant modification and classical selection techniques are used to produce the host cells. Using recombinant technology, nucleic acid molecules can be introduced, deleted, inhibited or modified, in a manner that results in increased yields of xylanase and/or xylosidase within the host cell and/or in the culture medium. For example, knockout of Alp1 function results in a cell that is protease deficient, and knockout of pyr5 function results in a cell with a pyrimidine deficient phenotype. In one genetic engineering approach, homologous recombination is used to induce targeted gene modifications by specifically targeting a gene in vivo to suppress expression of the encoded protein. In alternative approaches, siRNA, antisense and/or ribozyme technology find use in inhibiting gene expression.

[0247] In some embodiments, host cells (e.g., Myceliophthora thermophila) used for expression of xylanase and/or xylosidases have been genetically modified to reduce the amount of endogenous cellobiose dehydrogenase (EC 1.1.3.4) and/or other enzymes activity that is secreted by the cell. A variety of methods are known in the art for reducing expression of protein in cells, including, but not limited to deletion of all or part of the gene encoding the protein and site-specific mutagenesis to disrupt expression or activity of the gene product. (See e.g., Chaveroche et al., Nucl. Acids Res., 28:22 e97

[2000]; Cho et al., MPMI 19: 1:7-15

[2006]; Maruyama and Kitamoto, Biotechnol Lett., 30:1811-1817

[2008]; Takahashi et al., Mol. Gen. Genom., 272: 344-352

[2004]; and You et al., Arch Micriobiol., 191:615-622

[2009], all of which are incorporated by reference herein). Random mutagenesis, followed by screening for desired mutations also finds use (See e.g., Combier et al., FEMS Microbiol Left 220:141-8

[2003]; and Firon et al., Eukary. Cell 2:247-55

[2003], both of which are incorporated by reference). In some embodiments, the host cell is modified to reduce production of endogenous cellobiose dehydrogenases. In some embodiments, the cell is modified to reduce production of cellobiose dehydrogenase (e.g., CDH1 or CDH2). In some embodiments, the host cell has less than 75%, sometimes less than 50%, sometimes less than 30%, sometimes less than 25%, sometimes less than 20%, sometimes less than 15%, sometimes less than 10%, sometimes less than 5%, and sometimes less than 1% of the cellobiose dehydrogenase (e.g., CDH1 and/or CDH2) activity of the corresponding cell in which the gene is not disrupted. Exemplary Myceliophthora thermophila cellobiose dehydrogenases include, but are not limited to CDH1 and CDH2. The genomic sequence for the Cdh1 encoding CDH1 has accession number AF074951.1. In one approach, gene disruption is achieved using genomic flanking markers (See e.g., Rothstein, Meth. Enzymol., 101:202-11

[1983]). In some embodiments, site-directed mutagenesis is used to target a particular domain of a protein, in some cases, to reduce enzymatic activity (e.g., glucose-methanol-choline oxido-reductase N and C domains of a cellobiose dehydrogenase or heme binding domain of a cellobiose dehydrogenase; See e.g., Rotsaert et al., Arch. Biochem. Biophys., 390:206-14

[2001], which is incorporated by reference herein in its entirety).

[0248] Introduction of a vector or DNA construct into a host cell can be accomplished using any suitable method known in the art, including but not limited to calcium phosphate transfection, DEAE-Dextran mediated transfection, PEG-mediated transformation, electroporation, or other common techniques known in the art.

[0249] In some embodiments, the engineered host cells (i.e., "recombinant host cells") of the present invention are cultured in conventional nutrient media modified as appropriate for activating promoters, selecting transformants, or amplifying the cellobiohydrolase polynucleotide. Culture conditions, such as temperature, pH and the like, are those previously used with the host cell selected for expression, and are well-known to those skilled in the art. As noted, many standard references and texts are available for the culture and production of many cells, including cells of bacterial, plant, animal (especially mammalian) and archebacterial origin.

[0250] In some embodiments, cells expressing the xylanase and/or xylosidase polypeptides of the invention are grown under batch or continuous fermentations conditions. Classical "batch fermentation" is a closed system, wherein the compositions of the medium is set at the beginning of the fermentation and is not subject to artificial alternations during the fermentation. A variation of the batch system is a "fed-batch fermentation" which also finds use in the present invention. In this variation, the substrate is added in increments as the fermentation progresses. Fed-batch systems are useful when catabolite repression is likely to inhibit the metabolism of the cells and where it is desirable to have limited amounts of substrate in the medium. Batch and fed-batch fermentations are common and well known in the art. "Continuous fermentation" is an open system where a defined fermentation medium is added continuously to a bioreactor and an equal amount of conditioned medium is removed simultaneously for processing. Continuous fermentation generally maintains the cultures at a constant high density where cells are primarily in log phase growth. Continuous fermentation systems strive to maintain steady state growth conditions. Methods for modulating nutrients and growth factors for continuous fermentation processes as well as techniques for maximizing the rate of product formation are well known in the art of industrial microbiology.

[0251] In some embodiments of the present invention, cell-free transcription/translation systems find use in producing xylanase and/or xylosidase. Several systems are commercially available and the methods are well-known to those skilled in the art.

[0252] The present invention provides methods of making xylanase and/or xylosidase polypeptides or biologically active fragments thereof. In some embodiments, the method comprises: providing a host cell transformed with a polynucleotide encoding an amino acid sequence that comprises at least about 70% (or at least about 75%, at least about 80%, at least about 85%, at least about 90%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, or at least about 99%) sequence identity to SEQ ID NO:2 and comprising at least one mutation as provided herein; culturing the transformed host cell in a culture medium under conditions in which the host cell expresses the encoded xylanase and/or xylosidase polypeptide; and optionally recovering or isolating the produced xylanase and/or xylosidase polypeptide, and/or recovering or isolating the culture medium containing the produced xylanase and/or xylosidase polypeptide. In some embodiments, the methods further provide optionally lysing the transformed host cells after expressing the encoded xylanase and/or xylosidase polypeptide and optionally recovering and/or isolating the produced xylanase and/or xylosidase polypeptide from the cell lysate. The present invention further provides methods of making a xylanase and/or xylosidase polypeptide comprising cultivating a host cell transformed with a xylanase and/or xylosidase polypeptide under conditions suitable for the production of the xylanase and/or xylosidase polypeptide and recovering the xylanase and/or xylosidase polypeptide. Typically, recovery or isolation of the xylanase and/or xylosidase polypeptide is from the host cell culture medium, the host cell or both, using protein recovery techniques that are well known in the art, including those described herein. In some embodiments, host cells are harvested by centrifugation, disrupted by physical or chemical means, and the resulting crude extract retained for further purification. Microbial cells employed in expression of proteins can be disrupted by any convenient method, including, but not limited to freeze-thaw cycling, sonication, mechanical disruption, and/or use of cell lysing agents, as well as many other suitable methods well known to those skilled in the art.

[0253] In some embodiments, the resulting polypeptide is recovered/isolated and optionally purified by any of a number of methods known in the art. For example, in some embodiments, the polypeptide is isolated from the nutrient medium by conventional procedures including, but not limited to, centrifugation, filtration, extraction, spray-drying, evaporation, chromatography (e.g., ion exchange, affinity, hydrophobic interaction, chromatofocusing, and size exclusion), or precipitation. In some embodiments, protein refolding steps are used, as desired, in completing the configuration of the mature protein. In addition, in some embodiments, high performance liquid chromatography (HPLC) is employed in the final purification steps. For example, in some embodiments, methods for purifying BGL known in the art, find use in the present invention (See e.g., Parry et al., Biochem. J., 353:117

[2001]; and Hong et al., Appl. Microbiol. Biotechnol., 73:1331

[2007], both incorporated herein by reference). Indeed, any suitable purification methods known in the art find use in the present invention.

[0254] In some embodiments, immunological methods are used to purify xylanase and/or xylosidase. In one approach, antibody raised against a xylanase and/or xylosidase polypeptide (e.g., against a polypeptide comprising any of SEQ ID NOS:2, 3, 5, 6, 8, and/or 9, and/or an immunogenic fragment thereof) using conventional methods is immobilized on beads, mixed with cell culture media under conditions in which the xylanase and/or xylosidase is bound, and precipitated. In a related approach, immunochromatography finds use.

[0255] In some embodiments, the xylanase and/or xylosidases are produced as a fusion protein including a non-enzyme portion. In some embodiments, the xylanase and/or xylosidase sequence is fused to a purification facilitating domain. As used herein, the term "purification facilitating domain" refers to a domain that mediates purification of the polypeptide to which it is fused. Suitable purification domains include, but are not limited to metal chelating peptides, histidine-tryptophan modules that allow purification on immobilized metals, a sequence which binds glutathione (e.g., GST), a hemagglutinin (HA) tag (corresponding to an epitope derived from the influenza hemagglutinin protein; See e.g., Wilson et al., Ce1137:767

[1984]), maltose binding protein sequences, the FLAG epitope utilized in the FLAGS extension/affinity purification system (e.g., the system available from Immunex Corp, Seattle, Wash.), and the like. One expression vector contemplated for use in the compositions and methods described herein provides for expression of a fusion protein comprising a polypeptide of the invention fused to a polyhistidine region separated by an enterokinase cleavage site. The histidine residues facilitate purification on IMIAC (immobilized metal ion affinity chromatography; See e.g., Porath et al., Prot. Exp. Purif., 3:263-281

[1992]) while the enterokinase cleavage site provides a means for separating the xylanase and/or xylosidase polypeptide from the fusion protein. pGEX vectors (Promega; Madison, Wis.) may also be used to express foreign polypeptides as fusion proteins with glutathione S-transferase (GST). In general, such fusion proteins are soluble and can easily be purified from lysed cells by adsorption to ligand-agarose beads (e.g., glutathione-agarose in the case of GST-fusions) followed by elution in the presence of free ligand.

[0256] The xylanase and/or xylosidases and biologically active fragments thereof as described herein have multiple industrial applications, including but not limited to, sugar production (e.g., glucose syrups), biofuels production, textile treatment, pulp or paper treatment, bio-based chemical production, and applications in detergents and/or animal feed. A host cell containing at least one xylanase and/or xylosidase of the present invention finds use without recovery and purification of the recombinant xylanase and/or xylosidase(s) (e.g., for use in a large scale biofermentor). Alternatively, recombinant xylanase and/or xylosidases are produced and purified from the host cell.

[0257] The xylanase and/or xylosidases provided herein are particularly useful in methods used to break down cellulose to smaller oligosaccharides, disaccharides and monosaccharides. In some embodiments, the xylanase and/or xylosidases are used in saccharification methods. In some embodiments, the xylanase and/or xylosidases are used in combination with other cellulase enzymes in conventional enzymatic saccharification methods to produce fermentable sugars. In some embodiments, the present invention provides methods for producing at least one end-product from a cellulosic substrate, the methods comprising contacting the cellulosic substrate with at least one xylanase and/or xylosidase as described herein (and optionally other cellulases) under conditions in which fermentable sugars are produced. The fermentable sugars are then used in a fermentation reaction comprising a microorganism (e.g., a yeast) to produce at least one end-product. In some embodiments, the methods further comprise pretreating the cellulosic substrate to increase its susceptibility to hydrolysis prior to contacting the cellulosic substrate with at least one xylanase and/or xylosidase (and optionally other cellulases).

[0258] In some embodiments, enzyme compositions comprising at least one xylanase and/or xylosidase of the present invention are reacted with a biomass substrate in the range of about 25° C. to about 100° C., about 30° C. to about 90° C., about 30° C. to about 80° C., or about 30° C. to about 70° C. Also the biomass may be reacted with the enzyme compositions at about 25° C., at about 30° C., at about 35° C., at about 40° C., at about 45° C., at about 50° C., at about 55° C., at about 60° C., at about 65° C., at about 70° C., at about 75° C., at about 80° C., at about 85° C., at about 90° C., at about 95° C. and at about 100° C. Generally the pH range will be from about pH 3.0 to about 8.5, about pH 3.5 to about 8.5, about pH 4.0 to about 7.5, about pH 4.0 to about 7.0 and about pH 4.0 to about 6.5. In some embodiments, the incubation time varies (e.g., from about 1.0 to about 240 hours, from about 5.0 to about 180 hrs and from about 10.0 to about 150 hrs). In some embodiments, the incubation time is at least about 1 hr, at least about 5 hrs, at least about 10 hrs, at least about 15 hrs, at least about 25 hrs, at least about 50 hr, at least about 100 hrs, at least about 180 hrs, etc. In some embodiments, incubation of the cellulase under these conditions and subsequent contact with the substrate results in the release of substantial amounts of fermentable sugars from the substrate (e.g., glucose when the cellulase is combined with β-glucosidase). For example, in some embodiments, at least about 20%, at least about 30%, at least about 40%, at least about 50%, at least about 60%, at least about 70%, at least about 80%, at least about 90% or more fermentable sugar is available as compared to the release of sugar by a reference enzyme.

[0259] In some embodiments, an "end-product of fermentation" is any product produced by a process including a fermentation step using a fermenting organism. Examples of end-products of a fermentation include, but are not limited to, alcohols (e.g., fuel alcohols such as ethanol and butanol), organic acids (e.g., citric acid, acetic acid, acrylic acid, lactic acid, gluconic acid, and succinic acid), glycerol, ketones, diols, amino acids (e.g., glutamic acid), antibiotics (e.g., penicillin and tetracycline), vitamins (e.g., beta-carotene and B12), hormones, and fuel molecules other than alcohols (e.g., hydrocarbons).

[0260] In some embodiments, the fermentable sugars produced by the methods of the present invention are used to produce at least one alcohol (e.g., ethanol, butanol, etc.). The xylanase and/or xylosidases of the present invention find use in any method suitable for the generation of alcohols or other biofuels from cellulose. It is not intended that the present invention be limited to the specific methods provided herein. Two methods commonly employed are separate saccharification and fermentation (SHF) methods (See e.g., Wilke et al., Biotechnol. Bioengin., 6:155-75

[1976]) and simultaneous saccharification and fermentation (SSF) methods (See e.g., U.S. Pat. Nos. 3,990,944 and 3,990,945). In some embodiments, the SHF saccharification method comprises the steps of contacting a cellulase with a cellulose containing substrate to enzymatically break down cellulose into fermentable sugars (e.g., monosaccharides such as glucose), contacting the fermentable sugars with an alcohol-producing microorganism to produce alcohol (e.g., ethanol or butanol) and recovering the alcohol. In some embodiments, the method of consolidated bioprocessing (CBP) finds use, in which the cellulase production from the host is simultaneous with saccharification and fermentation either from one host or from a mixed cultivation. In addition, SSF methods find use in the present invention. In some embodiments, SSF methods provide a higher efficiency of alcohol production than that provided by SHF methods (See e.g., Drissen et al., Biocat. Biotrans., 27:27-35

[2009]).

[0261] In some embodiments, for cellulosic substances to be effectively used as substrates for the saccharification reaction in the presence of a cellulase of the present invention, it is desirable to pretreat the substrate. Means of pretreating a cellulosic substrate are well-known in the art, including but not limited to chemical pretreatment (e.g., ammonia pretreatment, dilute acid pretreatment, dilute alkali pretreatment, or solvent exposure), physical pretreatment (e.g., steam explosion or irradiation), mechanical pretreatment (e.g., grinding or milling) and biological pretreatment (e.g., application of lignin-solubilizing microorganisms), and the present invention is not limited by such methods.

[0262] In some embodiments, any suitable alcohol-producing microorganism known in the art (e.g., Saccharomyces cerevisiae), finds use in the present invention for the fermentation of fermentable sugars to alcohols and other end-products. The fermentable sugars produced from the use of the xylanase and/or xylosidase(s) provided by the present invention find use in the production of other end-products besides alcohols, including, but not limited to biofuels and/or biofuels compounds, acetone, amino acids (e.g., glycine, lysine, etc.), organic acids (e.g., lactic acids, etc.), glycerol, ascorbic acid, diols (e.g., 1,3-propanediol, butanediol, etc.), vitamins, hormones, antibiotics, other chemicals, and animal feeds. In addition, the xylanase and/or xylosidases provided herein further find use in the pulp and paper industry. Indeed, it is not intended that the present invention be limited to any particular end-products.

[0263] In some embodiments, the present invention provides an enzyme mixture that comprises at least one xylanase and/or xylosidase polypeptide as provided herein. The enzyme mixture may be cell-free, or in alternative embodiments, may not be separated from host cells that secrete an enzyme mixture component. A cell-free enzyme mixture typically comprises enzymes that have been separated from cells. Cell-free enzyme mixtures can be prepared by any of a variety of methodologies that are known in the art, such as filtration or centrifugation methodologies. In some embodiments, the enzyme mixtures are partially cell-free, substantially cell-free, or entirely cell-free.

[0264] In some embodiments, at least one xylanase and/or xylosidase and any additional enzymes present in the enzyme mixture are secreted from a single genetically modified fungal cell or by different microbes in combined or separate fermentations. Similarly, in additional embodiments, the xylanase and/or xylosidase(s) and any additional enzymes present in the enzyme mixture are produced individually or in sub-groups from different strains of different organisms and the enzymes are combined in vitro to make the enzyme mixture. It is also contemplated that the xylanase and/or xylosidase(s) and any additional enzymes in the enzyme mixture will be produced individually or in sub-groups from different strains of a single organism, and the enzymes combined to make the enzyme mixture. In some embodiments, all of the enzymes are produced from a single host organism, such as a genetically modified fungal cell.

[0265] In some embodiments, the enzyme mixture comprises at least one cellulase, selected from cellobiohydrolase (CBH), endoglucanase (EG), glycoside hydrolase 61 (GH61) and/or beta-glucosidase (BGL). In some embodiments, the cellobiohydrolase is T. reesei cellobiohydrolase II. In some embodiments, the endoglucanase comprises a catalytic domain derived from the catalytic domain of a Streptomyces avermitilis endoglucanase. In some embodiments, at least one cellulase is Acidothermus cellulolyticus, Thermobifida fusca, Humicola grisea, and/or a Chrysosporium sp. cellulase. Cellulase enzymes of the cellulase mixture work together in decrystallizing and hydrolyzing the cellulose from a biomass substrate to yield fermentable sugars, such as but not limited to glucose (See e.g., Brigham et al. in Wyman ([ed.], Handbook on Bioethanol, Taylor and Francis, Washington D.C.

[1995], pp 119-141, incorporated herein by reference). Indeed, it is not intended that the present invention be limited to any enzyme compositions comprising any particular cellulase component(s), as various combinations of cellulases find use in the enzyme compositions of the present invention.

[0266] Cellulase mixtures for efficient enzymatic hydrolysis of cellulose are known (See e.g., Viikari et al., Adv. Biochem. Eng. Biotechnol., 108:121-45

[2007]; and US Pat. Publns. 2009/0061484; US 2008/0057541; and US 2009/0209009, each of which is incorporated herein by reference). In some embodiments, mixtures of purified naturally occurring or recombinant enzymes are combined with cellulosic feedstock or a product of cellulose hydrolysis. In some embodiments, one or more cell populations, each producing one or more naturally occurring or recombinant cellulases, are combined with cellulosic feedstock or a product of cellulose hydrolysis.

[0267] In some embodiments, at least one xylanase and/or xylosidase polypeptide of the present invention is present in mixtures comprising enzymes other than cellulases that degrade cellulose, hemicellulose, pectin, and/or lignocellulose.

[0268] Cellulase mixtures for efficient enzymatic hydrolysis of cellulose are known (See e.g., Viikari et al., Adv. Biochem. Eng. Biotechnol., 108:121-45

[2007]; and US Pat. Publns. 2009/0061484; US 2008/0057541; and US 2009/0209009, each of which is incorporated herein by reference). In some embodiments, mixtures of purified naturally occurring or recombinant enzymes are combined with cellulosic feedstock or a product of cellulose hydrolysis. In some embodiments, one or more cell populations, each producing one or more naturally occurring or recombinant cellulases, are combined with cellulosic feedstock or a product of cellulose hydrolysis.

[0269] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one endoxylanase. Endoxylanases (EC 3.2.1.8) catalyze the endohydrolysis of 1,4-β-D-xylosidic linkages in xylans. This enzyme may also be referred to as endo-1,4-β-xylanase or 1,4-β-D-xylan xylanohydrolase. In some embodiments, an alternative is EC 3.2.1.136, a glucuronoarabinoxylan endoxylanase, an enzyme that is able to hydrolyze 1,4 xylosidic linkages in glucuronoarabinoxylans.

[0270] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one alpha-L-arabinofuranosidase. Alpha-L-arabinofuranosidases (EC 3.2.1.55) catalyze the hydrolysis of terminal non-reducing alpha-L-arabinofuranoside residues in alpha-L-arabinosides. The enzyme acts on alpha-L-arabinofuranosides, alpha-L-arabinans containing (1,3)- and/or (1,5)-linkages, arabinoxylans, and arabinogalactans. Alpha-L-arabinofuranosidase is also known as arabinosidase, alpha-arabinosidase, alpha-L-arabinosidase, alpha-arabinofuranosidase, arabinofuranosidase, polysaccharide alpha-L-arabinofuranosidase, alpha-L-arabinofuranoside hydrolase, L-arabinosidase and alpha-L-arabinanase.

[0271] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one alpha-glucuronidase. Alpha-glucuronidases (EC 3.2.1.139) catalyze the hydrolysis of an alpha-D-glucuronoside to D-glucuronate and an alcohol.

[0272] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one acetylxylanesterase. Acetylxylanesterases (EC 3.1.1.72) catalyze the hydrolysis of acetyl groups from polymeric xylan, acetylated xylose, acetylated glucose, alpha-napthyl acetate, and p-nitrophenyl acetate.

[0273] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one feruloyl esterase. Feruloyl esterases (EC 3.1.1.73) have 4-hydroxy-3-methoxycinnamoyl-sugar hydrolase activity (EC 3.1.1.73) that catalyzes the hydrolysis of the 4-hydroxy-3-methoxycinnamoyl (feruloyl) group from an esterified sugar, which is usually arabinose in "natural" substrates, to produce ferulate (4-hydroxy-3-methoxycinnamate). Feruloyl esterase is also known as ferulic acid esterase, hydroxycinnamoyl esterase, FAE-III, cinnamoyl ester hydrolase, FAEA, cinnAE, FAE-I, or FAE-II.

[0274] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one coumaroyl esterase. Coumaroyl esterases (EC 3.1.1.73) catalyze a reaction of the form: coumaroyl-saccharide+H₂O=coumarate+saccharide. In some embodiments, the saccharide is an oligosaccharide or a polysaccharide. This enzyme may also be referred to as trans-4-coumaroyl esterase, trans-p-coumaroyl esterase, p-coumaroyl esterase or p-coumaric acid esterase. The enzyme also falls within EC 3.1.1.73 so may also be referred to as a feruloyl esterase.

[0275] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one alpha-galactosidase. Alpha-galactosidases (EC 3.2.1.22) catalyze the hydrolysis of terminal, non-reducing α-D-galactose residues in α-D-galactosides, including galactose oligosaccharides, galactomannans, galactans and arabinogalactans. This enzyme may also be referred to as melibiase.

[0276] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one beta-galactosidase. Beta-galactosidases (EC 3.2.1.23) catalyze the hydrolysis of terminal non-reducing β-D-galactose residues in beta-D-galactosides. In some embodiments, the polypeptide is also capable of hydrolyzing alpha-L-arabinosides. This enzyme may also be referred to as exo-(1->4)-β-D-galactanase or lactase.

[0277] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one beta-mannanase. Beta-mannanases (EC 3.2.1.78) catalyze the random hydrolysis of 1,4-beta-D-mannosidic linkages in mannans, galactomannans and glucomannans. This enzyme may also be referred to as mannan endo-1,4-beta-mannosidase or endo-1,4-mannanase.

[0278] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one beta-mannosidase. Beta-mannosidases (EC 3.2.1.25) catalyze the hydrolysis of terminal, non-reducing beta-D-mannose residues in beta-D-mannosides. This enzyme may also be referred to as mannanase or mannase.

[0279] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one glucoamylase. Glucoamylases (EC 3.2.1.3) catalyzes the release of D-glucose from non-reducing ends of oligo- and polysaccharide molecules. Glucoamylase is also generally considered a type of amylase known as amylo-glucosidase.

[0280] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one amylase. Amylases (EC 3.2.1.1) are starch cleaving enzymes that degrade starch and related compounds by hydrolyzing the alpha-1,4 and/or alpha-1,6 glucosidic linkages in an endo- or an exo-acting fashion. Amylases include alpha-amylases (EC 3.2.1.1); beta-amylases (3.2.1.2), amylo-amylases (EC 3.2.1.3), alpha-glucosidases (EC 3.2.1.20), pullulanases (EC 3.2.1.41), and isoamylases (EC 3.2.1.68). In some embodiments, the amylase is an alpha-amylase.

[0281] In some embodiments one or more enzymes that degrade pectin are included in enzyme mixtures that comprise at least one xylanase and/or xylosidase of the present invention. A pectinase catalyzes the hydrolysis of pectin into smaller units such as oligosaccharide or monomeric saccharides. In some embodiments, the enzyme mixtures comprise any pectinase, for example an endo-polygalacturonase, a pectin methyl esterase, an endo-galactanase, a pectin acetyl esterase, an endo-pectin lyase, pectate lyase, alpha rhamnosidase, an exo-galacturonase, an exo-polygalacturonate lyase, a rhamnogalacturonan hydrolase, a rhamnogalacturonan lyase, a rhamnogalacturonan acetyl esterase, a rhamnogalacturonan galacturonohydrolase and/or a xylogalacturonase.

[0282] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one endo-polygalacturonase. Endo-polygalacturonases (EC 3.2.1.15) catalyze the random hydrolysis of 1,4-alpha-D-galactosiduronic linkages in pectate and other galacturonans. This enzyme may also be referred to as polygalacturonase pectin depolymerase, pectinase, endopolygalacturonase, pectolase, pectin hydrolase, pectin polygalacturonase, poly-alpha-1,4-galacturonide glycanohydrolase, endogalacturonase; endo-D-galacturonase or poly(1,4-alpha-D-galacturonide) glycanohydrolase.

[0283] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one pectin methyl esterase. Pectin methyl esterases (EC 3.1.1.11) catalyze the reaction: pectin+n H₂O=n methanol+pectate. The enzyme may also been known as pectin esterase, pectin demethoxylase, pectin methoxylase, pectin methylesterase, pectase, pectinoesterase or pectin pectylhydrolase.

[0284] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one endo-galactanase. Endo-galactanases (EC 3.2.1.89) catalyze the endohydrolysis of 1,4-beta-D-galactosidic linkages in arabinogalactans. The enzyme may also be known as arabinogalactan endo-1,4-beta-galactosidase, endo-1,4-beta-galactanase, galactanase, arabinogalactanase or arabinogalactan 4-beta-D-galactanohydrolase.

[0285] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one pectin acetyl esterase. Pectin acetyl esterases catalyze the deacetylation of the acetyl groups at the hydroxyl groups of GalUA residues of pectin.

[0286] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one endo-pectin lyase. Endo-pectin lyases (EC 4.2.2.10) catalyze the eliminative cleavage of (1→4)-alpha-D-galacturonan methyl ester to give oligosaccharides with 4-deoxy-6-O-methyl-alpha-D-galact-4-enuronosyl groups at their non-reducing ends. The enzyme may also be known as pectin lyase, pectin trans-eliminase; endo-pectin lyase, polymethylgalacturonic transeliminase, pectin methyltranseliminase, pectolyase, PL, PNL or PMGL or (1→4)-6-O-methyl-alpha-D-galacturonan lyase.

[0287] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one pectate lyase. Pectate lyases (EC 4.2.2.2) catalyze the eliminative cleavage of (1→4)-alpha-D-galacturonan to give oligosaccharides with 4-deoxy-alpha-D-galact-4-enuronosyl groups at their non-reducing ends. The enzyme may also be known polygalacturonic transeliminase, pectic acid transeliminase, polygalacturonate lyase, endopectin methyltranseliminase, pectate transeliminase, endogalacturonate transeliminase, pectic acid lyase, pectic lyase, alpha-1,4-D-endopolygalacturonic acid lyase, PGA lyase, PPase-N, endo-alpha-1,4-polygalacturonic acid lyase, polygalacturonic acid lyase, pectin trans-eliminase, polygalacturonic acid trans-eliminase or (1→4)-alpha-D-galacturonan lyase.

[0288] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one alpha-rhamnosidase. Alpha-rhamnosidases (EC 3.2.1.40) catalyze the hydrolysis of terminal non-reducing alpha-L-rhamnose residues in alpha-L-rhamnosides or alternatively in rhamnogalacturonan. This enzyme may also be known as alpha-L-rhamnosidase T, alpha-L-rhamnosidase N or alpha-L-rhamnoside rhamnohydrolase.

[0289] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one exo-galacturonase. Exo-galacturonases (EC 3.2.1.82) hydrolyze pectic acid from the non-reducing end, releasing digalacturonate. The enzyme may also be known as exo-poly-a-galacturonosidase, exopolygalacturonosidase or exopolygalacturanosidase.

[0290] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one exo-galacturan 1,4-alpha galacturonidase. Exo-galacturonases (EC 3.2.1.67) catalyze a reaction of the following type: (1,4-alpha-D-galacturonide)n+H2O=(1,4-alpha-D-galacturonide)n-i+D-galactu- ronate. The enzyme may also be known as poly [1->4) alpha-D-galacturonide] galacturonohydrolase, exopolygalacturonase, poly(galacturonate) hydrolase, exo-D-galacturonase, exo-D-galacturonanase, exopoly-D-galacturonase or poly(1,4-alpha-D-galacturonide) galacturonohydrolase.

[0291] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one exopolygalacturonate lyase. Exopolygalacturonate lyases (EC 4.2.2.9) catalyze eliminative cleavage of 4-(4-deoxy-alpha-D-galact-4-enuronosyl)-D-galacturonate from the reducing end of pectate (i.e., de-esterified pectin). This enzyme may be known as pectate disaccharide-lyase, pectate exo-lyase, exopectic acid transeliminase, exopectate lyase, exopolygalacturonic acid-trans-eliminase, PATE, exo-PATE, exo-PGL or (1→4)-alpha-D-galacturonan reducing-end-disaccharide-lyase.

[0292] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one rhamnogalacturonanase Rhamnogalacturonanases hydrolyze the linkage between galactosyluronic acid and rhamnopyranosyl in an endo-fashion in strictly alternating rhamnogalacturonan structures, consisting of the disaccharide [(1,2-alpha-L-rhamnoyl-(1,4)-alpha-galactosyluronic acid].

[0293] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one rhamnogalacturonan lyase Rhamnogalacturonan lyases cleave alpha-L-Rhap-(1→4)-alpha-D-GalpA linkages in an endo-fashion in rhamnogalacturonan by beta-elimination.

[0294] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one rhamnogalacturonan acetyl esterase Rhamnogalacturonan acetyl esterases catalyze the deacetylation of the backbone of alternating rhamnose and galacturonic acid residues in rhamnogalacturonan.

[0295] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one rhamnogalacturonan galacturonohydrolase Rhamnogalacturonan galacturonohydrolases hydrolyze galacturonic acid from the non-reducing end of strictly alternating rhamnogalacturonan structures in an exo-fashion. This enzyme may also be known as xylogalacturonan hydrolase.

[0296] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one endo-arabinanase. Endo-arabinanases (EC 3.2.1.99) catalyze endohydrolysis of 1,5-alpha-arabinofuranosidic linkages in 1,5-arabinans. The enzyme may also be known as endo-arabinase, arabinan endo-1,5-alpha-L-arabinosidase, endo-1,5-alpha-L-arabinanase, endo-alpha-1,5-arabanase; endo-arabanase or 1,5-alpha-L-arabinan 1,5-alpha-L-arabinanohydrolase.

[0297] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one enzyme that participates in lignin degradation in an enzyme mixture. Enzymatic lignin depolymerization can be accomplished by lignin peroxidases, manganese peroxidases, laccases and cellobiose dehydrogenases (CDH), often working in synergy. These extracellular enzymes are often referred to as "lignin-modifying enzymes" or "LMEs." Three of these enzymes comprise two glycosylated heme-containing peroxidases: lignin peroxidase (LIP); Mn-dependent peroxidase (MNP); and, a copper-containing phenoloxidase laccase (LCC).

[0298] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one laccase. Laccases are copper containing oxidase enzymes that are found in many plants, fungi and microorganisms. Laccases are enzymatically active on phenols and similar molecules and perform a one electron oxidation. Laccases can be polymeric and the enzymatically active form can be a dimer or trimer.

[0299] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one Mn-dependent peroxidase. The enzymatic activity of Mn-dependent peroxidase (MnP) in is dependent on Mn2+. Without being bound by theory, it has been suggested that the main role of this enzyme is to oxidize Mn2+ to Mn3+ (See e.g, Glenn et al., Arch. Biochem. Biophys., 251:688-696

[1986]). Subsequently, phenolic substrates are oxidized by the Mn3+ generated.

[0300] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one lignin peroxidase. Lignin peroxidase is an extracellular heme that catalyses the oxidative depolymerization of dilute solutions of polymeric lignin in vitro. Some of the substrates of LiP, most notably 3,4-dimethoxybenzyl alcohol (veratryl alcohol, VA), are active redox compounds that have been shown to act as redox mediators. VA is a secondary metabolite produced at the same time as LiP by ligninolytic cultures of P. chrysosporium and without being bound by theory, has been proposed to function as a physiological redox mediator in the LiP-catalyzed oxidation of lignin in vivo (See e.g., Harvey, et al., FEBS Lett., 195:242-246

[1986]).

[0301] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one protease, amylase, glucoamylase, and/or a lipase that participates in cellulose degradation.

[0302] As used herein, the term "protease" includes enzymes that hydrolyze peptide bonds (peptidases), as well as enzymes that hydrolyze bonds between peptides and other moieties, such as sugars (glycopeptidases). In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one protease. Many proteases are characterized under EC 3.4, and are suitable for use in the present invention. Some suitable proteases include, but are not limited to cysteine proteases including pepsin, papain and serine proteases including chymotrypsins, carboxypeptidases and metalloendopeptidases.

[0303] As used herein, the term "lipase" includes enzymes that hydrolyze lipids, fatty acids, and acylglycerides, including phosphoglycerides, lipoproteins, diacylglycerols, and the like. In plants, lipids are used as structural components to limit water loss and pathogen infection. These lipids include waxes derived from fatty acids, as well as cutin and suberin. In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one lipase.

[0304] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one expansin or expansin-like protein, such as a swollenin (See e.g., Salheimo et al., Eur. J. Biochem., 269:4202-4211

[2002]) or a swollenin-like protein. Expansins are implicated in loosening of the cell wall structure during plant cell growth. Expansins have been proposed to disrupt hydrogen bonding between cellulose and other cell wall polysaccharides without comprising hydrolytic activity. In this way, they are thought to allow the sliding of cellulose fibers and enlargement of the cell wall. Swollenin, an expansin-like protein contains an N-terminal Carbohydrate Binding Module Family 1 domain (CBD) and a C-terminal expansin-like domain. In some embodiments, an expansin-like protein or swollenin-like protein comprises one or both of such domains and/or disrupts the structure of cell walls (such as disrupting cellulose structure), optionally without producing detectable amounts of reducing sugars.

[0305] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one polypeptide product of a cellulose integrating protein, scaffoldin or a scaffoldin-like protein, for example CipA or CipC from Clostridium thermocellum or Clostridium cellulolyticum respectively. Scaffoldins and cellulose integrating proteins are multi-functional integrating subunits which may organize cellulolytic subunits into a multi-enzyme complex. This is accomplished by the interaction of two complementary classes of domain (i.e. a cohesion domain on scaffoldin and a dockerin domain on each enzymatic unit). The scaffoldin subunit also bears a cellulose-binding module that mediates attachment of the cellulosome to its substrate. A scaffoldin or cellulose integrating protein for the purposes of this invention may comprise one or both of such domains.

[0306] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one cellulose induced protein or modulating protein, for example as encoded by cip1 or cip2 gene or similar genes from Trichoderma reesei (See e.g., Foreman et al., J. Biol. Chem., 278:31988-31997

[2003]).

[0307] In some additional embodiments, the present invention provides at least one xylanase and/or xylosidase and at least one member of each of the classes of the polypeptides described above, several members of one polypeptide class, or any combination of these polypeptide classes to provide enzyme mixtures suitable for various uses.

[0308] In some embodiments, the enzyme mixture comprises other types of cellulases, selected from but not limited to cellobiohydrolase, endoglucanase, beta-glucosidase, and glycoside hydrolase 61 protein (GH61) cellulases. These enzymes may be wild-type or recombinant enzymes. In some embodiments, the cellobiohydrolase is a type 1 cellobiohydrolase (e.g., a T. reesei cellobiohydrolase I). In some embodiments, the endoglucanase comprises a catalytic domain derived from the catalytic domain of a Streptomyces avermitilis endoglucanase (See e.g., US Pat. Appln. Pub. No. 2010/0267089, incorporated herein by reference). In some embodiments, the at least one cellulase is derived from Acidothermus cellulolyticus, Thermobifida fusca, Humicola grisea, Myceliophthora thermophila, Chaetomium thermophilum, Acremonium sp., Thielavia sp, Trichoderma reesei, Aspergillus sp., or a Chrysosporium sp. Cellulase enzymes in the cellulase mixtures work together resulting in decrystallization and hydrolysis of the cellulose from a biomass substrate to yield fermentable sugars, such as but not limited to glucose.

[0309] Some cellulase mixtures for efficient enzymatic hydrolysis of cellulose are known (See e.g., Viikari et al., Adv. Biochem. Eng. Biotechnol., 108:121-45

[2007]; and US Pat. Appln. Publn. Nos. US 2009/0061484, US 2008/0057541, and US 2009/0209009, each of which is incorporated herein by reference in their entireties). In some embodiments, mixtures of purified naturally occurring or recombinant enzymes are combined with cellulosic feedstock or a product of cellulose hydrolysis. Alternatively or in addition, one or more cell populations, each producing one or more naturally occurring or recombinant cellulases, are combined with cellulosic feedstock or a product of cellulose hydrolysis.

[0310] In some embodiments, the enzyme mixture comprises commercially available purified cellulases. Commercial cellulases are known and available (e.g., C2730 cellulase from Trichoderma reesei ATCC No. 25921 available from Sigma-Aldrich, Inc.).

[0311] In some embodiments, the enzyme mixture comprises at least one xylanase and/or xylosidase as provided herein and at least one or more cellobiohydrolase type 1a such as a CBH1a, CBH2b, endoglucanase (EG) such as a type 2 endoglucanase (EG2) or type 1 endoglucanse (EG1),β-glucosidase (Bgl), and/or a glycoside hydrolase 61 protein (GH61). In some embodiments, at least about 5%, at least about 6%, at least about 7%, at least about 8%, at least about 9%, at least about 10%, at least about 11%, at least about 12%, at least about 13%, at least about 14%, at least about 15%, at least about 20%, at least about 25%, at least about 30%, at least about 35%, at least about 40%, at least about 45%, or at least about 50% of the enzyme mixture comprises at least one xylanase and/or xylosidase. In some embodiments, the enzyme mixture further comprises at least one cellobiohydrolase type 1 (e.g., CBH1a), cellobiohydrolase type 2 (e.g., CBH2b), and at least one xylanase and/or xylosidase, wherein the enzymes together comprise at least about 25%, at least about 30%, at least about 35%, at least about 40%, at least about 45%, at least about 50%, at least about 55%, at least about 60%, at least about 65%, at least about 70%, at least about 75%, or at least about 80% of the enzyme mixture. In some embodiments, the enzyme mixture further comprises at least one β-glucosidase (Bgl), at least one xylanase and/or xylosidase, CBH1a, and CBH2b, wherein the four/five enzymes together comprise at least about 30%, at least about 35%, at least about 40%, at least about 45%, at least about 50%, at least about 55%, at least about 60%, at least about 65%, at least about 70%, at least about 75%, at least about 80%, or at least about 85% of the enzyme mixture.

[0312] In some embodiments, the enzyme mixture further comprises at least one additional endoglucanase (e.g., EG2 and/or EG1), xylanase and/or xylosidase, CBH2b, CBH1a, and/or Bg1, wherein the five enzymes together comprise at least about 35%, at least about 40%, at least about 45%, at least about 50%, at least about 55%, at least about 60%, at least about 65%, at least about 70%, at least about 75%, at least about 80%, at least about 85%, or at least about 90% of the enzyme mixture.

[0313] In some embodiments, the enzyme mixture comprises at least one or a combination of xylanase and/or xylosidase, CBH2b, CBH1a, Bg1, EG2, EG1, and/or glycoside hydrolase 61 protein (GH61), in any suitable proportion for the desired reaction. In some embodiments, the enzyme mixture composition comprises isolated cellulases in the following proportions by weight (wherein the total weight of the cellulases is 100%): about 20% to about 5% of xylanase and/or xylosidase, about 20% to about 10% of Bg1, about 30% to about 15% of CBH1a, about 50% to about 0% of GH61, and about 10% to about 25% of CBH2b. In some embodiments, the enzyme mixture composition comprises isolated cellulases in the following proportions by weight: about 20% to about 10% of xylanase and/or xylosidase, about 25% to about 15% of Bg1, about 20% to about 30% of CBH1a, about 10% to about 15% of GH61, and about 25% to about 30% of CBH2b. In some embodiments, the enzyme mixture composition comprises isolated cellulases in the following proportions by weight: about 10% to about 15% of xylanase and/or xylosidase, about 20% to about 25% of Bg1, about 30% to about 20% of CBH1a, about 15% to about 5% of GH61, and about 25% to about 35% of CBH2b. In some embodiments, the enzyme mixture composition comprises isolated cellulases in the following proportions by weight: about 15% to about 5% of xylanase and/or xylosidase, about 15% to about 10% of Bg1, about 45% to about 30% of CBH1a, about 25% to about 5% of GH61, and about 40% to about 10% of CBH2b. In some embodiments, the enzyme mixture composition comprises isolated cellulases in the following proportions by weight: about 10% of xylanase and/or xylosidase, about 15% of Bg1, about 40% of CBH1a, about 25% of GH61, and about 10% of CBH2b. In some embodiments, the enzyme mixture comprises isolated cellulases in the following proportions by weight: about 12% xylanase and/or xylosidase, about 33% GH61, about 10% Bg1, about 22% CBH1a, and about 23% CBH2b/EG2. In some other embodiments, the enzyme mixture comprises cellulases in the following proportions by weight: about 9% xylanase and/or xylosidase, about 9% EG2, about 28% GH61, about 10% about BGL1, about 30% CBH1a, and about 14% CBH2b. In some further embodiments, the enzyme mixture comprises cellulases in the following proportions: about 2% to about 100% xylanase and/or xylosidase, about 0% to about 35% Bg1, about 0% to about 75% CBH1 (i.e., CBH1a and/or b), about 0% to about 75% CBH2 (i.e., CBH2a and/or CBH2b), about 0% to about 50% EG (i.e., EG2 and/or EG1, etc.), and/or about 0% to about 50% GH61 (i.e., GH61a, etc.). In some additional embodiments, the enzyme compositions comprise further enzymes.

[0314] In some embodiments, additional enzymes, such as other cellulases, esterases, amylases, proteases, glucoamylases, etc., are included in the enzyme mixtures. Indeed, it is not intended that the present invention be limited to any particular enzyme composition and/or any particular additional enzymes, as any suitable enzyme and/or composition find use in the present invention. It is also not intended that the present invention be limited to any particular combinations nor proportions of cellulases in the enzyme mixture, as any suitable combinations of cellulases and/or proportions of cellulases find use in various embodiments of the invention. In addition to the use of a single xylanase and/or xylosidase, any combination of xylanase and/or xylosidases provided herein find use in these embodiments.

[0315] In some embodiments, the enzyme component comprises more than one CBH2b, CBH1a, EG, Bg1, and/or GH61 enzyme (e.g., 2, 3 or 4 different variants of one or more of these enzymes) in addition to at least one xylanase and/or xylosidase, in any suitable combination. In some embodiments, an enzyme mixture composition of the invention further comprises at least one additional protein and/or enzyme. In some embodiments, enzyme mixture compositions of the present invention further comprise at least one additional enzyme other than Bg1, CBH1a, GH61, and/or CBH2b. In some embodiments, the enzyme mixture compositions of the invention further comprise at least one additional cellulase, other than the xylanase and/or xylosidase, EG2, EG1, Bg1, CBH1a, GH61, and/or CBH2b recited herein. In some embodiments, the xylanase and/or xylosidase polypeptide of the invention is also present in mixtures with non-cellulase enzymes that degrade cellulose, hemicellulose, pectin, and/or lignocellulose.

[0316] In some embodiments, xylanase and/or xylosidase polypeptide of the present invention is used in combination with other optional ingredients such as at least one buffer, surfactant, and/or scouring agent. In some embodiments, at least one buffer is used with the xylanase and/or xylosidase polypeptide of the present invention (optionally combined with other enzymes) to maintain a desired pH within the solution in which the xylanase and/or xylosidase is employed. The exact concentration of buffer employed depends on several factors which the skilled artisan can determine Suitable buffers are well known in the art. In some embodiments, at least one surfactant is used in with the xylanase and/or xylosidase(s) of the present invention. Suitable surfactants include any surfactant compatible with the xylanase and/or xylosidase(s) and, optionally, with any other enzymes being used in the mixture. Exemplary surfactants include anionic, non-ionic, and ampholytic surfactants. Indeed, it indeed that any suitable surfactant will find use in the present invention. Suitable anionic surfactants include, but are not limited to, linear or branched alkylbenzenesulfonates; alkyl or alkenyl ether sulfates comprising linear or branched alkyl groups or alkenyl groups; alkyl or alkenyl sulfates; olefinsulfonates; alkanesulfonates, and the like. Suitable counter ions for anionic surfactants include, for example, alkali metal ions, such as sodium and potassium; alkaline earth metal ions, such as calcium and magnesium; ammonium ion; and alkanolamines comprising from 1 to 3 alkanol groups of carbon number 2 or 3. Ampholytic surfactants suitable for use in the practice of the present invention include, for example, quaternary ammonium salt sulfonates, betaine-type ampholytic surfactants, and the like. Suitable nonionic surfactants generally include polyoxalkylene ethers, as well as higher fatty acid alkanolamides or alkylene oxide adduct thereof, fatty acid glycerine monoesters, and the like. Mixtures of surfactants also find use in the present invention, as is known in the art.

[0317] The foregoing and other aspects of the invention may be better understood in connection with the following non-limiting examples.

EXPERIMENTAL

[0318] The present invention is described in further detail in the following Examples, which are not in any way intended to limit the scope of the invention as claimed.

[0319] In the experimental disclosure below, the following abbreviations apply: ppm (parts per million); M (molar); mM (millimolar), uM and μM (micromolar); nM (nanomolar); mol (moles); gm and g (gram); mg (milligrams); ug and μg (micrograms); L and l (liter); ml and mL (milliliter); ul, uL, μL, and μl (microliter); cm (centimeters); mm (millimeters); um and μm (micrometers); sec. and """(i.e., quote symbol) (seconds); min(s) and""" (i.e., an apostrophe) (minute(s)); h(s) and hr(s) (hour(s)); U (units); MW (molecular weight); rpm (rotations per minute); rt (room temperature); ° C. (degrees Centigrade); DNA (deoxyribonucleic acid); RNA (ribonucleic acid); HPLC (high pressure liquid chromatography); MES (2-N-morpholino ethanesulfonic acid); Calbiochem (Calbiochem, available from EMD Millipore Corp., Billerica, Mass.); Finnzymes (Finnzymes, part of Thermo Fisher Scientific, Lafayette, Colo.); NEB (New England Biolabs, Ipswich, Mass.); Megazyme (Megazyme International Ireland, Ltd., Wicklow, Ireland); Sigma-Aldrich (Sigma-Aldrich, St. Louis, Mo.); Infors (Infors AG, Bottminger/Basel, Switzerland); Difco (Difco Laboratories, BD Diagnostic Systems, Detroit, Mich.); KapaBiosystems (KapaBiosystems, Inc., Woburn, Mass.); Stratagene (Stratagene, now an Agilent Technologies company); Agilent (Agilent Technologies, Inc., Santa Clara, Calif.); Molecular Devices (Molecular Devices, Sunnyvale, Calif.); Symbio (Symbio, Inc., Menlo Park, Calif.); USBio (US Biological, Swampscott, Mass.); Qiagen (Qiagen Inc., Germantown, Md.); and Bio-Rad (Bio-Rad Laboratories, Hercules, Calif.).

[0320] Various culture media find use in the present invention. Indeed, any suitable media known in the art for growing filamentous fungi such as M. thermophila find use (See e.g., Berka et al., Nat. Biotechnol., 29:922-927 [2011).

[0321] Strain CF-417 is a derivative of C1 strain (UV18#100f Δalp1 Δpyr5 Δku70::pyr5 Δcdh1 Δcdh2) further modified with an insertion of variant bgl1. Strain CF-418 is a derivative of CF-417, further modified by insertion of wild-type M. thermophila GH61a enzyme. Strain CF-419 a derivative of CF-417, further modified by deletion of an endogenous protease.

[0322] Wild-type xylanase Xyl5 cDNA (SEQ ID NO:1) and amino acid (SEQ ID NO:2) sequences are provided below. SEQ ID NO:3 provides the sequence of xylanase Xyl5, without the signal sequence. Wild-type beta-xylosidase BXyl7 cDNA (SEQ ID NO:4) and amino acid (SEQ ID NO:5) sequences are provided below. SEQ ID NO:6 provides the sequence of beta-xylosidase BXyl7, without the signal sequence. cDNA (SEQ ID NO:7) and polypeptide (SEQ ID NO:8) of a wild-type beta-xylosidase "BXyl8 WT1" are provided below. SEQ ID NO:9 provides the sequence of beta-xylosidase BXyl8 WT1, without the signal sequence. SEQ ID NOS:10 and 11 provide the cDNA sand polypeptide sequences of another wild-type beta-xylosidase "BXyl8 WT2." SEQ ID NOS:12 and 13 provide polynucleotide and polypeptide sequences (respectively) of a cloned beta-xylosidase ("Bxyl8-233"). All of the sequences below are M. thermophila sequences.

TABLE-US-00001 Beta-xylanase Xyl5: (SEQ ID NO: 1) ATGGTTACCCTCACTCGCCTGGCGGTCGCCGCGGCGGCCATGATCTCCAGCACTGGCCTGGC TGCCCCGACGCCCGAAGCTGGCCCCGACCTTCCCGACTTTGAGCTCGGGGTCAACAACCTCG CCCGCCGCGCGCTGGACTACAACCAGAACTACAGGACCAGCGGCAACGTCAACTACTCGCC CACCGACAACGGCTACTCGGTCAGCTTCTCCAACGCGGGAGATTTTGTCGTCGGGAAGGGCT GGAGGACGGGAGCCACCAGAAACATCACCTTCTCGGGATCGACACAGCATACCTCGGGCAC CGTGCTCGTCTCCGTCTACGGCTGGACCCGGAACCCGCTGATCGAGTACTACGTGCAGGAGT ACACGTCCAACGGGGCCGGCTCCGCTCAGGGCGAGAAGCTGGGCACGGTCGAGAGCGACGG GGGCACGTACGAGATCTGGCGGCACCAGCAGGTCAACCAGCCGTCGATCGAGGGCACCTCG ACCTTCTGGCAGTACATCTCGAACCGCGTGTCCGGCCAGCGGCCCAACGGCGGCACCGTCAC CCTCGCCAACCACTTCGCCGCCTGGCAGAAGCTCGGCCTGAACCTGGGCCAGCACGACTACC AGGTCCTGGCCACCGAGGGCTGGGGCAACGCCGGCGGCAGCTCCCAGTACACCGTCAGCGG C (SEQ ID NO: 2) MVTLTRLAVAAAAMISSTGLAAPTPEAGPDLPDFELGVNNLARRALDYNQNYRTSGNVNYSPT DNGYSVSFSNAGDFVVGKGWRTGATRNITFSGSTQHTSGTVLVSVYGWTRNPLIEYYVQEYTSN GAGSAQGEKLGTVESDGGTYEIWRHQQVNQPSIEGTSTFWQYISNRVSGQRPNGGTVTLANHFA AWQKLGLNLGQHDYQVLATEGWGNAGGSSQYTVSG (SEQ ID NO: 3) APTPEAGPDLPDFELGVNNLARRALDYNQNYRTSGNVNYSPTDNGYSVSFSNAGDFVVGKGWR TGATRNITFSGSTQHTSGTVLVSVYGWTRNPLIEYYVQEYTSNGAGSAQGEKLGTVESDGGTYEI WRHQQVNQPSIEGTSTFWQYISNRVSGQRPNGGTVTLANHFAAWQKLGLNLGQHDYQVLATE GWGNAGGSSQYTVSG Beta-xylosidase BXyl7: (SEQ ID NO: 4) ATGTTCTTCGCTTCTCTGCTGCTCGGTCTCCTGGCGGGCGTGTCCGCTTCACCGGGACACGGG CGGAATTCCACCTTCTACAACCCCATCTTCCCCGGCTTCTACCCCGATCCGAGCTGCATCTAC GTGCCCGAGCGTGACCACACCTTCTTCTGTGCCTCGTCGAGCTTCAACGCCTTCCCGGGCATC CCGATTCATGCCAGCAAGGACCTGCAGAACTGGAAGTTGATCGGCCATGTGCTGAATCGCA AGGAACAGCTTCCCCGGCTCGCTGAGACCAACCGGTCGACCAGCGGCATCTGGGCACCCAC CCTCCGGTTCCATGACGACACCTTCTGGTTGGTCACCACACTAGTGGACGACGACCGGCCGC AGGAGGACGCTTCCAGATGGGACAATATTATCTTCAAGGCAAAGAATCCGTATGATCCGAG GTCCTGGTCCAAGGCCGTCCACTTCAACTTCACTGGCTACGACACGGAGCCTTTCTGGGACG AAGATGGAAAGGTGTACATCACCGGCGCCCATGCTTGGCATGTTGGCCCATACATCCAGCAG GCCGAAGTCGATCTCGACACGGGGGCCGTCGGCGAGTGGCGCATCATCTGGAACGGAACGG GCGGCATGGCTCCTGAAGGGCCGCACATCTACCGCAAAGATGGGTGGTACTACTTGCTGGCT GCTGAAGGGGGGACCGGCATCGACCATATGGTGACCATGGCCCGGTCGAGAAAAATCTCCA GTCCTTACGAGTCCAACCCAAACAACCCCGTGTTGACCAACGCCAACACGACCAGTTACTTT CAAACCGTCGGGCATTCAGACCTGTTCCATGACAGACATGGGAACTGGTGGGCAGTCGCCCT CTCCACCCGCTCCGGTCCAGAATATCTTCACTACCCCATGGGCCGCGAGACCGTCATGACAG CCGTGAGCTGGCCGAAGGACGAGTGGCCAACCTTCACCCCCATATCTGGCAAGATGAGCGG CTGGCCGATGCCTCCTTCGCAGAAGGACATTCGCGGAGTCGGCCCCTACGTCAACTCCCCCG ACCCGGAACACCTGACCTTCCCCCGCTCGGCGCCCCTGCCGGCCCACCTCACCTACTGGCGA TACCCGAACCCGTCCTCCTACACGCCGTCCCCGCCCGGGCACCCCAACACCCTCCGCCTGAC CCCGTCCCGCCTGAACCTGACCGCCCTCAACGGCAACTACGCGGGGGCCGACCAGACCTTCG TCTCGCGCCGGCAGCAGCACACCCTCTTCACCTACAGCGTCACGCTCGACTACGCGCCGCGG ACCGCCGGGGAGGAGGCCGGCGTGACCGCCTTCCTGACGCAGAACCACCACCTCGACCTGG GCGTCGTCCTGCTCCCTCGCGGCTCCGCCACCGCGCCCTCGCTGCCGGGCCTGAGTAGTAGT ACAACTACTACTAGTAGTAGTAGTAGTCGTCCGGACGAGGAGGAGGAGCGCGAGGCGGGCG AAGAGGAAGAAGAGGGCGGACAAGACTTGATGATCCCGCATGTGCGGTTCAGGGGCGAGTC GTACGTGCCCGTCCCGGCGCCCGTCGTGTACCCGATACCCCGGGCCTGGAGAGGCGGGAAG CTTGTGTTAGAGATCCGGGCTTGTAATTCGACTCACTTCTCGTTCCGTGTCGGGCCGGACGGG AGACGGTCTGAGCGGACGGTGGTCATGGAGGCTTCGAACGAGGCCGTTAGCTGGGGCTTTA CTGGAACGCTGCTGGGCATCTATGCGACCAGTAATGGTGGCAACGGAACCACGCCGGCGTA TTTTTCGGATTGGAGGTACACACCATTGGAGCAGTTTAGGGAT (SEQ ID NO: 5) MFFASLLLGLLAGVSASPGHGRNSTFYNPIFPGFYPDPSCIYVPERDHTFFCASSSFNAFPGIPIHAS KDLQNWKLIGHVLNRKEQLPRLAETNRSTSGIWAPTLRFHDDTFWLVTTLVDDDRPQEDASRW DNIIFKAKNPYDPRSWSKAVHFNFTGYDTEPFWDEDGKVYITGAHAWHVGPYIQQAEVDLDTG AVGEWRIIWNGTGGMAPEGPHIYRKDGWYYLLAAEGGTGIDHMVTMARSRKISSPYESNPNNP VLTNANTTSYFQTVGHSDLFHDRHGNWWAVALSTRSGPEYLHYPMGRETVMTAVSWPKDEWP TFTPISGKMSGWPMPPSQKDIRGVGPYVNSPDPEHLTFPRSAPLPAHLTYWRYPNPSSYTPSPPGH PNTLRLTPSRLNLTALNGNYAGADQTFVSRRQQHTLFTYSVTLDYAPRTAGEEAGVTAFLTQNH HLDLGVVLLPRGSATAPSLPGLSSSTTTTSSSSSRPDEEEEREAGEEEEEGGQDLMIPHVRFRGESY VPVPAPVVYPIPRAWRGGKLVLEIRACNSTHFSFRVGPDGRRSERTVVMEASNEAVSWGFTGTL LGIYATSNGGNGTTPAYFSDWRYTPLEQFRD (SEQ ID NO: 6) SPGHGRNSTFYNPIFPGFYPDPSCIYVPERDHTFFCASSSFNAFPGIPIHASKDLQNWKLIGHVLNR KEQLPRLAETNRSTSGIWAPTLRFHDDTFWLVTTLVDDDRPQEDASRWDNIIFKAKNPYDPRSW SKAVHFNFTGYDTEPFWDEDGKVYITGAHAWHVGPYIQQAEVDLDTGAVGEWRIIWNGTGGM APEGPHIYRKDGWYYLLAAEGGTGIDHMVTMARSRKISSPYESNPNNPVLTNANTTSYFQTVGH SDLFHDRHGNWWAVALSTRSGPEYLHYPMGRETVMTAVSWPKDEWPTFTPISGKMSGWPMPP SQKDIRGVGPYVNSPDPEHLTFPRSAPLPAHLTYWRYPNPSSYTPSPPGHPNTLRLTPSRLNLTAL NGNYAGADQTFVSRRQQHTLFTYSVTLDYAPRTAGEEAGVTAFLTQNHHLDLGVVLLPRGSAT APSLPGLSSSTTTTSSSSSRPDEEEEREAGEEEEEGGQDLMIPHVRFRGESYVPVPAPVVYPIPRAW RGGKLVLEIRACNSTHFSFRVGPDGRRSERTVVMEASNEAVSWGFTGTLLGIYATSNGGNGTTP AYFSDWRYTPLEQFRD Beta-xylosidase BXyl8 WT1: (SEQ ID NO: 7) ATGAAGGCCTCTGTATCATGCCTCGTCGGCATGAGCGCCGTGGCCTACGGCCTCGATGGCCC TTTCCAGACCTACCCCGACTGCACCAAGCCCCCCCTGTCCGATATTAAGGTGTGCGACCGGA CACTGCCCGAGGCGGAGCGGGCGGCAGCCCTCGTGGCAGCCCTGACCGACGAGGAGAAGCT GCAAAACCTGGTCAGCAAGGCGCCGGGGGCGCCGCGGATCGGCCTGCCCGCGTACAACTGG TGGAGCGAGGCGCTGCACGGGGTGGCCCACGCGCCCGGGACGCAGTTCCGCGACGGGCCGG GGGACTTCAACTCGTCCACGTCGTTCCCGATGCCGCTGCTGATGGCCGCCGCCTTCGACGAC GAGCTGATCGAGGCCGTCGGCGACGTCATCGGCACCGAGGCCCGCGCCTTTGGCAACGCCG GCTGGTCCGGCCTCGACTACTGGACCCCCAACGTCAACCCCTTCCGGGACCCCCGCTGGGGC CGCGGCTCCGAGACGCCGGGCGAGGACGTCGTGCGCCTCAAGCGCTACGCCGCCTCCATGA TCCGCGGGCTCGAGGGTCGTTCCTCCTCCTCCTCCTCCTGCTCCTTCGGATCCGGAGGGGAGC CGCCGCGCGTCATCTCGACCTGCAAGCACTACGCCGGCAACGACTTTGAGGACTGGAACGG CACGACGCGGCACGACTTCGACGCCGTCATCTCGGCGCAGGACCTGGCCGAGTACTACCTGG CGCCGTTCCAGCAGTGCGCGCGCGACTCGCGCGTCGGCTCCGTCATGTGCGCCTACAACGCC GTCAACGGGGTGCCGTCGTGCGCCAACTCGTACCTCATGAACACGATCCTGCGCGGGCACTG GAACTGGACCGAGCACGACAACTACGTCACCAGCGACTGCGAGGCCGTCCTCGACGTCTCG GCCCACCACCACTACGCCGACACCAACGCCGAGGGCACCGGCCTCTGCTTCGAGGCCGGCA TGGACACGAGCTGCGAGTACGAGGGCTCCTCCGACATCCCGGGCGCCTCCGCCGGCGGCTTC CTGACCTGGCCCGCCGTCGACCGCGCCCTGACGCGGCTGTACCGGAGCCTGGTGCGGGTCGG CTACTTTGACGGCCCCGAGTCGCCGCACGCCTCGCTGGGCTGGGCCGACGTCAACCGGCCCG AGGCGCAGGAGCTGGCCCTGCGCGCTGCCGTCGAGGGCATCGTGCTGCTCAAGAACGACAA CGACACGCTGCCGCTGCCGCTGCCGGACGATGTCGTTGTCACCGCTGATGGTGGCCGCCGCC GCGTCGCCATGATCGGCTTCTGGGCCGACGCCCCGGACAAGCTGTTTGGCGGGTACAGCGGC GCGCCCCCCTTCGCGCGCTCGCCCGCGAGCGCCGCCCGGCAGCTGGGCTGGAACGTCACGGT CGCCGGAGGGCCCGTCCTGGAGGGAGACTCGGACGAGGAGGAGGACACGTGGACGGCGCC GGCCGTCGAGGCGGCCGCCGACGCCGACTACATCGTCTACTTTGGCGGCCTGGACACGTCGG CGGCGGGCGAGACCAAGGACCGGATGACGATCGGGTGGCCGGCGGCGCAGCTGGCGCTCAT CTCGGAGCTGGCGCGGCTCGGCAAGCCCGTCGTGGTGGTGCAGATGGGCGACCAGCTCGAC GACACGCCCCTCTTCGAGCTGGACGGGGTGGGCGCCGTCCTGTGGGCCAACTGGCCGGGCC AGGACGGCGGCACGGCCGTGGTCCGGCTGCTCAGCGGCGCCGAGAGCCCGGCCGGCCGCCT GCCCGTGACCCAGTACCCGGCCAACTACACCGACGCGGTGCCCCTGACCGACATGACCCTGC GCCCGTCGGCGACCAACCCGGGCCGGACCTACCGCTGGTACCCGACTCCCGTCCGGCCCTTC GGCTTCGGCCTCCACTATACCACCTTCCGGGCCGAGTTCGGCCCCCACCCCTTCTTCCCGGGG GCGGGCAAGGGCGATGGCGACGGCGAGGACAAGGGCGAGAGCAAGAGCGAGATCAGGACG CAGCAGCAGCAACAGCAGCAGCAGCAGCAGCGCAGGGCGGCGGCGGCGGCCACCACGCCG ATCCGGGACCTGCTCCGCGACTGCGACAAGACGTACCCGGACACGTGCCCGCTGCCGCCGCT GACGGTGCGCGTGACCAACGAGGGCGAGCGCGCGTCCGACTACGTGGTGCTGGCCTTCGTG TCGGGCGAGTACGGGCCGGCGCCGTACCCGATCAAGACGCTGGTCTCGTACGCGCGGGCGC GCGGGCTAAAGGGGAAGGGCGGGACGGGCGCCGGCGACGGCGACGTCGCCACCACTACCG TCTCGCTCGACTGGACCGTCGGCAACCTGGCCCGCCACGACGAGCGCGGCAACACAATCCTG TACCCGGGAACTTACACCCTCACTCTCGACGAGCCGGCCCAGGCGAGCGTGCAGTTCGCCCT CGAGGGCGAGCCCGTCGTGCTCGACGAGTGGCCTGCGCCGCCGAGTGCCAACTCCACCGCC AGGGGGAGGCACAGG (SEQ ID NO: 8) MKASVSCLVGMSAVAYGLDGPFQTYPDCTKPPLSDIKVCDRTLPEAERAAALVAALTDEEKLQ NLVSKAPGAPRIGLPAYNWWSEALHGVAHAPGTQFRDGPGDFNSSTSFPMPLLMAAAFDDELIE AVGDVIGTEARAFGNAGWSGLDYWTPNVNPFRDPRWGRGSETPGEDVVRLKRYAASMIRGLE GRSSSSSSCSFGSGGEPPRVISTCKHYAGNDFEDWNGTTRHDFDAVISAQDLAEYYLAPFQQCAR DSRVGSVMCAYNAVNGVPSCANSYLMNTILRGHWNWTEHDNYVTSDCEAVLDVSAHHHYAD TNAEGTGLCFEAGMDTSCEYEGSSDIPGASAGGFLTWPAVDRALTRLYRSLVRVGYFDGPESPH ASLGWADVNRPEAQELALRAAVEGIVLLKNDNDTLPLPLPDDVVVTADGGRRRVAMIGFWAD APDKLFGGYSGAPPFARSPASAARQLGWNVTVAGGPVLEGDSDEEEDTWTAPAVEAAADADYI VYFGGLDTSAAGETKDRMTIGWPAAQLALISELARLGKPVVVVQMGDQLDDTPLFELDGVGAV LWANWPGQDGGTAVVRLLSGAESPAGRLPVTQYPANYTDAVPLTDMTLRPSATNPGRTYRWY PTPVRPFGFGLHYTTFRAEFGPHPFFPGAGKGDGDGEDKGESKSEIRTQQQQQQQQQQRRAAAA ATTPIRDLLRDCDKTYPDTCPLPPLTVRVTNEGERASDYVVLAFVSGEYGPAPYPIKTLVSYARA RGLKGKGGTGAGDGDVATTTVSLDWTVGNLARHDERGNTILYPGTYTLTLDEPAQASVQFALE GEPVVLDEWPAPPSANSTARGRHR (SEQ ID NO: 9) LDGPFQTYPDCTKPPLSDIKVCDRTLPEAERAAALVAALTDEEKLQNLVSKAPGAPRIGLPAYNW WSEALHGVAHAPGTQFRDGPGDFNSSTSFPMPLLMAAAFDDELIEAVGDVIGTEARAFGNAGW SGLDYWTPNVNPFRDPRWGRGSETPGEDVVRLKRYAASMIRGLEGRSSSSSSCSFGSGGEPPRVI STCKHYAGNDFEDWNGTTRHDFDAVISAQDLAEYYLAPFQQCARDSRVGSVMCAYNAVNGVP SCANSYLMNTILRGHWNWTEHDNYVTSDCEAVLDVSAHHHYADTNAEGTGLCFEAGMDTSCE YEGSSDIPGASAGGFLTWPAVDRALTRLYRSLVRVGYFDGPESPHASLGWADVNRPEAQELALR AAVEGIVLLKNDNDTLPLPLPDDVVVTADGGRRRVAMIGFWADAPDKLFGGYSGAPPFARSPAS AARQLGWNVTVAGGPVLEGDSDEEEDTWTAPAVEAAADADYIVYFGGLDTSAAGETKDRMTI GWPAAQLALISELARLGKPVVVVQMGDQLDDTPLFELDGVGAVLWANWPGQDGGTAVVRLLS GAESPAGRLPVTQYPANYTDAVPLTDMTLRPSATNPGRTYRWYPTPVRPFGFGLHYTTFRAEFG PHPFFPGAGKGDGDGEDKGESKSEIRTQQQQQQQQQQRRAAAAATTPIRDLLRDCDKTYPDTCP LPPLTVRVTNEGERASDYVVLAFVSGEYGPAPYPIKTLVSYARARGLKGKGGTGAGDGDVATTT VSLDWTVGNLARHDERGNTILYPGTYTLTLDEPAQASVQFALEGEPVVLDEWPAPPSANSTARG RHR Beta-xylosidase BXyl8-WT2: (SEQ ID NO: 10) ATGAAGGCCTCTGTATCATGCCTCGTCGGCATGAGCGCCGTGGCCTACGGCCTCGATGGCCC TTTCCAGACCTACCCCGACTGCACCAAGCCCCCCCTGTCCGATATTAAGGTGTGCGACCGGA CACTGCCCGAGGCGGAGCGGGCGGCAGCCCTCGTGGCAGCCCTGACCGACGAGGAGAAGCT GCAAAACCTGGTCAGCAAGGCGCCGGGGGCGCCGCGGATCGGCCTGCCCGCGTACAACTGG TGGAGCGAGGCGCTGCACGGGGTGGCCCACGCGCCCGGGACGCAGTTCCGCGACGGGCCGG GGGACTTCAACTCGTCCACGTCGTTCCCGATGCCGCTGCTGATGGCCGCCGCCTTCGACGAC GAGCTGATCGAGGCCGTCGGCGACGTCATCGGCACCGAGGCCCGCGCCTTTGGCAACGCCG GCTGGTCCGGCCTCGACTACTGGACCCCCAACGTCAACCCCTTCCGGGACCCCCGCTGGGGC CGCGGCTCCGAGACGCCGGGCGAGGACGTCGTGCGCCTCAAGCGCTACGCCGCCTCCATGA TCCGCGGGCTCGAGGGTCGTTCCTCCTCCTCCTCCTCCTGCTCCTTCGGATCCGGAGGGGAGC CGCCGCGCGTCATCTCGACCTGCAAGCACTACGCCGGCAACGACTTTGAGGACTGGAACGG CACGACGCGGCACGACTTCGACGCCGTCATCTCGGCGCAGGACCTGGCCGAGTACTACCTGG CGCCGTTCCAGCAGTGCGCGCGCGACTCGCGCGTCGGCTCCGTCATGTGCGCCTACAACGCC GTCAACGGGGTGCCGTCGTGCGCCAACTCGTACCTCATGAACACGATCCTGCGCGGGCACTG GAACTGGACCGAGCACGACAACTACGTCACCAGCGACTGCGAGGCCGTCCTCGACGTCTCG GCCCACCACCACTACGCCGACACCAACGCCGAGGGCACCGGCCTCTGCTTCGAGGCCGGCA TGGACACGAGCTGCGAGTACGAGGGCTCCTCCGACATCCCGGGCGCCTCCGCCGGCGGCTTC CTGACCTGGCCCGCCGTCGACCGCGCCCTGACGCGGCTGTACCGGAGCCTGGTGCGGGTCGG CTACTTTGACGGCCCCGAGTCGCCGCACGCCTCGCTGGGCTGGGCCGACGTCAACCGGCCCG AGGCGCAGGAGCTGGCCCTGCGCGCTGCCGTCGAGGGCATCGTGCTGCTCAAGAACGACAA CGACACGCTGCCGCTGCCGCTGCCGGACGATGTCGTTGTCACCGCTGATGGTGGCCGCCGCC GCGTCGCCATGATCGGCTTCTGGGCCGACGCCCCGGACAAGCTGTTTGGCGGGTACAGCGGC GCGCCCCCCTTCGCGCGCTCGCCCGCGAGCGCCGCCCGGCAGCTGGGCTGGAACGTCACGGT CGCCGGAGGGCCCGTCCTGGAGGGAGACTCGGACGAGGAGGAGGACACGTGGACGGCGCC GGCCGTCGAGGCGGCCGCCGACGCCGACTACATCGTCTACTTTGGCGGCCTGGACACGTCGG CGGCGGGCGAGACCAAGGACCGGATGACGATCGGGTGGCCGGCGGCGCAGCTGGCGCTCAT CTCGGAGCTGGCGCGGCTCGGCAAGCCCGTCGTGGTGGTGCAGATGGGCGACCAGCTCGAC GACACGCCCCTCTTCGAGCTGGACGGGGTGGGCGCCGTCCTGTGGGCCAACTGGCCGGGCC AGGACGGCGGCACGGCCGTGGTCCGGCTGCTCAGCGGCGCCGAGAGCCCGGCCGGCCGCCT GCCCGTGACCCAGTACCCGGCCAACTACACCGACGCGGTGCCCCTGACCGACATGACCCTGC GCCCGTCGGCGACCAACCCGGGCCGGACCTACCGCTGGTACCCGACTCCCGTCCGGCCCTTC GGCTTCGGCCTCCACTATACCACCTTCCGGGCCGAGTTCGGCCCCCACCCCTTCTTCCCGGGG GCGGGCAAGGGCGATGGCGACGGCGAGGACAAGGGCGAGAGCAAGAGCGAGATCAGGACG CAGCAGCAGCAACAGCAGCAGCAGCAGCAGCGCAGGGCGGCGGCGGCGGCCACCACGCCG ATCCGGGACCTGCTCCGCGACTGCGACAAGACGTACCCGGACACGTGCCCGCTGCCGCCGCT GACGGTGCGCGTGACCAACGAGGGCGAGCGCGCGTCCGACTACGTGGTGCTGGCCTTCGTG TCGGGCGAGTACGGGCCGGCGCCGTACCCGATCAAGACGCTGGTCTCGTACGCGCGGGCGC GCGGGCTAAAGGGGAAGGGCGGCGACGGCGACGGCGACGGCGACGGCGCCACCACTACCG TCTCGCTCGACTGGACCGTCGGCAACCTGGCCCGCCACGACGAGCGCGGCAACACAATCCTG TACCCGGGAACTTACACCCTCACTCTCGACGAGCCGGCCCAGGCGAGCGTGCAGTTCGCCCT CGAGGGCGAGCCCGTCGTGCTCGACGAGTGGCCTGCGCCGCCGAGTGCCAACTCCACCGCC AGGGGGAGGCACAGG (SEQ ID NO: 11) MKASVSCLVGMSAVAYGLDGPFQTYPDCTKPPLSDIKVCDRTLPEAERAAALVAALTDEEKLQ NLVSKAPGAPRIGLPAYNWWSEALHGVAHAPGTQFRDGPGDFNSSTSFPMPLLMAAAFDDELIE AVGDVIGTEARAFGNAGWSGLDYWTPNVNPFRDPRWGRGSETPGEDVVRLKRYAASMIRGLE GRSSSSSSCSFGSGGEPPRVISTCKHYAGNDFEDWNGTTRHDFDAVISAQDLAEYYLAPFQQCAR DSRVGSVMCAYNAVNGVPSCANSYLMNTILRGHWNWTEHDNYVTSDCEAVLDVSAHHHYAD TNAEGTGLCFEAGMDTSCEYEGSSDIPGASAGGFLTWPAVDRALTRLYRSLVRVGYFDGPESPH ASLGWADVNRPEAQELALRAAVEGIVLLKNDNDTLPLPLPDDVVVTADGGRRRVAMIGFWAD APDKLFGGYSGAPPFARSPASAARQLGWNVTVAGGPVLEGDSDEEEDTWTAPAVEAAADADYI VYFGGLDTSAAGETKDRMTIGWPAAQLALISELARLGKPVVVVQMGDQLDDTPLFELDGVGAV LWANWPGQDGGTAVVRLLSGAESPAGRLPVTQYPANYTDAVPLTDMTLRPSATNPGRTYRWY PTPVRPFGFGLHYTTFRAEFGPHPFFPGAGKGDGDGEDKGESKSEIRTQQQQQQQQQQRRAAAA ATTPIRDLLRDCDKTYPDTCPLPPLTVRVTNEGERASDYVVLAFVSGEYGPAPYPIKTLVSYARA RGLKGKGGDGDGDGDGATTTVSLDWTVGNLARHDERGNTILYPGTYTLTLDEPAQASVQFALE GEPVVLDEWPAPPSANSTARGRHR Beta-xylosidase BXyl8-233: (SEQ ID NO: 12) ATGAAGGCCTCTGTATCATGCCTCGTCGGCATGAGCGCCGTGGCCTACGGCCTCGATGGCCC TTTCCAGACCTACCCCGACTGCACCAAGCCCCCCCTGTCCGATATTAAGGTGTGCGACCGGA CACTGCCCGAGGCGGAGCGGGCGGCAGCCCTCGTGGCAGCCCTGACCGACGAGGAGAAGCT GCAAAACCTGGTCAGCAAGGCGCCGGGGGCGCCGCGGATCGGCCTGCCCGCGTACAACTGG TGGAGCGAGGCGCTGCACGGGGTGGCCCACGCGCCCGGGACGCAATTCCGCGACGGGCCGG GGGACTTCAACTCGTCCACGTCGTTCCCGATGCCGCTGCTGATGGCCGCCGCCTTCGACGAC GAGCTGATCGAGGCCGTCGGCGACGTCATCGGCACCGAGGCCCGCGCCTTTGGCAACGCCG GCTGGTCCGGCCTCGACTACTGGACCCCCAACGTCAACCCCTTCCGGGACCCCCGCTGGGGC CGCGGCTCCGAGACGCCGGGCGAGGACGTCGTGCGCCTCAAGCGCTACGCCGCCTCCATGA TCCGCGGGCTCGAGGGTCGTTCCTCCTCCTCCTCCTCCTGCTCCTTCGGATCCGGAGGGGAGC CGCCGCGCGTCATCTCGACCTGCAAGCACTACGCCGGCTACGACTTTGAGGACTGGAACGGC ACGACGCGGCACGACTTCGACGCCGTCATCTCGGCGCAGGACCTGGCCGAGTACTACCTGGC GCCGTTCCAGCAGTGCGCGCGCGACTCGCGCGTCGGCTCCGTCATGTGCGCCTACAACGCCG TCAACGGGGTGCCGTCGTGCGCCAACTCGTACCTCATGAACACGATCCTGCGCGGGCACTGG AACTGGACCGAGCACGACAACTACGTCACCAGCGACTGCGAGGCCGTCCTCGACGTCTCGG CCCACCACCACTACGCCGACACCAACGCCGAGGGCACCGGCCTCTGCTTCGAGGCCGGCAT GGACACGAGCTGCGAGTACGAGGGCTCCTCCGACATCCCGGGCGCCTCCGCCGGCGGCTTCC TGACCTGGCCCGCCGTCGACCGCGCCCTGACGCGGCTGTACCGGAGCCTGGTGCGGGTCGGC TACTTTGACGGCCCCGAGTCGCCGCACGCCTCGCTGGGCTGGGCCGACGTCAACCGGCCCGA GGCGCAGGAGCTGGCCCTGCGCGCTGCCGTCGAGGGCATCGTGCTGCTCAAGAACGACAAC GACACGCTGCCGCTGCCGCTGCCGGACGATGTCGTTGTCACCGCTGATGGTGGCCGCCGCCG CGTCGCCATGATCGGCTTCTGGGCCGACGCCCCGGACAAGCTGTTTGGCGGGTACAGCGGCG CGCCCCCCTTCGCGCGCTCGCCCGCGAGCGCCGCCCGGCAGCTGGGCTGGAACGTCACGGTC GCCGGAGGGCCCGTCCTGGAGGGAGACTCGGACGAGGAGGAGGACACGTGGACGGCGCCG GCCGTCGAGGCGGCCGCCGACGCCGACTACATCGTCTACTTTGGCGGCCTGGACACGTCGGC GGCGGGCGAGACCAAGGACCGGATGACGATCGGGTGGCCGGCGGCGCAGCTGGCGCTCATC

TCGGAGCTGGCGCGGCTCGGCAAGCCCGTCGTGGTGGTGCAGATGGGCGACCAGCTCGACG ACACGCCCCTCTTCGAGCTGGACGGGGTGGGCGCCGTCCTGTGGGCCAACTGGCCGGGCCA GGACGGCGGCACGGCCGTGGTCCGGCTGCTCAGCGGCGCCGAGAGCCCGGCCGGCCGCCTG CCCGTGACCCAGTACCCGGCCAACTACACCGACGCGGTGCCCCTGACCGACATGACCCTGCG CCCGTCGGCGACCAACCCGGGCCGGACCTACCGCTGGTACCCGACTCCCGTCCGGCCCTTCG GCTTCGGCCTCCACTATACCACCTTCCGGGCCGAGTTCGGCCCCCACCCCTTCTTCCCGGGGG CGGGCAAGGGCGATGGCGACGGCGAGGACAAGGGCGAGAGCAAGAGCGAGATCAGGACGC AGCAGCAGCAACAGCAGCAGCAGCAGCAGCGCAGGGCGGCGGCGGCGGCCACCACGCCGA TCCGGGACCTGCTCCGCGACTGCGACAAGACGTACCCGGACACGTGCCCGCTGCCGCCGCTG ACGGTGCGCGTGACCAACGAGGGCGAGCGCGCGTCCGACTACGTGGTGCTGGCCTTCGTGTC GGGCGAGTACGGGCCGGCGCCGTACCCGATCAAGACGCTGGTCTCGTACGCGCGGGCGCGC GGGCTAAAGGGGAAGGGCGGCGACGGCGACGGCGACGGCGACGGCGCCACCACTACCGTC TCGCTCGACTGGACCGTCGGCAACCTGGCCCGCCACGACGAGCGCGGCAACACAATCCTGT ACCCGGGAACTTACACCCTCACTCTCGACGAGCCGGCCCAGGCGAGCGTGCAGTTCGCCCTC GAGGGCGAGCCCGTCGTGCTCGACGAGTGGCCTGCGCCGCCGAGTGCCAACTCCACCGCCA GGGGGAGGCACAGG (SEQ ID NO: 13) MKASVSCLVGMSAVAYGLDGPFQTYPDCTKPPLSDIKVCDRTLPEAERAAALVAALTDEEKLQ NLVSKAPGAPRIGLPAYNWWSEALHGVAHAPGTQFRDGPGDFNSSTSFPMPLLMAAAFDDELIE AVGDVIGTEARAFGNAGWSGLDYWTPNVNPFRDPRWGRGSETPGEDVVRLKRYAASMIRGLE GRSSSSSSCSFGSGGEPPRVISTCKHYAGYDFEDWNGTTRHDFDAVISAQDLAEYYLAPFQQCAR DSRVGSVMCAYNAVNGVPSCANSYLMNTILRGHWNWTEHDNYVTSDCEAVLDVSAHHHYAD TNAEGTGLCFEAGMDTSCEYEGSSDIPGASAGGFLTWPAVDRALTRLYRSLVRVGYFDGPESPH ASLGWADVNRPEAQELALRAAVEGIVLLKNDNDTLPLPLPDDVVVTADGGRRRVAMIGFWAD APDKLFGGYSGAPPFARSPASAARQLGWNVTVAGGPVLEGDSDEEEDTWTAPAVEAAADADYI VYFGGLDTSAAGETKDRMTIGWPAAQLALISELARLGKPVVVVQMGDQLDDTPLFELDGVGAV LWANWPGQDGGTAVVRLLSGAESPAGRLPVTQYPANYTDAVPLTDMTLRPSATNPGRTYRWY PTPVRPFGFGLHYTTFRAEFGPHPFFPGAGKGDGDGEDKGESKSEIRTQQQQQQQQQQRRAAAA ATTPIRDLLRDCDKTYPDTCPLPPLTVRVTNEGERASDYVVLAFVSGEYGPAPYPIKTLVSYARA RGLKGKGGDGDGDGDGATTTVSLDWTVGNLARHDERGNTILYPGTYTLTLDEPAQASVQFALE GEPVVLDEWPAPPSANSTARGRHR

[0323] The following sequences comprise additional xylanase (Xyl), beta-xylosidase (Bxyl), and alpha-xylosidase (Axyl) sequences of interest. The first sequence provided in each set below comprises the cDNA sequence, the second sequence is the polypeptide sequence with the predicted signal sequence included, and the third sequence is the polypeptide sequence without the signal sequence.

TABLE-US-00002 Xyl1974: (SEQ ID NO: 14) ATGGTTGCTCTCTCTTCTCTCCTCGTCGCTGCCTCTGCGGCGGCCGTGGCCGTGGCTGCGCCG AGCGAGGCCCTCCAGAAGCGCCAGACGCTCACGAGCAGCCAGACGGGCTTCCACGACGGCT TTTACTACTCCTTCTGGACCGACGGTGCCGGCAACGTCCGGTACACGAACGAGGCCGGCGGC CGGTACAGTGTCACCTGGTCCGGCAACAACGGCAACTGGGTTGGCGGCAAGGGCTGGAACC CGGGGGCTGCTCGCAACATCAGCTTCACGGGGCAGTATAACCCCAACGGCAACTCGTACCTG GCCGTGTACGGGTGGACGCGCAACCCGCTGATCGAGTACTACATCGTCGAGAACTTCGGCAC GTACGACCCGTCGACGGGGGCGCAGCGGCTCGGCAGCATCACGGTGGACGGGTCGACGTAC AACATCCTCAAGACGACGCGGGTCAACCAGCCGTCCATCGAGGGCACCAGCACCTTTGACC AGTTCTGGTCCGTCCGGACCAACAAGCGCAGCAGCGGCTCCGTCAACGTCAAGGCTCACTTC GACGCTTGGGCCCAGGCCGGCCTCCGCCTGGGCACCCACGACTACCAGATCATGGCCACCG AGGGCTACTTCTCGAGCGGCTCCGCCACCATCACCGTCGGCGAGGGCACCAGCAGCGGCGG CGGCGGCGACAATGGCGGCGGCAACAACGGCGGCGGCGGCAACACCGGCACCTGCAGCGC CCTGTACGGCCAGTGCGGTGGCCAGGGGTGGACGGGCCCGACTTGCTGCTCCCAGGGAACC TGCCGCGTCTCCAACCAGTGGTACTCGCAGTGCTTGTAA (SEQ ID NO: 15) MVALSSLLVAASAAAVAVAAPSEALQKRQTLTSSQTGFHDGFYYSFWTDGAGNVRYTNEAGG RYSVTWSGNNGNWVGGKGWNPGAARNISFTGQYNPNGNSYLAVYGWTRNPLIEYYIVENFGT YDPSTGAQRLGSITVDGSTYNILKTTRVNQPSIEGTSTFDQFWSVRTNKRSSGSVNVKAHFDAWA QAGLRLGTHDYQIMATEGYFSSGSATITVGEGTSSGGGGDNGGGNNGGGGNTGTCSALYGQCG GQGWTGPTCCSQGTCRVSNQWYSQCL (SEQ ID NO: 16) APSEALQKRQTLTSSQTGFHDGFYYSFWTDGAGNVRYTNEAGGRYSVTWSGNNGNWVGGKG WNPGAARNISFTGQYNPNGNSYLAVYGWTRNPLIEYYIVENFGTYDPSTGAQRLGSITVDGSTY NILKTTRVNQPSIEGTSTFDQFWSVRTNKRSSGSVNVKAHFDAWAQAGLRLGTHDYQIMATEGY FSSGSATITVGEGTSSGGGGDNGGGNNGGGGNTGTCSALYGQCGGQGWTGPTCCSQGTCRVSN QWYSQCL Xyl40741: (SEQ ID NO: 17) ATGAAGGCCAATCTCCTGGTCCTCGCGCCGCTGGCCGTCTCGGCAGCGCCCGCGCTCGAGCA CCGCCAGGCAACTGAGAGCATCGACGCGCTCATTAAGGCCAAGGGCAAGCTCTACTTTGGC ACCTGTACCGACCAGGGCCGGCTGACGTCGGGCAAGAACGCGGACATCATCAGGGCCAACT TCGGCCAGGTGACGCCCGAGAACAGCATGAAGTGGCAGAGCATCGAGCCATCGCGGGGTCA GTTCACCTGGGGCCAGGCTGACTACCTCGTCGACTGGGCCACTCAGAACAACAAGACCATCC GCGGCCACACGCTCGTCTGGCACTCGCAGCTCGCCGGCTACGTTCAGCAGATCGGCGACCGG AACACCTTGACCCAGACCATCCAGGACCACATTGCCGCCGTCATGGGCCGCTACAAGGGCA AGATCTACGCCTGGGATGTCATCAACGAGATGTTCAACGAGGATGGCTCGCTTCGCAGCAGC GTCTTCTCCAACGTCCTCGGAGAGGACTTTGTTGGGATCGCCTTCAAGGCGGCGCGCGAGGC CGACCCCGACACCAAGTTGTACATCAACGACTACAACCTCGACAGCCCCAACTACGCCAAG CTGACCAACGGCATGGTCGCTCACGTCAAGAAGTGGCTCGCGGCCGGCATCCCCATCGACG GCATCGGCACCCAGGGTCACCTGCAGTCTGGCCAGGGTTCCGGTCTTGCGCAGGCCATCAAG GCTCTCGCCCAGGCTGGCGTCGAGGAGGTTGCCGTCACCGAGCTCGATATCCAGAACCAGA ACACCAACGACTACACTGCCGTTGTCCAGGGCTGCTTGGACGAGCCCAAGTGCGTCGGTATC ACCGTCTGGGGTGTCCGCGATCCCGACTCGTGGCGTCCCCAGGGCAACCCCTTGCTCTTCGA CAGCAACTTCAACCCCAAGGCGAACTACAATGCCATCGTCCAGCTCCTCAAGCAGTAG (SEQ ID NO: 18) MKANLLVLAPLAVSAAPALEHRQATESIDALIKAKGKLYFGTCTDQGRLTSGKNADIIRANFGQ VTPENSMKWQSIEPSRGQFTWGQADYLVDWATQNNKTIRGHTLVWHSQLAGYVQQIGDRNTL TQTIQDHIAAVMGRYKGKIYAWDVINEMFNEDGSLRSSVFSNVLGEDFVGIAFKAAREADPDTK LYINDYNLDSPNYAKLTNGMVAHVKKWLAAGIPIDGIGTQGHLQSGQGSGLAQAIKALAQAGV EEVAVTELDIQNQNTNDYTAVVQGCLDEPKCVGITVWGVRDPDSWRPQGNPLLFDSNFNPKAN YNAIVQLLKQ (SEQ ID NO: 19) APALEHRQATESIDALIKAKGKLYFGTCTDQGRLTSGKNADIIRANFGQVTPENSMKWQSIEPSR GQFTWGQADYLVDWATQNNKTIRGHTLVWHSQLAGYVQQIGDRNTLTQTIQDHIAAVMGRYK GKIYAWDVINEMFNEDGSLRSSVFSNVLGEDFVGIAFKAAREADPDTKLYINDYNLDSPNYAKL TNGMVAHVKKWLAAGIPIDGIGTQGHLQSGQGSGLAQAIKALAQAGVEEVAVTELDIQNQNTN DYTAVVQGCLDEPKCVGITVWGVRDPDSWRPQGNPLLFDSNFNPKANYNAIVQLLKQ Xyl34208: (SEQ ID NO: 20) ATGGTCAAGCTCTCTCTCATCGCAGCGAGCCTTGTGGCACCTAGCGTGCTTGCGGGTCCTCTC ATCGGCCCCAAGACGCAAACCGAGAGCCAGCTGAACCCGCGTCAAGGCGGCTACAACTACT TCCAGAATTGGTCCGAGGGAGGCAGCAATATCCGCTGCAACAACGGCCCTGGGGGTTCCTA CACGGCCGACTGGAACAGCAGGGGCGGCTTCGTCTGTGGCAAGGGCTGGAGCTATGGAGGC AATCGCGCCATCACGTACACCGGCGAATACAACGCCAGCGGCCCCGGCTACCTCGCCGTCTA CGGGTGGACCCGCAACCCGCTGATTGAATACTACATCATCGAGGCCCATGCCGACCTCGCCC CCAACGAGCCGTGGACATCCAAGGGTAATTTCAGCTTCGAGGAGGGCGAGTACGAGGTCTT CACCAGCACCCGCGTCAACAAGCCGTCCATCGAGGGCACCAGGACTTTTCAGCAGTACTGGT CGCTGCGCAAGGAGCAGCGGGTCGGCGGCACCGTCACCACCCAGAGGCACTTTGAAGAGTG GGCCAAGCTGGGCATGAAGCTGGGCAATCATGACTATGTCATCCTGGCGACCGAAGGATAC ACTGCCAACGGAGGATCCGGTAGCAGCGGGCACTCGAGCATTACTCTGCAGTAG (SEQ ID NO: 21) MVKLSLIAASLVAPSVLAGPLIGPKTQTESQLNPRQGGYNYFQNWSEGGSNIRCNNGPGGSYTA DWNSRGGFVCGKGWSYGGNRAITYTGEYNASGPGYLAVYGWTRNPLIEYYIIEAHADLAPNEP WTSKGNFSFEEGEYEVFTSTRVNKPSIEGTRTFQQYWSLRKEQRVGGTVTTQRHFEEWAKLGM KLGNHDYVILATEGYTANGGSGSSGHSSITLQ (SEQ ID NO: 22) GPLIGPKTQTESQLNPRQGGYNYFQNWSEGGSNIRCNNGPGGSYTADWNSRGGFVCGKGWSYG GNRAITYTGEYNASGPGYLAVYGWTRNPLIEYYIIEAHADLAPNEPWTSKGNFSFEEGEYEVFTS TRVNKPSIEGTRTFQQYWSLRKEQRVGGTVTTQRHFEEWAKLGMKLGNHDYVILATEGYTANG GSGSSGHSSITLQ Xyl7143: (SEQ ID NO: 23) ATGGTCTCGTTCACTCTCCTCCTCACGGTCATCGCCGCTGCGGTGACGACGGCCAGCCCTCTC GAGGTGGTCAAGCGCGGCATCCAGCCGGGCACGGGCACCCACGAGGGGTACTTCTACTCGT TCTGGACCGACGGCCGTGGCTCGGTCGACTTCAACCCCGGGCCCCGCGGCTCGTACAGCGTC ACCTGGAACAACGTCAACAACTGGGTTGGCGGCAAGGGCTGGAACCCGGGCCCGCCGCGCA AGATTGCGTACAACGGCACCTGGAACAACTACAACGTGAACAGCTACCTCGCCCTGTACGG CTGGACTCGCAACCCGCTGGTCGAGTATTACATCGTGGAGGCATACGGCACGTACAACCCCT CGTCGGGCACGGCGCGGCTGGGCACCATCGAGGACGACGGCGGCGTGTACGACATCTACAA GACGACGCGGTACAACCAGCCGTCCATCGAGGGGACCTCCACCTTCGACCAGTACTGGTCCG TCCGCCGCCAGAAGCGCGTCGGCGGCACTATCGACACGGGCAAGCACTTTGACGAGTGGAA GCGCCAGGGCAACCTCCAGCTCGGCACCTGGAACTACATGATCATGGCCACCGAGGGCTAC CAGAGCTCTGGTTCGGCCACTATCGAGGTCCGGGAGGCCTAA (SEQ ID NO: 24) MVSFTLLLTVIAAAVTTASPLEVVKRGIQPGTGTHEGYFYSFWTDGRGSVDFNPGPRGSYSVTW NNVNNWVGGKGWNPGPPRKIAYNGTWNNYNVNSYLALYGWTRNPLVEYYIVEAYGTYNPSS GTARLGTIEDDGGVYDIYKTTRYNQPSIEGTSTFDQYWSVRRQKRVGGTIDTGKHFDEWKRQGN LQLGTWNYMIMATEGYQSSGSATIEVREA (SEQ ID NO: 25) SPLEVVKRGIQPGTGTHEGYFYSFWTDGRGSVDFNPGPRGSYSVTWNNVNNWVGGKGWNPGP PRKIAYNGTWNNYNVNSYLALYGWTRNPLVEYYIVEAYGTYNPSSGTARLGTIEDDGGVYDIY KTTRYNQPSIEGTSTFDQYWSVRRQKRVGGTIDTGKHFDEWKRQGNLQLGTWNYMIMATEGY QSSGSATIEVREA Xyl42827: (SEQ ID NO: 26) ATGGTCTCGCTCAAGTCCCTCCTCCTCGCCGCGGCGGCGACGTTGACGGCGGTGACGGCGCG CCCGTTCGACTTTGACGACGGCAACTCGACCGAGGCGCTGGCCAAGCGCCAGGTCACGCCC AACGCGCAGGGCTACCACTCGGGCTACTTCTACTCGTGGTGGTCCGACGGCGGCGGCCAGGC CACCTTCACCCTGCTCGAGGGCAGCCACTACCAGGTCAACTGGAGGAACACGGGCAACTTTG TCGGTGGCAAGGGCTGGAACCCGGGTACCGGCCGGACCATCAACTACGGCGGCTCGTTCAA CCCGAGCGGCAACGGCTACCTGGCCGTCTACGGCTGGACGCACAACCCGCTGATCGAGTACT ACGTGGTCGAGTCGTACGGGACCTACAACCCGGGCAGCCAGGCCCAGTACAAGGGCAGCTT CCAGAGCGACGGCGGCACCTACAACATCTACGTCTCGACCCGCTACAACGCGCCCTCGATCG AGGGCACCCGCACCTTCCAGCAGTACTGGTCCATCCGCACCTCCAAGCGCGTCGGCGGCTCC GTCACCATGCAGAACCACTTCAACGCCTGGGCCCAGCACGGCATGCCCCTCGGCTCCCACGA CTACCAGATCGTCGCCACCGAGGGCTACCAGAGCAGCGGCTCCTCCGACATCTACGTCCAGA CTCACTAG (SEQ ID NO: 27) MVSLKSLLLAAAATLTAVTARPFDFDDGNSTEALAKRQVTPNAQGYHSGYFYSWWSDGGGQA TFTLLEGSHYQVNWRNTGNFVGGKGWNPGTGRTINYGGSFNPSGNGYLAVYGWTHNPLIEYYV VESYGTYNPGSQAQYKGSFQSDGGTYNIYVSTRYNAPSIEGTRTFQQYWSIRTSKRVGGSVTMQ NHFNAWAQHGMPLGSHDYQIVATEGYQSSGSSDIYVQTH (SEQ ID NO: 28) RPFDFDDGNSTEALAKRQVTPNAQGYHSGYFYSWWSDGGGQATFTLLEGSHYQVNWRNTGNF VGGKGWNPGTGRTINYGGSFNPSGNGYLAVYGWTHNPLIEYYVVESYGTYNPGSQAQYKGSFQ SDGGTYNIYVSTRYNAPSIEGTRTFQQYWSIRTSKRVGGSVTMQNHFNAWAQHGMPLGSHDYQI VATEGYQSSGSSDIYVQTH BXyl1883: (SEQ ID NO: 29) ATGGCCTTCCTTTCCTCCTTTGCCCTTGCCGCCCTCGGGGCACTCGTCGTCCCGGCGAGGGGC GGCGTGACGTACCCGGACTGCGCAAACGGACCGCTCAAGTCAAATACGGTGTGCGATACGT CGGCGTCCCCGGGAGCCCGAGCCGCTGCTCTTGTGAGTGTAATGAACAACAACGAAAAACT TGCAAATCTTGTCAACAATTCGCCCGGCGTCTCGCGGCTCGGCCTGAGTGCGTACCAGTGGT GGAACGAAGCCCTCCACGGAGTAGCCCATAACCGCGGCATTACCTGGGGCGGCGAGTTCAG CGCGGCAACCCAGTTCCCGCAGGCTATCACGACTTCCGCCACTTTCGATGACGCTTTGATCG AGCAAATCGGCACCATTATCAGCACCGAGGCCCGTGCCTTTGCCAACAATGGGCGCGCTCAT CTCGACTTCTGGACGCCCAACGTCAACCCGTTTCGAGACCCGCGATGGGGTCGCGGACACGA GACGCCGGGAGAGGATGCATTCAAGAATAAGAAGTGGGCCGAGGCCTTCGTCAAGGGCATG CAAGGACCCGGACCGACGCACCGAGTCATCGCCACATGTAAGCACTACGCCGCCTACGACC TCGAGAACTCCGGGAGCACGACCCGATTCAACTTCGATGCGAAGGTGTCAACTCAAGATCTC GCCGAGTACTATCTCCCTCCGTTCCAACAGTGCGCCCGGGACTCTAAGGTGGGCTCCATCAT GTGCAGCTACAATGCGGTCAATGAAATCCCGGCCTGCGCGAATCCTTACCTGATGGATACCA TCCTGCGGAAACATTGGAATTGGACCGACGAGCACCAGTATATTGTGAGCGACTGCGATGCC GTGTACTATCTCGGCAATGCGAACGGCGGCCACCGATACAAGCCGAGCTATGCGGCGGCGA TCGGAGCATCTCTCGAGGCTGGTTGCGATAACATGTGCTGGGCGACCGGCGGCACCGCCCCG GATCCCGCCTCAGCCTTCAATTCCGGCCAGTTCAGCCAGACGACACTGGACACGGCTATTTT GCGCCAGATGCAGGGCCTCGTCCTAGCGGGATACTTTGACGGTCCGGGCGGTATGTACCGCA ACCTGAGCGTGGCGGACGTGAACACGCAGACCGCCCAGGACACTGCACTCAAGGCGGCGGA AGGAGGCATCGTGCTCCTCAAGAACGATGGGATCCTTCCGCTGTCGGTTAACGGTTCCAATT TCCAGGTCGCTATGATCGGGTTCTGGGCGAACGCAGCCGACAAGATGCTCGGGGGTTACAG CGGGAGCCCGCCGTTCAACCATGATCCCGTGACCGCTGCAAGATCGATGGGCATCACGGTCA ACTACGTCAACGGGCCATTGACGCAACCCAACGGGGATACGTCGGCAGCACTCAATGCGGC CCAAAAGTCCAACGCGGTGGTATTCTTTGGTGGAATCGACAATACGGTGGAGAAGGAGAGT CAGGACAGAACGTCCATCGAGTGGCCCTCAGGGCAACTGGCTCTGATTCGGAGGCTAGCCG AAACCGGCAAACCAGTCATCGTCGTCAGGCTCGGGACGCACGTCGACGACACCCCGCTCCTC AGCATTCCGAATGTGAGAGCCATTTTGTGGGCAGGATACCCGGGTCAAGACGGCGGGACTG CTGTGGTGAAAATCATTACCGGCCTTGCTAGTCCGGCGGGGAGGCTGCCCGCCACTGTGTAT CCGTCTTCGTACACCAGCCAAGCGCCCTTTACAAACATGGCCCTGAGGCCTTCTTCGTCCTAT CCCGGGCGAACATACCGCTGGTACAGTAACGCCGTCTTTCCATTTGGCCACGGCCTACATTA TACCAATTTCAGTGTCTCGGTGCGGGACTTTCCGGCCAGCTTCGCGATTGCCGATCTCCTGGC TTCCTGCGGGGATTCCGTGGCGTATCTTGATCTTTGCCCCTTCCCGTCCGTGTCGCTCAATGT GACCAATACAGGCACCCGCGTGTCCGATTACGTTGCGCTTGGGTTCTTGTCGGGAGATTTTG GTCCCAGCCCACATCCCATCAAGACATTGGCGACGTATAAGCGCGTGTTTAACATCGAACCT GGGGAAACACAGGTGGCCGAGCTAGACTGGAAGCTGGAGAGCCTGGTCCGGGTAGATGAG AAGGGCAACAGGGTACTCTACCCCGGAACATATACGCTTCTTGTGGATCAGCCAACCTTGGC AAATATCACCTTTATTTTGACAGGAGAAGAGGCAGTGTTGGATAGTTGGCCGCAGCCGTGA (SEQ ID NO: 30) MAFLSSFALAALGALVVPARGGVTYPDCANGPLKSNTVCDTSASPGARAAALVSVMNNNEKLA NLVNNSPGVSRLGLSAYQWWNEALHGVAHNRGITWGGEFSAATQFPQAITTSATFDDALIEQIG TIISTEARAFANNGRAHLDFWTPNVNPFRDPRWGRGHETPGEDAFKNKKWAEAFVKGMQGPGP THRVIATCKHYAAYDLENSGSTTRFNFDAKVSTQDLAEYYLPPFQQCARDSKVGSIMCSYNAVN EIPACANPYLMDTILRKHWNWTDEHQYIVSDCDAVYYLGNANGGHRYKPSYAAAIGASLEAGC DNMCWATGGTAPDPASAFNSGQFSQTTLDTAILRQMQGLVLAGYFDGPGGMYRNLSVADVNT QTAQDTALKAAEGGIVLLKNDGILPLSVNGSNFQVAMIGFWANAADKMLGGYSGSPPFNHDPV TAARSMGITVNYVNGPLTQPNGDTSAALNAAQKSNAVVFFGGIDNTVEKESQDRTSIEWPSGQL ALIRRLAETGKPVIVVRLGTHVDDTPLLSIPNVRAILWAGYPGQDGGTAVVKIITGLASPAGRLPA TVYPSSYTSQAPFTNMALRPSSSYPGRTYRWYSNAVFPFGHGLHYTNFSVSVRDFPASFAIADLL ASCGDSVAYLDLCPFPSVSLNVTNTGTRVSDYVALGFLSGDFGPSPHPIKTLATYKRVFNIEPGET QVAELDWKLESLVRVDEKGNRVLYPGTYTLLVDQPTLANITFILTGEEAVLDSWPQP (SEQ ID NO: 31) GVTYPDCANGPLKSNTVCDTSASPGARAAALVSVMNNNEKLANLVNNSPGVSRLGLSAYQWW NEALHGVAHNRGITWGGEFSAATQFPQAITTSATFDDALIEQIGTIISTEARAFANNGRAHLDFWT PNVNPFRDPRWGRGHETPGEDAFKNKKWAEAFVKGMQGPGPTHRVIATCKHYAAYDLENSGS TTRFNFDAKVSTQDLAEYYLPPFQQCARDSKVGSIMCSYNAVNEIPACANPYLMDTILRKHWN WTDEHQYIVSDCDAVYYLGNANGGHRYKPSYAAAIGASLEAGCDNMCWATGGTAPDPASAFN SGQFSQTTLDTAILRQMQGLVLAGYFDGPGGMYRNLSVADVNTQTAQDTALKAAEGGIVLLKN DGILPLSVNGSNFQVAMIGFWANAADKMLGGYSGSPPFNHDPVTAARSMGITVNYVNGPLTQP NGDTSAALNAAQKSNAVVFFGGIDNTVEKESQDRTSIEWPSGQLALIRRLAETGKPVIVVRLGTH VDDTPLLSIPNVRAILWAGYPGQDGGTAVVKIITGLASPAGRLPATVYPSSYTSQAPFTNMALRPS SSYPGRTYRWYSNAVFPFGHGLHYTNFSVSVRDFPASFAIADLLASCGDSVAYLDLCPFPSVSLN VTNTGTRVSDYVALGFLSGDFGPSPHPIKTLATYKRVFNIEPGETQVAELDWKLESLVRVDEKGN RVLYPGTYTLLVDQPTLANITFILTGEEAVLDSWPQP Xy125453: (SEQ ID NO: 32) ATGCGTACTCTTACGTTCGTGCTGGCAGCCGCCCCGGTGGCTGTGCTTGCCCAATCTCCTCTG TGGGGCCAGTGCGGCGGTCAAGGCTGGACAGGTCCCACGACCTGCGTTTCTGGCGCAGTATG CCAATTCGTCAATGACTGGTACTCCCAATGCGTGCCCGGATCGAGCAACCCTCCTACGGGCA CCACCAGCAGCACCACTGGAAGCACCCCGGCTCCTACTGGCGGCGGCGGCAGCGGAACCGG CCTCCACGACAAATTCAAGGCCAAGGGCAAGCTCTACTTCGGAACCGAGATCGATCACTACC ATCTCAACAACAATGCCTTGACCAACATTGTCAAGAAAGACTTTGGTCAAGTCACTCACGAG AACAGCTTGAAGTGGGATGCTACTGAGCCGAGCCGCAATCAATTCAACTTTGCCAACGCCGA CGCGGTTGTCAACTTTGCCCAGGCCAACGGCAAGCTCATCCGCGGCCACACCCTCCTCTGGC ACTCTCAGCTGCCGCAGTGGGTGCAGAACATCAACGACCGCAACACCTTGACCCAGGTCATC GAGAACCACGTCACCACCCTTGTCACTCGCTACAAGGGCAAGATCCTCCACTGGGACGTCGT TAACGAGATCTTTGCCGAGGACGGCTCGCTCCGCGACAGCGTCTTCAGCCGCGTCCTCGGCG AGGACTTTGTCGGCATCGCCTTCCGCGCCGCCCGCGCCGCCGATCCCAACGCCAAGCTCTAC ATCAACGACTACAACCTCGACATTGCCAACTACGCCAAGGTGACCCGGGGCATGGTCGAGA AGGTCAACAAGTGGATCGCCCAGGGCATCCCGATCGACGGCATCGGCACCCAGTGCCACCT GGCCGGGCCCGGCGGGTGGAACACGGCCGCCGGCGTCCCCGACGCCCTCAAGGCCCTCGCC GCGGCCAACGTCAAGGAGATCGCCATCACCGAGCTCGACATCGCCGGCGCCTCCGCCAACG ACTACCTCACCGTCATGAACGCCTGCCTCCAGGTCTCCAAGTGCGTCGGCATCACCGTCTGG GGCGTCTCTGACAAGGACAGCTGGAGGTCGAGCAGCAACCCGCTCCTCTTCGACAGCAACT ACCAGCCAAAGGCGGCATACAATGCTCTGATTAATGCCTTGTAA (SEQ ID NO: 33) MRTLTFVLAAAPVAVLAQSPLWGQCGGQGWTGPTTCVSGAVCQFVNDWYSQCVPGSSNPPTG TTSSTTGSTPAPTGGGGSGTGLHDKFKAKGKLYFGTEIDHYHLNNNALTNIVKKDFGQVTHENS LKWDATEPSRNQFNFANADAVVNFAQANGKLIRGHTLLWHSQLPQWVQNINDRNTLTQVIENH VTTLVTRYKGKILHWDVVNEIFAEDGSLRDSVFSRVLGEDFVGIAFRAARAADPNAKLYINDYN LDIANYAKVTRGMVEKVNKWIAQGIPIDGIGTQCHLAGPGGWNTAAGVPDALKALAAANVKEI AITELDIAGASANDYLTVMNACLQVSKCVGITVWGVSDKDSWRSSSNPLLFDSNYQPKAAYNA LINAL (SEQ ID NO: 34) QSPLWGQCGGQGWTGPTTCVSGAVCQFVNDWYSQCVPGSSNPPTGTTSSTTGSTPAPTGGGGS GTGLHDKFKAKGKLYFGTEIDHYHLNNNALTNIVKKDFGQVTHENSLKWDATEPSRNQFNFAN ADAVVNFAQANGKLIRGHTLLWHSQLPQWVQNINDRNTLTQVIENHVTTLVTRYKGKILHWDV VNEIFAEDGSLRDSVFSRVLGEDFVGIAFRAARAADPNAKLYINDYNLDIANYAKVTRGMVEKV NKWIAQGIPIDGIGTQCHLAGPGGWNTAAGVPDALKALAAANVKEIAITELDIAGASANDYLTV MNACLQVSKCVGITVWGVSDKDSWRSSSNPLLFDSNYQPKAAYNALINAL

Xyl805: (SEQ ID NO: 35) ATGCATCTCTCCTCGTCTCTCCTCCTCCTCGCCGCCTTGCCCCTGGGCATCGCCGGCAAGGGC AAGGGCCACGGCCACGGCCCCCATACCGGGCTCCACACCCTCGCCAAGCAGGCCGGCCTCA AGTACTTCGGCTCTGCCACCGACTCTCCCGGCCAGCGTGAGCGCGCCGGCTACGAGGACAAG TACGCCCAGTACGACCAGATCATGTGGAAGTCGGGCGAGTTCGGCCTGACGACCCCGACCA ACGGCCAAAAGTGGCTGTTTACTGAGCCCGAGCGTGGCGTGTTCAACTTCACCGAGGGTGAC ATCGTGACGAACCTGGCCCGGAAGCACGGTTTCATGCAGCGGTGCCACGCGCTCGTCTGGCA CAGCCAGCTCGCCCCTTGGGTCGAGTCGACCGAGTGGACGCCCGAGGAGCTGCGCCAGGTC ATTGTCAACCACATCACCCACGTGGCCGGCTACTACAAGGGCAAGTGCTATGCCTGGGACGT CGTCAACGAGGCCCTGAACGAGGACGGCACCTACCGCGAGTCCGTCTTCTACAAGGTGCTCG GCGAGGACTACATCAAGCTGGCCTTCGAGACGGCCGCCAAGGTCGACCCCCACGCCAAGCT CTACTACAACGACTACAACCTCGAGTCCCCCAGCGCCAAGACCGAGGGCGCCAAGCGCATC GTCAAGATGCTCAAGGACGCCGGCATCCGCATCGACGGCGTCGGCCTGCAGGCCCACCTCGT CGCCGAGAGCCACCCGACCCTCGACGAGCACATCGATGCCATCAAGGGCTTCACCGAGCTC GGCGTCGAGGTCGCCCTGACCGAGCTCGACATCCGCCTCTCCATCCCGGCCAACGCCACCAA CCTCGCCCAGCAGAGGGAGGCGTACAAGAACGTCGTCGGCGCTTGCGTCCAGGTTCGCGGC TGCATTGGCGTGGAGATCTGGGACTTCTATGACCCCTTCAGCTGGGTCCCTGCCACCTTCCCC GGCCAGGGCGCCCCCCTGCTCTGGTTCGAGGACTTTTCCAAGCACCCCGCCTACGACGGCGT CGTCGAGGCCCTGACCAACAGGACCACGGGCGGGTGCAAGGGCAAGGGCAAGGGCAAGGG CAAGGTTTGGAAGGCCTAA (SEQ ID NO: 36) MHLSSSLLLLAALPLGIAGKGKGHGHGPHTGLHTLAKQAGLKYFGSATDSPGQRERAGYEDKY AQYDQIMWKSGEFGLTTPTNGQKWLFTEPERGVFNFTEGDIVTNLARKHGFMQRCHALVWHSQ LAPWVESTEWTPEELRQVIVNHITHVAGYYKGKCYAWDVVNEALNEDGTYRESVFYKVLGED YIKLAFETAAKVDPHAKLYYNDYNLESPSAKTEGAKRIVKMLKDAGIRIDGVGLQAHLVAESHP TLDEHIDAIKGFTELGVEVALTELDIRLSIPANATNLAQQREAYKNVVGACVQVRGCIGVEIWDF YDPFSWVPATFPGQGAPLLWFEDFSKHPAYDGVVEALTNRTTGGCKGKGKGKGKVWKA (SEQ ID NO: 37) KGKGHGHGPHTGLHTLAKQAGLKYFGSATDSPGQRERAGYEDKYAQYDQIMWKSGEFGLTTP TNGQKWLFTEPERGVFNFTEGDIVTNLARKHGFMQRCHALVWHSQLAPWVESTEWTPEELRQV IVNHITHVAGYYKGKCYAWDVVNEALNEDGTYRESVFYKVLGEDYIKLAFETAAKVDPHAKLY YNDYNLESPSAKTEGAKRIVKMLKDAGIRIDGVGLQAHLVAESHPTLDEHIDAIKGFTELGVEVA LTELDIRLSIPANATNLAQQREAYKNVVGACVQVRGCIGVEIWDFYDPFSWVPATFPGQGAPLL WFEDFSKHPAYDGVVEALTNRTTGGCKGKGKGKGKVWKA Xyl36882: (SEQ ID NO: 38) ATGCACTCCAAAGCTTTCTTGGCAGCGCTTCTTGCGCCTGCCGTCTCAGGGCAACTGAACGA CCTCGCCGTCAGGGCTGGACTCAAGTACTTTGGTACTGCTCTTAGCGAGAGCGTCATCAACA GTGATACTCGGTATGCTGCCATCCTCAGCGACAAGAGCATGTTCGGCCAGCTCGTCCCCGAG AATGGCATGAAGTGGGATGCTACTGAGCCGTCCCGTGGCCAGTTCAACTACGCCTCGGGCGA CATCACGGCCAACACGGCCAAGAAGAATGGCCAGGGCATGCGTTGCCACACCATGGTCTGG TACAGCCAGCTCCCGAGCTGGGTCTCCTCGGGCTCGTGGACCAGGGACTCGCTCACCTCGGT CATCGAGACGCACATGAACAACGTCATGGGCCACTACAAGGGCCAATGCTACGCCTGGGAT GTCATCAACGAGGCCATCAATGACGACGGCAACTCCTGGCGCGACAACGTCTTTCTCCGGAC CTTTGGGACCGACTACTTCGCCCTGTCCTTCAACCTAGCCAAGAAGGCCGATCCCGATACCA AGCTGTACTACAACGACTACAACCTCGAGTACAACCAGGCCAAGACGGACCGCGCTGTTGA GCTCGTCAAGATGGTCCAGGCCGCCGGCGCGCCCATCGACGGTGTCGGCTTCCAGGGCCACC TCATTGTCGGCTCGACCCCGACGCGCTCGCAGCTGGCCACCGCCCTCCAGCGCTTCACCGCG CTCGGCCTCGAGGTCGCCTACACCGAGCTCGACATCCGCCACTCGAGCCTGCCGGCCTCTTC GTCGGCGCTCGCGACCCAGGGCAACGACTTCGCCAACGTGGTCGGCTCTTGCCTCGACACCG CCGGCTGCGTCGGCGTCACCGTCTGGGGCTTCACCGATGCGCACTCGTGGATCCCGAACACG TTCCCCGGCCAGGGCGACGCCCTGATCTACGACAGCAACTACAACAAGAAGCCCGCGTGGA CCTCGATCTCGTCCGTCCTGGCCGCCAAGGCCACCGGCGCCCCGCCCGCCTCGTCCTCCACC ACCCTCGTCACCATCACCACCCCTCCGCCGGCATCCACCACCGCCTCCTCCTCCTCCAGTGCC ACGCCCACGAGCGTCCCGACGCAGACGAGGTGGGGACAGTGCGGCGGCATCGGATGGACGG GGCCGACCCAGTGCGAGAGCCCATGGACCTGCCAGAAGCTGAACGACTGGTACTGGCAGTG CCTGTAA (SEQ ID NO: 39) MHSKAFLAALLAPAVSGQLNDLAVRAGLKYFGTALSESVINSDTRYAAILSDKSMFGQLVPENG MKWDATEPSRGQFNYASGDITANTAKKNGQGMRCHTMVWYSQLPSWVSSGSWTRDSLTSVIE THMNNVMGHYKGQCYAWDVINEAINDDGNSWRDNVFLRTFGTDYFALSFNLAKKADPDTKLY YNDYNLEYNQAKTDRAVELVKMVQAAGAPIDGVGFQGHLIVGSTPTRSQLATALQRFTALGLE VAYTELDIRHSSLPASSSALATQGNDFANVVGSCLDTAGCVGVTVWGFTDAHSWIPNTFPGQGD ALIYDSNYNKKPAWTSISSVLAAKATGAPPASSSTTLVTITTPPPASTTASSSSSATPTSVPTQTRW GQCGGIGWTGPTQCESPWTCQKLNDWYWQCL (SEQ ID NO: 40) QLNDLAVRAGLKYFGTALSESVINSDTRYAAILSDKSMFGQLVPENGMKWDATEPSRGQFNYAS GDITANTAKKNGQGMRCHTMVWYSQLPSWVSSGSWTRDSLTSVIETHMNNVMGHYKGQCYA WDVINEAINDDGNSWRDNVFLRTFGTDYFALSFNLAKKADPDTKLYYNDYNLEYNQAKTDRA VELVKMVQAAGAPIDGVGFQGHLIVGSTPTRSQLATALQRFTALGLEVAYTELDIRHSSLPASSS ALATQGNDFANVVGSCLDTAGCVGVTVWGFTDAHSWIPNTFPGQGDALIYDSNYNKKPAWTSI SSVLAAKATGAPPASSSTTLVTITTPPPASTTASSSSSATPTSVPTQTRWGQCGGIGWTGPTQCESP WTCQKLNDWYWQCL Xyl5123: (SEQ ID NO: 41) ATGGTCTCCTTCAAGGCCCTCGTTCTCGGCGCCGTTGGCGCCCTCTCCTTCCCTTTCAACGTC ACCGAGCTGTCCGAGGCGCACGCCCGGGGCGAGAATGTGACCGAGCTCTTGATGTCTCGCG CCGGCACGCCGAGCCAGACCGGCTGGCACGGGGGCTACTACTTCTCCTTCTGGACCGACAAC GGCGGCACCGTCAACTACTGGAACGGCGACAATGGCAGATACGGTGTCCAGTGGCAGAACT GCGGCAACTTTGTCGGCGGTAAGGGATGGAACCCCGGCGCGGCGCGGACCATCAACTTCAG CGGCTCCTTCAACCCGTCGGGCAACGGGTACCTGGCCGTGTACGGGTGGACGCAGAACCCG CTGATCGAGTACTACATCGTCGAGTCGTTCGGCACGTACGACCCGTCGTCGCAGGCCCAGGT CCTCGGCACCTTCTACCAGGACGGCAGCAACTACAAGATCGCCAAGACGACCCGCTACAAC CAGCCCTCCATCGAGGGCACCAGCACCTTCGACCAGTTCTGGTCCGTCCGCGAGAACCACCG CACCAGCGGCAGCGTCAACGTCGGCGCCCACTTCGCCCGCTGGCAGCAGGCCGGCCTCCGCC TCGGCACCCACAACTACCAAATCATGGCCACCGAGGGCTACCAGAGCAGCGGCTCCTCCGA TATCACCGTCTGGTAA (SEQ ID NO: 42) MVSFKALVLGAVGALSFPFNVTELSEAHARGENVTELLMSRAGTPSQTGWHGGYYFSFWTDNG GTVNYWNGDNGRYGVQWQNCGNFVGGKGWNPGAARTINFSGSFNPSGNGYLAVYGWTQNPL IEYYIVESFGTYDPSSQAQVLGTFYQDGSNYKIAKTTRYNQPSIEGTSTFDQFWSVRENHRTSGSV NVGAHFARWQQAGLRLGTHNYQIMATEGYQSSGSSDITVW (SEQ ID NO: 43) FPFNVTELSEAHARGENVTELLMSRAGTPSQTGWHGGYYFSFWTDNGGTVNYWNGDNGRYGV QWQNCGNFVGGKGWNPGAARTINFSGSFNPSGNGYLAVYGWTQNPLIEYYIVESFGTYDPSSQA QVLGTFYQDGSNYKIAKTTRYNQPSIEGTSTFDQFWSVRENHRTSGSVNVGAHFARWQQAGLR LGTHNYQIMATEGYQSSGSSDITVW Xyl2202: (SEQ ID NO: 44) ATGGTTTCTGTCAAGGCAGTCCTCCTCCTCGGCGCCGCCGGCACCACCCTGGCCTTCCCGTTC AACGCTACCCAGTTCAGCGAGCTCGTTGCCCGGGCCGGCACCCCGAGCGGCACCGGCACGC ACGACGGCTTCTACTACTCCTTCTGGACCGACGGCGGCGGCAACGTCAACTACGAGAACGGT CCTGGCGGCTCCTACACCGTCCAGTGGCAGAACTGCGGCAACTTTGTCGGCGGCAAGGGCTG GAACCCCGGCCAGGCCCGCACCATCACCTACTCGGGCACCGTCGACTTCCAGGGCGGCAAC GGCTACCTGGCCATCTACGGCTGGACGCAGAACCCGCTGATCGAGTACTACATCGTCGAGTC GTTCGGCTCGTACGACCCCTCGTCGCAGGCCCAGACTTTCGGCACCGTCGAGGTGGACGGCG GCACCTACACGCTGGCCAAGACGACGCGCGTCAACCAGCCCTCGATCGAGGGCACCAGCAC CTTCGACCAGTTCTGGTCCGTCCGCCAGCAGCACCGCACCTCCGGCTCCGTCGACGTCGGCG CCCACTTCGACGCCTGGGCCAAGGCCGGCCTCCAGCTCGGCACCCACAACTACAGATCGTCG CCACCGAGGGCTACCAGAGCAGCGGCTCCTCTTCCATCACCGTCCAGGCCTAAGAGGGCCCT CAGGCCTTTGCTCTACTGCCCTCTCCTCTCCTCTGCGCTTTCCGTAAGGGAGATCTAA (SEQ ID NO: 45) MVSVKAVLLLGAAGTTLAFPFNATQFSELVARAGTPSGTGTHDGFYYSFWTDGGGNVNYENGP GGSYTVQWQNCGNFVGGKGWNPGQARTITYSGTVDFQGGNGYLAIYGWTQNPLIEYYIVESFG SYDPSSQAQTFGTVEVDGGTYTLAKTTRVNQPSIEGTSTFDQFWSVRQQHRTSGSVDVGAHFDA WAKAGLQLGTHNYRSSPPRATRAAAPLPSPSRPKRALRPLLYCPLLSSALSVREI (SEQ ID NO: 46) FPFNATQFSELVARAGTPSGTGTHDGFYYSFWTDGGGNVNYENGPGGSYTVQWQNCGNFVGG KGWNPGQARTITYSGTVDFQGGNGYLAIYGWTQNPLIEYYIVESFGSYDPSSQAQTFGTVEVDG GTYTLAKTTRVNQPSIEGTSTFDQFWSVRQQHRTSGSVDVGAHFDAWAKAGLQLGTHNYRSSP PRATRAAAPLPSPSRPKRALRPLLYCPLLSSALSVREI BXyl17994: (SEQ ID NO: 47) ATGATAATGATGAGACTCAAGTCGGGACTGGCCGGGGCGCTGGCCTGGGGAACGACGGCGG CGGCGGCGGCGGCGGTGGCGAGAGTGGGAGCCGGCGCGGCCGCGAACTCGACCTACTACAA CCCGATCCTCCCCGGGTGGCACTCGGACCCGTCGTGCGTGCAGGTGGAGGGGATCTTCTACT GCGTGACGTCGACCTTCATCTCGTTCCCCGGCCTGCCCATCTACGCGTCCCGGGACCTGATCA ACTGGAAGCACGTCAGCCACGTGTGGAACCGCGAGTCCCAGCTGCCCGGGTACAGCTGGGC GACGGAGGGCCAGCAGGAGGGCATGTACGCGGCGACGATCCGGCACCGCGAGGGCGTCTTC TATGTCATCTGCGAGTACCTGGGCGTCGGCGGCAGGGACGCCGGCGTGCTCTTCCGGGCGAC GGACCCGTTCGACGACGCGGCCTGGAGCGACGCCCTGACCTTCGCCGCGCCCAAGATCGAC CCGGACCTGTTCTGGGACGACGACGGGACGGCCTACGTGGCGACGCAGGGCGTGCAGGTGC AGCGCATGGACCTCGACACGGGCGCCATCGGCCCGCCCGTGCCGCTGTGGAACGGGACGGG CGGGGTGTGGCCCGAGGGCCCGCACATCTACCGCCGCGCCGACCACTTCTACCTCATGATCG CCGAGGGCGGCACGGCCGAGGACCACGCCATCACCATCGCCCGCAGCGACCGGCTGACGGG GCCCTACGTCTCCTGCCCGCACAACCCGATCCTGACCAACCGCGGCACGGACGAGTACTTCC AGACGGTCGGCCACGGCGACCTCTTCCAGGACGCCGCCGGCAACTGGTGGGGCGTCGCCCT GGCCACGCGCTCCGGCCCGGAGTACCGCGTCTACCCGATGGGGCGCGAGACCGTGCTGTTCC CCGTCACCTGGCGCGAGGGCGACTGGCCGGTCCTGCAGCCCGTGCGCGGCGCCATGTCGGG CTGGCCGCTGCCGCCGCCGACGCGCGACCTGCCCGGCGACGGGCCCTTCAACGCGGACCCG GACGTGAAGGCGATGCCGCGGAACCTGGTGCACTGGCGGGTCCCGCGCGAGGGCGCCTTCG CGACCACGGCGCGCGGGCTCCGCGTCGCGCTGGGGCGCAACCGGCTCGACGGCTGGCCCGG GGGCGCCGAGCCGGCCGCCAGGGCCGTCTCCTTCGTGGGGCGCCGCCAGACCGACAGCCTC TTCACCTTCAGCGAGGCCGGCGTGACCGCGTTCCTGACCCAGCTCGCCAACCTGCAGCTCGG CCTGGTCCTCCCTGGACGGCGGGCCAGCTGCGGCTCCGCTTCATCGCGTCGGGCCACGTCAC GCGATACCGCGGTGCCGGAGGACTGCACCGATGTCGGCAGCTGTGACGGCGGTGACGACGG CGGTGACGGCGGGTACCGGTTCGCGGCCATGCTGGCGTCCGACCCGGACCCGGACCGGACC CGGATCGAGGTCGGCACCGCGCCGGCCGAGCTGCTCAGCGGCGGCTCCGGCTCCTTCGTCGG CACCCTGCTCGGCGTCTACGCCACCTGCAACGGGGCCGGGGAGGGCATCGACTGCCCCGCC GGCACGCCCGACGCTTACTTCACCCGGTGGAGGTACACGGGCGAGGGCCAGTTCTACACCG AGACCGATCTCGTCCCGCCCGACGAGGGCCAGGGCAAGGGTAAAGGTAAAGGGAACGGTA AAGGCAAGGGCAACGGCAACGGCAACGGCAAAGCCGCCAAGAGAAGCAGGTTTCCAAGGT GGACGCCGGGTCTAAATGGCGTCGTTATCCCGCCCCTGTGGATCATGGAGGACGACCCGGA GACCCGCTGGCCGGCCCAGAAGCGGGCTGGGGCGGGCGGGCAGAGCTACGTCTTCCGCCAC GGCAACCTGCACACAGTTCGGGATGAGAATGATGCCTTCAAGGGCGCCTCTCTCTGCGTACC TTACCATACCTACCTTGCCAAGGTGATCCAGGCACTTACTCTCAACTTTGCGCATCTTTTCGG GGCGTGGAGACTGACGGTGTAG (SEQ ID NO: 48) MIMMRLKSGLAGALAWGTTAAAAAAVARVGAGAAANSTYYNPILPGWHSDPSCVQVEGIFYC VTSTFISFPGLPIYASRDLINWKHVSHVWNRESQLPGYSWATEGQQEGMYAATIRHREGVFYVIC EYLGVGGRDAGVLFRATDPFDDAAWSDALTFAAPKIDPDLFWDDDGTAYVATQGVQVQRMDL DTGAIGPPVPLWNGTGGVWPEGPHIYRRADHFYLMIAEGGTAEDHAITIARSDRLTGPYVSCPHN PILTNRGTDEYFQTVGHGDLFQDAAGNWWGVALATRSGPEYRVYPMGRETVLFPVTWREGDW PVLQPVRGAMSGWPLPPPTRDLPGDGPFNADPDVKAMPRNLVHWRVPREGAFATTARGLRVAL GRNRLDGWPGGAEPAARAVSFVGRRQTDSLFTFSEAGVTAFLTQLANLQLGLVLPGRRASCGSA SSRRATSRDTAVPEDCTDVGSCDGGDDGGDGGYRFAAMLASDPDPDRTRIEVGTAPAELLSGGS GSFVGTLLGVYATCNGAGEGIDCPAGTPDAYFTRWRYTGEGQFYTETDLVPPDEGQGKGKGKG NGKGKGNGNGNGKAAKRSRFPRWTPGLNGVVIPPLWIMEDDPETRWPAQKRAGAGGQSYVFR HGNLHTVRDENDAFKGASLCVPYHTYLAKVIQALTLNFAHLFGAWRLTV (SEQ ID NO: 49) WGTTAAAAAAVARVGAGAAANSTYYNPILPGWHSDPSCVQVEGIFYCVTSTFISFPGLPIYASRD LINWKHVSHVWNRESQLPGYSWATEGQQEGMYAATIRHREGVFYVICEYLGVGGRDAGVLFR ATDPFDDAAWSDALTFAAPKIDPDLFWDDDGTAYVATQGVQVQRMDLDTGAIGPPVPLWNGT GGVWPEGPHIYRRADHFYLMIAEGGTAEDHAITIARSDRLTGPYVSCPHNPILTNRGTDEYFQTV GHGDLFQDAAGNWWGVALATRSGPEYRVYPMGRETVLFPVTWREGDWPVLQPVRGAMSGWP LPPPTRDLPGDGPFNADPDVKAMPRNLVHWRVPREGAFATTARGLRVALGRNRLDGWPGGAEP AARAVSFVGRRQTDSLFTFSEAGVTAFLTQLANLQLGLVLPGRRASCGSASSRRATSRDTAVPED CTDVGSCDGGDDGGDGGYRFAAMLASDPDPDRTRIEVGTAPAELLSGGSGSFVGTLLGVYATC NGAGEGIDCPAGTPDAYFTRWRYTGEGQFYTETDLVPPDEGQGKGKGKGNGKGKGNGNGNGK AAKRSRFPRWTPGLNGVVIPPLWIMEDDPETRWPAQKRAGAGGQSYVFRHGNLHTVRDENDAF KGASLCVPYHTYLAKVIQALTLNFAHLFGAWRLTV BXyl45310: (SEQ ID NO: 50) ATGGGGCGCCTAAACGATCTCATAGCCCTCCTTGCACTGTTGAGCGGCAGTGCCACATCCGC TGCCGTAAGAAACACGGCTTCTCAGGCTCGCGCGGCGGAATTCAACAACCCGGTGCTCTGGG AGGACTATCCGGACCTGGACGTGTTCCGGGTCGGGTCGACCTTCTACTACTCCTCCTCCACGT TCGCCTACTCCCCGGGGGCTCCGGTGCTCAAGTCGTACGACCTGGTGAACTGGACCCCCGTC ACCCACTCGGTCCCGACGCTCAACTTTGGGGACCGCTACAACCTCACGGGCGGCACGCCGGC CGGCTACGTCAAGGGCATCTGGGCGTCGACGCTGCGGTACCGGCCCTCCAACGACAAGTTCT ACTGGTACGGCTGCGTCGAGTTCGGCAAGACGTACATCTGGACCAGCTCCGGCACGCGCGC GGGCGACAGGGACGGCGAGGTGGACCCCGCCGACTGGGTCTGGGAGCCGCACCCGCCCATC GACCGGTGCTACTACGACAGCGGCCTGTTGATCGACGACGACGACAAGATGTACATCGCGT ACGGCAACCCCAAGATCGAGGTCGCCGAGCTGTCCGACGACGGGCTCACCGAGGTCTCCTC CCGGGTCGTCTACACCCCGCCGGCCGGCACCACCATCGAGGGCTCGCGCATGTACAAGGTCG GCGACGCCTACTACATCCTGGTGACGCGGCCGGCCGACGCCGAGTGGGTGCTCCGGTCGAC GTCCGGGCCCTTTCGGCCCGGCGGCATGGTCGACACCCCGGACGGCCGCAGCTGGTACTACG TCGCCTTCATGGACGCGTACCCGGGGGGCCGCATCCCCGTGGTCGCGCCGCTGCGCTGGACG GACGACGGGTGGCCCGAGGTGGTGACGGACGCGCAGGGCGGCTGGGGCGCCAGCTACCCGG TCCCCGTGGAGACGGGCAAGACGGTGCCGGACGACGGCTGGGAGCTGGACGAGTTCAGGGG CGGCCGGCTGAGCCACCACTGGGAGTGGAACCACAACCCGGACCCGGCCCGCTTCGCGCTC GCGGGCGGGGACGAGGGCGGGCTGGTGCTGCAGGCGGCGACGGTGACGGAGGACCTGTTCG CGGCCAGGAACACGCTCACGCGGAGGATCAGGGGCCCCAAGTCGAGCGGCACGTTCCGGCT GGACGTCAGCAGGATGCGCGACGGCGACCGGGCCGGGGCCGTGCTGTTCCGGGACACGGCG GCGTATATCGGCGTGTGGAAGCAAGGGGACGAGGCCACCATCGTCGTAGTCGACGGCCTTG AGCTGGCTCTGAGCTCCTGGACGACCGTCTCGACCGGGAGGGTGGCCGAGACGGGCCCGAC CCTGAGCAGCACGCAGGATGTCTGGCTCCGGATCGAGGCCGACATCACGCCCGCGTTCGGG ACCAACACGGCAAGGACCACGACTTTCTCGTACAGTGTGGACGGCGGGAAGACCTTTGTCC GTCTTGGCCCGGCCTTCTCGATGAGCAATACTTGGCAATACTTTACGGGCTACAGGTTCGGA GTCTTCAACTTTGCCACCAAGGAGCTTGGGGGCGAAGTCAAGGTCAAGAGCTTCCAGATGCA GCCTCTGTGA (SEQ ID NO: 51) MGRLNDLIALLALLSGSATSAAVRNTASQARAAEFNNPVLWEDYPDLDVFRVGSTFYYSSSTFA YSPGAPVLKSYDLVNWTPVTHSVPTLNFGDRYNLTGGTPAGYVKGIWASTLRYRPSNDKFYWY GCVEFGKTYIWTSSGTRAGDRDGEVDPADWVWEPHPPIDRCYYDSGLLIDDDDKMYIAYGNPKI EVAELSDDGLTEVSSRVVYTPPAGTTIEGSRMYKVGDAYYILVTRPADAEWVLRSTSGPFRPGG MVDTPDGRSWYYVAFMDAYPGGRIPVVAPLRWTDDGWPEVVTDAQGGWGASYPVPVETGKT VPDDGWELDEFRGGRLSHHWEWNHNPDPARFALAGGDEGGLVLQAATVTEDLFAARNTLTRRI RGPKSSGTFRLDVSRMRDGDRAGAVLFRDTAAYIGVWKQGDEATIVVVDGLELALSSWTTVST GRVAETGPTLSSTQDVWLRIEADITPAFGTNTARTTTFSYSVDGGKTFVRLGPAFSMSNTWQYFT GYRFGVFNFATKELGGEVKVKSFQMQPL (SEQ ID NO: 52) VRNTASQARAAEFNNPVLWEDYPDLDVFRVGSTFYYSSSTFAYSPGAPVLKSYDLVNWTPVTHS VPTLNFGDRYNLTGGTPAGYVKGIWASTLRYRPSNDKFYWYGCVEFGKTYIWTSSGTRAGDRD GEVDPADWVWEPHPPIDRCYYDSGLLIDDDDKMYIAYGNPKIEVAELSDDGLTEVSSRVVYTPP AGTTIEGSRMYKVGDAYYILVTRPADAEWVLRSTSGPFRPGGMVDTPDGRSWYYVAFMDAYP GGRIPVVAPLRWTDDGWPEVVTDAQGGWGASYPVPVETGKTVPDDGWELDEFRGGRLSHHWE WNHNPDPARFALAGGDEGGLVLQAATVTEDLFAARNTLTRRIRGPKSSGTFRLDVSRMRDGDR AGAVLFRDTAAYIGVWKQGDEATIVVVDGLELALSSWTTVSTGRVAETGPTLSSTQDVWLRIEA DITPAFGTNTARTTTFSYSVDGGKTFVRLGPAFSMSNTWQYFTGYRFGVFNFATKELGGEVKVK SFQMQPL BXyl20937:

(SEQ ID NO: 53) ATGACGATGCTCAAGTCGGCCCTCCCCGCGGCGCTGGCCCTCCTCCTAACGGCGGCCAACGG CCACCCTTCCAGGACCCCGGCGGCGGCGGCGGCGGGGGGATGGGCACCGCTGGCGAATGGG ACATTCCGGAACCCGATCCTGTACGAGGACTTCCCGGACAACGACGTGTCGGTCGGGCCGG ACGGGGCCTTCTACCTGTCGGCGTCCAACTTCCACTTCAGCCCCGGGGCGCCCATCCTGCGG TCTTACGACCTGGTCGACTGGGAGTTTGTGGGCCACTCGATCCCGCGCCTCGACTTCGGCGC CGGCTACGACCTGCCGCCGACGGGCGAGCGGGCGTACCGCGCGGGCACGTGGGCGTCGACG CTGCGGTACCGCGAGAGCACGGGGCTCTGGTACTGGATCGGGTGCACCAACTTCTGGCGCAC CTGGGTCTTCACCGCCCCGGCGCCCGAGGGGCCCTGGACCCGGGCGGGCGACTTCGGCGAC GGCGTGTGCTTCTACGACAACGGCCTGCTGGTCGACGACGACGACACCATGTACGTCGTCTA CACCCACGACGGCGGCAAGCGGGTCCACGTGACCCAGCTGAGCGCGGACGGGCTGAGCGCC GTCCGCACCGAGACCGTCCTGGTGCCGGAGCAGGCCGGCGTCGACGCCCTCGAGGGCAACC GCATGTACAAGATCGACGGCCGCTACTACATCCTCAACGACCACCCGGGCACCACCGCCTAC GTCTGGAAGTCCGACTCGCCCTGGGGTCCCTACGAGGGCAAGGCGCTGGCCGACAACGTCG CCAGCCCCCTGCCCGGCGGCGGCGCCCCGCACCAGGGCAGCCTGGTGCCCACGCCCTCGGG CGCCTGGTACTTTATGTCCTTCACCTGGGCCTACCCGTCCGGCCGCCTGCCCGTGCTGGCCCC GATCGAGTTCCAGCCGGACGGGTTCCCGACCCTCGGCGCCTGGTACTTTATGTCCTTCACCTG GGCCTACCCGTCCGGCCGCCTGCCCGTGCTGGCCCCGATCGAGTTCCAGCCGGACGGGTTCC CGACCCTCGTCACCGCCAAGGACAACAACAACAACAACAACAACAACGCCTGGGGCGCCAG CTACCCGCTGCCGCCGCTACCGCGCCGGCCGCTGGGCTACCCGTGGTCGCGGGCGCGGTACG ACTTCAGCGCGCTCGCCGAACTGCCGCCCGCGTTCGAGTGGAACCACAACCCGGACGCGAG CAACTACACGCTGGGAGGGAACGGCGCTGCCGGCCTGATCCTGCGGGCCGCCACCGTCGCG CCCGACGACGACCTGTACTCGGCGCGCAACACGCTGACGCACCGCGCCCACGGGCCCTTCCC CTCGGCCACGCTGGTCCTCGACGTCGCGGACATGGCCGACGGCGACCGCGCCGGGCTGGCC GCCTTCCGCGACCGCAGTGCCTACATCGGCATCCACTGCTCCTCCTCCTCTGATGAGAAGAA GAAGAAGACGTACGAGGTGGTGGCGCGATTCAACATGACGCTGGACGAGTGGGGCAGCGGC GAGACGCTCGATCTGGGCGAGGTGGTGGAGCGGGTCGAGCTGGCCTCGGGCGTGACGCGCG TGTGGCTGCGGGCGAGCATGGACGCGCGGCCCGACGGCGAGCGGACGGCCCGGTTCGGGTA CAGCGTCGACGGGGGCGAGACCTTTGCCGGCCTGGGGCCCGCCTACCAACTCTACGCCGGGT GGCCCTTCTTTGTCGGCTACCGCTTCGCCGTCTTCAACTACGCCACCAAGGCCCTCGGCGGG AGCGTCACCGTCCTGAGCCTCGAGACCGACTCGGGCGAGGGTGAGCGCGATGCCGAGCAAG CGTGA (SEQ ID NO: 54) MTMLKSALPAALALLLTAANGHPSRTPAAAAAGGWAPLANGTFRNPILYEDFPDNDVSVGPDG AFYLSASNFHFSPGAPILRSYDLVDWEFVGHSIPRLDFGAGYDLPPTGERAYRAGTWASTLRYRE STGLWYWIGCTNFWRTWVFTAPAPEGPWTRAGDFGDGVCFYDNGLLVDDDDTMYVVYTHDG GKRVHVTQLSADGLSAVRTETVLVPEQAGVDALEGNRMYKIDGRYYILNDHPGTTAYVWKSDS PWGPYEGKALADNVASPLPGGGAPHQGSLVPTPSGAWYFMSFTWAYPSGRLPVLAPIEFQPDGF PTLGAWYFMSFTWAYPSGRLPVLAPIEFQPDGFPTLVTAKDNNNNNNNNAWGASYPLPPLPRRP LGYPWSRARYDFSALAELPPAFEWNHNPDASNYTLGGNGAAGLILRAATVAPDDDLYSARNTL THRAHGPFPSATLVLDVADMADGDRAGLAAFRDRSAYIGIHCSSSSDEKKKKTYEVVARFNMTL DEWGSGETLDLGEVVERVELASGVTRVWLRASMDARPDGERTARFGYSVDGGETFAGLGPAY QLYAGWPFFVGYRFAVFNYATKALGGSVTVLSLETDSGEGERDAEQA (SEQ ID NO: 55) HPSRTPAAAAAGGWAPLANGTFRNPILYEDFPDNDVSVGPDGAFYLSASNFHFSPGAPILRSYDL VDWEFVGHSIPRLDFGAGYDLPPTGERAYRAGTWASTLRYRESTGLWYWIGCTNFWRTWVFTA PAPEGPWTRAGDFGDGVCFYDNGLLVDDDDTMYVVYTHDGGKRVHVTQLSADGLSAVRTETV LVPEQAGVDALEGNRMYKIDGRYYILNDHPGTTAYVWKSDSPWGPYEGKALADNVASPLPGG GAPHQGSLVPTPSGAWYFMSFTWAYPSGRLPVLAPIEFQPDGFPTLGAWYFMSFTWAYPSGRLP VLAPIEFQPDGFPTLVTAKDNNNNNNNNAWGASYPLPPLPRRPLGYPWSRARYDFSALAELPPA FEWNHNPDASNYTLGGNGAAGLILRAATVAPDDDLYSARNTLTHRAHGPFPSATLVLDVADMA DGDRAGLAAFRDRSAYIGIHCSSSSDEKKKKTYEVVARFNMTLDEWGSGETLDLGEVVERVELA SGVTRVWLRASMDARPDGERTARFGYSVDGGETFAGLGPAYQLYAGWPFFVGYRFAVFNYAT KALGGSVTVLSLETDSGEGERDAEQA

[0324] The following sequences comprise additional xylanase (Xyl), beta-xylosidase (BXyl), and alpha-xylosidase (AXyl) sequences of interest. The first sequence provided in each set below comprises the cDNA sequence, the second sequence is the polypeptide sequence with no signal sequence predicted.

TABLE-US-00003 Xyl8836: (SEQ ID NO: 56) ATGCTGAACCTATCCCACACCGAGCACACTCTCTTTCGCCCTCTCCCCCTTTCCCTCCCTCAT CACCACCACCACCACCACTTCATTGTCGGCCGCCGCCCGCCCGAGGCGCTGCGCGGCGCCAT CACGCGCCACATCCGCGCCGTCGCCGGCTACTACCGCGGCCGCTGCTACGCCTGGGACGTGG TCAACGAGGCGCTCGACGAGGACGGCACCTACCGCAAGAGCCTCTTCTACAACGTCCTCGGC GACGAGTACATCCGCATCGTCAAGACCTTCGAGAAGCTGATCCGCGAGAAGCCAAAGCCGG GCTTCAAGCGCAAGAGGAAAACCGTAGCAGCAAACTAA (SEQ ID NO: 57) MLNLSHTEHTLFRPLPLSLPHHHHHHHFIVGRRPPEALRGAITRHIRAVAGYYRGRCYAWDVVN EALDEDGTYRKSLFYNVLGDEYIRIVKTFEKLIREKPKPGFKRKRKTVAAN AXyl267: (SEQ ID NO: 58) ATGGAGGAGGAAGCGACTCCAAGACCCCAATCGAGTATCGTGCAGATGCAGAGGCACATGC TCAACTCGCGCTGGCATGCCAGGCGTTTGGCCAACAAACCCCACGGCGTCTTCCCAAGCTTG GATGGACATCTAAGGACCTACACCAAGGATATCCGACCAGCCCCGACCTGGCGGGTCGGAC AATGGCTCGTGGCCGAGGGCGTACAAGTCCAATACGCCGAGGAAGTATACCGAATCACTCC CACGGCCTCGGGCAAGGGAATCAGCCTCTTGTGCCCGACGCGCAAGATCTTGAACCGTGGG AACACTCTGAACCTGGCAACGCTCAGCATCGACATCGAGCCGGCTTTTGATGGCGTCCTCTC TGTCGAGACCACCCACTGGCAAGGCGCCGTCCGTCGCGGACCCGACTTCGACCTCTTCCCCG CCGGCCGGCCCGAGGTGGACGCCAAGGTGACCAAGACGGAGAGCGGCACCACCCTGTCGTC CGGGACGCTCTCGGCGACAGTCAGCGGCAAGCCGCACGAGTTCGAGATCGCCTTCCATCCG ACCGGGGGCAAGAAGCCCCTGACCACCCTGCTCAACCGGTCAGTCGGCCTGGCCTACACGC CCGCCCCGAGCACGCCCATGCAGCTGGCCGACATGCGCAACTTCCGCCACTACATCTTCACC CAGACCACCCTCGCCGTCGGCGAGTCCATCCACGGGCTCGGCGAGCGCTTCGGGCCCTTCAA CAAGGTCGGCCAGAGGGTCGAGCTGTGGAACGCGGACGGGGGCACCTCGTCCGACCAGGCG TACAAGAACGTGGGCTTCTGGATGAGCTCGCGCGGCTACGGTGTCTTCGTCGACACTCCCGG GCGCGTCGAGCTCGAGATCGGGAGCGAGCGGTGCTGCCGGCTCCAGACGAGCGTCGAGGGG CAGCGGCTCCGCTGGTTCATCATCTACGGGCCCTCCCCGCGCGACATCCTGCGCCGGTACTC GGTCCTCACCGGAGCCCCCGGCAGCGTGCCCAGCTGGTCCTTCGGCCTGTGGCTCAGCACGT CCTTCACCACCTCGTACGACGAGGAGACGGTCAACAGCTTCCTGGCCGGCATGAGGGCGCG CGACATACCCGTCGAGGTCTTCCACTTCGACTGCTTCTGGCTCAAGGCGTTCCAGTGGTGCG ACTTCGAGTTCGACCGCGACATGTTCCCGGACCCGAGGGGCCAGATCGGGCGCCTCAAGGC CGGCGGCCTCGTCAAGAAGGTCTGCGTCTGGACGAACCCGTACCTGGGCCAGGCGTCCCCCG TCTTCGCCGAGGCCGCGGCCAGGGGCTACCTGCTCCGGCGCAGGAACGGCGACGTCTTCCAG TGGGACCTGTGGCAGACGGGCATGGGCATCGTCGACTTCACCAACCCGGACGCCCGCGCCT GGTTCGCCGCCTGTCTCGACCGCCTCTTCGACACGGGCGTCGACTGCATCAAGACCGACTTT GGCGAGCGCATCCCCTCCGAGGATGTGCAGTGGTTCGACCCTTCGGTCGACCCGGAGCGGAT GCACAACTACTACGCCTTCATCTACAACAAGCTCGTCTACGAGGCCCTGCAGAGGCGTTACG GCGCCAACGAGGCCGTCCTGTTCGCCCGCGCCGCCACCGCCGGCTGCCAGCGGTTCCCCCTC ACCTGGGGCGGCGACTGCGAGTCGACCCCCGAGGCCATGGCCGAGTCGCTACGCGGTGGTT TGTCCCTCGGCCTGTCCGGGTTCGCCTTCTGGAGCGTCGACATTGGCGGCTTCGAGGGGTCG CCGCCTCCCTGGATCTACAAGCGCTGGGTCGCCTTCGGCCTCCTCTGCTCCCACTCGCGCCTG CACGGCTCCAACTCGTACCGGGTCCCCTGGACGGTCGACGGCGACGACCAGTCCGAGGAGG GATGCTCCGCCACGCTGCGCAAGTGGACCCATCTCAAGGCTCGCCTGATGCCCTACCTCTTC TCCCAGGCGCAGGAGAGCGTCCGGGGCGGGCTCCCGCTCAGCCTGAGGGCCATGTGCATCG AGTTCCCCGACGACCCGACCGCCTGGACCCTCGATCGCCAGTTCATGCTCGGCGACGGCCTC CTCGTCGCCCCCGTCTTCGAGGAGGACGGCACCGTCGAGTTCTACCTGCCCAGGGGCAAGTG GACCAACTTCTTCACCGGCGAGGTCAAGGAGGGCCCCGGCTGGTTCGCCGAGACCCACGGG TTCGGCACCCTGCCGCTCTACGTCCGGCCCAACACGCTCCTGGTTCTGGGCAAGGAAGGAGA GACGAGGACCGTGTACGACTACACGAGCGACGTCGAGGTGAGGGCGTATTTTGCCAGTGAC AGCGCCAGCGCCGTGCTGGTCGACGCCGAGGGCAAGACTGTAGGTACCCTGCGTGTCAAGG ACGGGGAGATTATCGGAAAGGAACTGCTATCTGGCAACTCGGTCATCAATGTCGTGAGCTCC TGA (SEQ ID NO: 59) MEEEATPRPQSSIVQMQRHMLNSRWHARRLANKPHGVFPSLDGHLRTYTKDIRPAPTWRVGQW LVAEGVQVQYAEEVYRITPTASGKGISLLCPTRKILNRGNTLNLATLSIDIEPAFDGVLSVETTHW QGAVRRGPDFDLFPAGRPEVDAKVTKTESGTTLSSGTLSATVSGKPHEFEIAFHPTGGKKPLTTLL NRSVGLAYTPAPSTPMQLADMRNFRHYIFTQTTLAVGESIHGLGERFGPFNKVGQRVELWNADG GTSSDQAYKNVGFWMSSRGYGVFVDTPGRVELEIGSERCCRLQTSVEGQRLRWFIIYGPSPRDIL RRYSVLTGAPGSVPSWSFGLWLSTSFTTSYDEETVNSFLAGMRARDIPVEVFHFDCFWLKAFQW CDFEFDRDMFPDPRGQIGRLKAGGLVKKVCVWTNPYLGQASPVFAEAAARGYLLRRRNGDVFQ WDLWQTGMGIVDFTNPDARAWFAACLDRLFDTGVDCIKTDFGERIPSEDVQWFDPSVDPERMH NYYAFIYNKLVYEALQRRYGANEAVLFARAATAGCQRFPLTWGGDCESTPEAMAESLRGGLSL GLSGFAFWSVDIGGFEGSPPPWIYKRWVAFGLLCSHSRLHGSNSYRVPWTVDGDDQSEEGCSAT LRKWTHLKARLMPYLFSQAQESVRGGLPLSLRAMCIEFPDDPTAWTLDRQFMLGDGLLVAPVF EEDGTVEFYLPRGKWTNFFTGEVKEGPGWFAETHGFGTLPLYVRPNTLLVLGKEGETRTVYDYT SDVEVRAYFASDSASAVLVDAEGKTVGTLRVKDGEIIGKELLSGNSVINVVSS AXyl6158: (SEQ ID NO: 60) ATGGCCAGCAGCCGGTACCGGTACACGTTCCCGAGGAATCCGAAGGCCAATCCGAAGGCCG TCGTGACAGGCGGCAAGGGATCCTCTTACTATCGCTTCACCCTCCTCACCGAACGGTTGATC CGTTACGAGTGGTCCGAGGACGGAGGCTTCGAGGATCGCGCGTCCACGTTCGCGGTATTCAG ATACTTTGATGCCCCGCAGTACCGCGTTGTCGAGACAAACGACAGTCTCGAGATCATCACGG ACTACTTTCACCTCACCTATGACAAGAAGAAGTTCTCATCGGAAGGACTTTCCGTCAGAGTC GGCTCCGACCTCTGGAATTACGACGGCAAGAGTTATGGAGACCTGGGCGGCACCGCCCGGA CCCTAGACGGCGCCTATGGCCGCGTGGACCTGGAACCGGGTGTGCTCTCGCGCAAAGCTTAT GCGGTTCTCGACGACAGCAAGTCTATGCTCTTTGACGACGACGGGTGGATTGCCATTCGCGA GCCGGGCCGCATTGACGGTTACGTGTTTGCCTACAGCGGCGAGCACAAGGCCGCCATCAGG GACTTCTACCGCCTCTCCGGGCGTCAGCCGGTGCTCCCCCGCTGGGTGCTGGGGAACTGGTG GTCCAGGTACCACGCATACTCGGCCGACGAATACATCGAGCTTATGGACCACTTCAAACGCG AAGGAATCCCGCTCACGACGAGCATCGTGGATATGGACTGGCACCGGGTTGACGACGTCCC GCCCAAGTACGGCTCAGGATGGACGGGCTACAGCTGGAACCGCAAGCTGTTCCCGGACCCC GAGGGGTTCCTGCAGGAGCTGCGTAATCGGAACCTGAAAGTGGCCCTCAACGACCACCCGG CGGACGGCATCCGGGCGTATGAGGATCTGTACCCGGCGGTGGCCAAGGCCCTGAATCACGA CACGTCGCGAGAGGAACCGATCAAGTTTGACTGCACCGATCGCAAGTTCATGGACGCCTACT TCGACGTTCTGAAGCTCAGCCTTGAGAAGCAGGGCGTCATGTTCTGGTGGATCGACTGGCAG CAAGGCACCGGCAGCAAGCTCCCCAGCGTAGACCCGCTGTGGGTGCTCAATCACTACCACTA CCTCACCAGTAAGCGCAACGCGAAAGACATCCAACGTCCCATCACATTCTCCCGCTACGCCG GCGCCGGTGCCCATCGGTACCCGATCGGCTTCTCGGGCGACACGCAGACGACTTGGGAAGG TCTCGAGTTCCAGCCCGAGTTTACCGCAACGGCATCCAACATCGGCTATGGCTGGTGGAGCC ACGACATCGGCGGGCATTGGGGCGGCGTCCGCTCCAACCAGCTGACGGTCCGCTGGGTCCA GCTGGGCTGCTTCTCCCCGATCCTGCGGCTGCACTCGAACAAGAGCCCGTGGAACTCGAGAG AGCCGTGGAACTACGAGGACGAGGCGCACAGGATCATGAAGGACTTCCTCATCCTGCGCCA CCGCCTCATCCCCTTCCTCTACACCATGAACATCCGGGCCAGCTACGAGAGCGAGCCGCTCA TCCAGCCCATGTACTGGAATCACCCGAAGGACGAAGAGGCCTACACGGTGCCGACGCAGTA CTACTTCGGGCCGGACCTCCTCGTGGCCCCCATCACGTCTCCCAACAGCACCGTCACCCTGA TGGGCCGCGTGCGCGCCTGGCTGCCGCCGGGCCGGTACGTCGACCTGTTCTACCCGCACCTG GTCTACGACGGCGGCCGGTACATGCACCTGCACCGCGACCTGTCGCAGATCCCCGTGCTCGC GCGGGAGGGCACCATCGTGCCGCTGGACACGACGCCCAGGACGGGCCACGGCGCCGCGCGG CCGACCGAGATCACCCTCCTCCTCGTCGTCGGCCGGGACGCGCACTTTGAGCTGGTCGAGGA GCCGGAGCAGCAGGACCACCATCGCCACGGCGGCGGCGACGACGGCGATGACCAACCCCCG CTCAGCGCGTTCGCCCGGACCCCCATCTCGTGGTCGCAGGCGGACGGCGTGCTCACCATCGG GCCGGAGTGGAACGGCGCCGGGGCCCGCCGCTGGCGGCAGTGGAACGTCAAGCTGGTCGGG CACACCAACACGGACGTGCAGGCGCAGGTGCCCGGGTTCCGGGTCACGCGCGACGTCGAGG GCGGGTGCACGACGGTGGCGCTCGGCAACGTGCACCGGTGGCAGCAGCCGCACCAGCGGGA CGGCGGCGGGTTCGAGATCTCGCTGGGGCGCGACCTGCAGCTGGACGTGGTGGACGTGCGC GCGCGCGCCTTCGAGGTCCTGCACCGGGCCGAGATGGGGTACGAGGCCAAGGACCCCGTCT GGGACGTCTTCACGTCCGGCGACGCGGTGCAGACGCGGGTGCAGCGGCTGGCGGCGCTCGA CGTCGACGCCGCGCTCAAGAACGCCCTCATGGAGGTCTGGGCGGCCGACGGGCGGGCCGAG GGCAGCGCGGCGGGCTACGAGACCTGGGTGGACGTGAAGGCGTGCGCGGGAGACGCGGTC GAGGAGGCGCTCAAGGAGTACGTTATCGTGTGA (SEQ ID NO: 61) MASSRYRYTFPRNPKANPKAVVTGGKGSSYYRFTLLTERLIRYEWSEDGGFEDRASTFAVFRYF DAPQYRVVETNDSLEIITDYFHLTYDKKKFSSEGLSVRVGSDLWNYDGKSYGDLGGTARTLDGA YGRVDLEPGVLSRKAYAVLDDSKSMLFDDDGWIAIREPGRIDGYVFAYSGEHKAAIRDFYRLSG RQPVLPRWVLGNWWSRYHAYSADEYIELMDHFKREGIPLTTSIVDMDWHRVDDVPPKYGSGW TGYSWNRKLFPDPEGFLQELRNRNLKVALNDHPADGIRAYEDLYPAVAKALNHDTSREEPIKFD CTDRKFMDAYFDVLKLSLEKQGVMFWWIDWQQGTGSKLPSVDPLWVLNHYHYLTSKRNAKDI QRPITFSRYAGAGAHRYPIGFSGDTQTTWEGLEFQPEFTATASNIGYGWWSHDIGGHWGGVRSN QLTVRWVQLGCFSPILRLHSNKSPWNSREPWNYEDEAHRIMKDFLILRHRLIPFLYTMNIRASYE SEPLIQPMYWNHPKDEEAYTVPTQYYFGPDLLVAPITSPNSTVTLMGRVRAWLPPGRYVDLFYP HLVYDGGRYMHLHRDLSQIPVLAREGTIVPLDTTPRTGHGAARPTEITLLLVVGRDAHFELVEEP EQQDHHRHGGGDDGDDQPPLSAFARTPISWSQADGVLTIGPEWNGAGARRWRQWNVKLVGHT NTDVQAQVPGFRVTRDVEGGCTTVALGNVHRWQQPHQRDGGGFEISLGRDLQLDVVDVRARA FEVLHRAEMGYEAKDPVWDVFTSGDAVQTRVQRLAALDVDAALKNALMEVWAADGRAEGSA AGYETWVDVKACAGDAVEEALKEYVIV BXyl323: (SEQ ID NO: 62) ATGCCGCAGGTTCGAAACCCCATCCTCCCCGGCTTCAACCCCGACCCTTCCATCCTCCGGGTT GGGGATGACTACTACATCGCCACTTCAACCTTTGAGTGGTACCCGGGTGTTCAGATCCACCA CTCCATGGACCTCGCAAACTGGGAACTTGTCACCCGTCCCCTAAACCGCAAGAGCCAACTGG ATATGCGAGGAGATCCGGACAGCTGCGGCATCTGGGCTCCCTGCCTGACGCATGACGGCGA CAGGTTCTGGCTGGTATACACGGACGTCAAACGCAAGGACGGCTCGTTCAAGGACGCACAC AACTACATCGTCAGTGCGCCCGCCATCGAGGGTCCCTGGTCGGACCCCTTCTATGTCAACTC GTCCGGGTTCGACCCCTCGCTCTTCCATGACGACGACGGCCGGAAGTGGTTCGTCAACATGA TGTGGGACCACCGCAGCCGCCCGCGAACCTTTGCCGGCATCGCGCTGCAAGAGTTCGACCCC AAGGCCGGGAAGCTGGTTGGGCCGCGCAAGAACATTTACCAAGGCACCGACCTGGGCCTCG TCGAGGGCCCGCACTTGTACAAGCGCAACGGGTGGTACTATCTCCTGACAGCAGAGGGCGG GACTGGCTATGAGCATGCCTGCACCCTCGCCCGGTCTCGGAACATCTGGGGCCCGTACGAAG ATCACCCGCAGAAGTACATCTTGACGTCTAAGGACCACCCGCACGCAGCCCTGCAGCGAGC CGGCCACGGCGACATCGTCGACACCCCCGACGGGCGTACCTACGTCGTTCACCTGACCGGCC GGCCCATCACGCAGTTCCGCCGCTGTGTCTTGGGGCGCGAGACGGCCATCCAGGAGGCCTAC TGGGGCGACGACGACTGGCTCTACGTCAAGAACGGCCCTGTGCCCAGCCTGTTCGTGGACCT CCCGGCCGCCCGCAACGACGACGACTACTGGGCCGAGAAGAGGTACACGTTCGAGGCGGGC CTGCACAAGGACTTCCAGTGGCTGCGCACGCCCGAGACGGACCGCATCTTCAGGACGGACA ACGGGAAGTTGACGCTCATCGGCCGCGAGTCCATCGGCTCCTGGTTCGAGCAGGCCCTGGTC GCCCGGCGCCAGACGCACTTCTCGTACGACGCCGAGACCGTCATCGACTTCAAGCCTGCCGA CGAGCGCCAGTTCGCCGGCCTGACGGCCTATTACTGCCGCTACAACTTCTTCTACCTGACCGT CACGGCCCACTCGGACGGCCGGCGGGAGCTGCTCATCATGGCCTCCGAGGCCTCCTGGCCCC TCGGCGCCCTCCGGTCCCCTTATCCGGGACCCGTCCAGATCCCCAACGAGGGCAAGGTCCGG CTCGCGCTCAAGATCAGGGGCAAGGAGCTGCAGTTCTACTACGCTCTCGAGGGCGAAGAGC TAAAACAGATTGGGCCCGTATTCGACGCTAGCATCGTTTCTGACGAGTGCGGCGGCCACCAG AAGCACGGCAGCTTCACGGGCGCCTTCGTCGGCGTGGCTGCTTCCGACATCAACGGTACTGC TGCCGAGGCGACCTTTGACTACTTTGTGTACAAGCCCGTGCACCATGAGAGTGACCGGTACG AGATTTAA (SEQ ID NO: 63) MPQVRNPILPGFNPDPSILRVGDDYYIATSTFEWYPGVQIHHSMDLANWELVTRPLNRKSQLDM RGDPDSCGIWAPCLTHDGDRFWLVYTDVKRKDGSFKDAHNYIVSAPAIEGPWSDPFYVNSSGFD PSLFHDDDGRKWFVNMMWDHRSRPRTFAGIALQEFDPKAGKLVGPRKNIYQGTDLGLVEGPHL YKRNGWYYLLTAEGGTGYEHACTLARSRNIWGPYEDHPQKYILTSKDHPHAALQRAGHGDIVD TPDGRTYVVHLTGRPITQFRRCVLGRETAIQEAYWGDDDWLYVKNGPVPSLFVDLPAARNDDD YWAEKRYTFEAGLHKDFQWLRTPETDRIFRTDNGKLTLIGRESIGSWFEQALVARRQTHFSYDA ETVIDFKPADERQFAGLTAYYCRYNFFYLTVTAHSDGRRELLIMASEASWPLGALRSPYPGPVQI PNEGKVRLALKIRGKELQFYYALEGEELKQIGPVFDASIVSDECGGHQKHGSFTGAFVGVAASDI NGTAAEATFDYFVYKPVHHESDRYEI BXyl6880: (SEQ ID NO: 64) ATGGCGCCCCTCATCACCAACATCTTCACGGCCGACCCGTCGGCCCACGTCTTCGAGGGCAA GCTCTTCATATACCCGTCGCACGATCGCGAGACGGACATCAAGTTCAACGACGACGGCGACC AGTACGACATGGTCGACTACCACGTATTCAGCACCGAGTCGCTGGACCCGGCCGCCCCCGTG ACCGACCACGGCGTCGTGCTCCGGGCCGAAGACGTCCCCTGGGTGTCCAAGCAGCTCTGGGC CCCCGACGCCGCCTACAAGGACGGCAGGTACTACCTCTACTTCCCCGCCCGCGACAAGCAGG GCGTCTTCCGCATCGGCGTCGCCGTCGGCGACCGCCCCGAGGGCCCCTTCACCCCCGACCCG GAGCCCATCCGGGACAGCTACAGCATCGACCCGGCCGTCTTCGTCGACGACGACGGCCGGG CCTACATGTACTTTGGCGGGCTCTGGGGCGGCCAGCTGCAGTGCTACCAGAAGGGCAACGG CATCTTCGACCCCGAGTGGCTGGGGCCCAGGGAGCCCTCGGGCGAGGGCGTCCGGGCGCTG GGGCCGCGCGTCGCCCGGCTGGCGGACGACATGCGCCAGTTCGCCAGCGAGGTGAAGGAGA TTTCGATCCTGGCGCCCGAGACGGGCGAGCCGATCGCGGCCGACGACCACGACCGCCGCTTC TTCGAGGCCGCCTGGATGCACAAGTACGACGGCAAGTACTACTTCAGCTACTCCACCGGCGA CACCCACTACCTCGTCTACGCCGTCGGCGACAGCCCCTACGGGCCCTTCACCTACGCCGGCC GCATCCTCGAGCCCGTCCTCGGCTGGACCACGCACCACTCCATCGTCGAGTTCCACGGCCGC TGGTGGCTCTTCCACCACGACTGCGAGCTCAGCGGCGGAGTCGACCACCTGCGCTCCGTCAA GGTCAAGGAGATCTTCTACGACAAGGACGGCAAGATTGTCACTGAAAAGCCCGAATAG (SEQ ID NO: 65) MAPLITNIFTADPSAHVFEGKLFIYPSHDRETDIKFNDDGDQYDMVDYHVFSTESLDPAAPVTDH GVVLRAEDVPWVSKQLWAPDAAYKDGRYYLYFPARDKQGVFRIGVAVGDRPEGPFTPDPEPIR DSYSIDPAVFVDDDGRAYMYFGGLWGGQLQCYQKGNGIFDPEWLGPREPSGEGVRALGPRVAR LADDMRQFASEVKEISILAPETGEPIAADDHDRRFFEAAWMHKYDGKYYFSYSTGDTHYLVYA VGDSPYGPFTYAGRILEPVLGWTTHHSIVEFHGRWWLFHHDCELSGGVDHLRSVKVKEIFYDKD GKIVTEKPE

Example 1

Cloning Xyl5, BXyl7, and BXyl8 into Transformation Vectors

[0325] In this Example, cloning Xyl5, BXyl7 and BXyl8 into a pC1DX10PrR vector, are described. Genomic DNA was isolated from the M. thermophila C1 strain using standard procedures. Briefly, hyphal inoculum was seeded into a growth medium and allowed to grow for 72 hours at 35° C. The mycelial mat was collected by centrifugation, washed, and 50 uL DNA extraction buffer (200 mM Tris, pH 8.0; 250 mM NaCl; 125 mM EDTA; 0.5% SDS) was added. The mycelia were ground with a conical grinder, re-extracted with 250 uL extraction buffer, and the suspension was centrifuged. The supernatant was transferred to a new tube containing 300 μL isopropanol. DNA was collected by centrifugation, washed twice with 70% ethanol, dried, and resuspended in 100 μL of water.

[0326] The indicated genes were amplified using primers indicated below from isolated M. thermophila genomic DNA, based on SEQ ID NOS:1, 4 and 7. PCR reactions were performed by using Phusion Hot Start II High Fidelity DNA Polymerase (Finnzymes F-540L). PCR conditions were used following manufacturer's instructions with GC buffer, plus 2% DMSO final concentration. For Xyl5 and BXyl7, PCR cycles were: 98° C. 30'', 35 cycles of 98° C. 10'', 69° C. 20'', 72° C. 30'' and final extension at 72° C. 5'. The primers used are provided below.

TABLE-US-00004 TABLE 1.1 Primers Used for Xyl5 and BXyl7 Pcbhxyl5_F 5'-TGATCCTCTTCCGTCATGGTTACCCTCACTCG CCTGGCG-3' (SEQ ID NO: 66) Tcbhxyl5_R 5'-TCGTTTACTTACTTATCAGCCGCTGACGGTGT ACTGGGA-3' (SEQ ID NO: 67) Pcbhb-xyl7_F 5'-TGATCCTCTTCCGTCATGTTCTTCGCTTCTCT GCTGC-3' (SEQ ID NO: 68) Tcbhb-xyl7_R 5'-TCGTTTACTTACTTATCAATCCCTAAACTGCT CCAATGG-3' (SEQ ID NO: 69)

[0327] For BXyl8, PCR cycling conditions were: 98° C. 30'', 35 cycles of 98° C. 10'', 61° C. 30'', 72° C. 1'15'' and final extension at 72° C. 5'.

TABLE-US-00005 TABLE 1.2 Primers Used for BXyl8 IF10-b-xyl8- 5'-TGTGCTGATCCTCTTCCGTCATGAAGGCCTCTG Forward TATCATGCCT-3' (SEQ ID NO: 70) IF10-b-xyl8- 5'-GAGGTTCGTTTACTTACTTATTACCTGTGCCTC Reverse CCCCTGGC-3' (SEQ ID NO: 71)

[0328] PCR fragments were spin column purified (QIAquick PCR Purification Kit), and eluted in 50 μl elution buffer. The purified PCR products were cloned into pC1DX10PhR vector (previously digested with PacI/Pm1I and gel purified), 3' to the Pcbh promoter to create expression vectors that expressed the desired protein transcripts under the control of the Pcbh promoter. The In-Fusion HD Cloning Kit (Clontech cat. no. 639645) was used for cloning according to the manufacturer instructions. In this process, 100 ng of PCR product and 50 ng of PmlI-PacI restriction enzyme digested vector were used in the cloning reaction. FIG. 1 provides the maps of the vectors used for the xylanase and each xylosidase. Two microliters of the In-Fusion cloning reaction were used to transform 50 microliters of E. coli DH10B-T1 phage resistant electrocompetent cells (Invitrogen, cat. no. 12033-015) following the manufacturer's instructions. Cells were plated onto LB medium containing 100 mg/L of carbenicillin for positive selection of clones. Colonies were picked and screened for clones containing correct DNA sequences by sequencing of whole-cell colony PCR products. Colony PCR reactions were performed using Kapa2G Robust Hot Start DNA Polymerase (KapaBiosystems, cat. no. KK5515) with the indicated primers. PCR conditions were used following manufacturer's instructions with Buffer GC and 2% DMSO final concentration. PCR cycling conditions were: 95° C. 3:30'', 35 cycles of 95° C. 20'', 60° C. 15'', 72° C. 1'15''. PCR products were treated with EXOSAP-IT (Affymetrix, cat. no. 78250) following the manufacturer's instructions, and then submitted for DNA sequencing. Plasmid was prepared from E. coli clones with correct DNA sequence (QIAprep spin Miniprep kit) for transformation into a M. thermophila strain.

Example 2

Transformation and Expression of M. thermophila Genes

[0329] In this Example, experiments to transform xylanase and beta-xylosidase genes into M. thermophila CF-417 cells are described. CF-417 cells were inoculated in 100 ml minimal medium containing 2% glucose in a 500 ml Erlenmeyer flat bottom flask using 10⁸ spores/ml. The culture was incubated for 24 hours at 35° C., at 250 rpm. To harvest the mycelia, the culture was filtered over a sterile Miracloth filter (Calbiochem) and washed with 100 mL 1700 mM NaCl/CaCl₂ solution (0.6 M NaCl, 0.27 M CaCl₂*H₂O). The washed mycelia were transferred into a 50 mL tube and weighed. Caylase (20 mg/gram mycelia) was dissolved in 1700 mM NaCl/CaCl₂ and UV-sterilized for 90 sec. Then, 3 mL of sterile Caylase solution was added into the tube containing washed mycelia and mixed. Then, 15 mL of 1700 mM NaCl/CaCl₂ solution was added into the tube and mixed. The mycelium/Caylase suspension was incubated at 30° C., 70 rpm for 3 hours. Protoplasts were harvested by filtering through a sterile Miracloth filter into a sterile 50 mL tube. Then, 25 mL cold STC (1.2 M sorbitol, 50 mM CaCl₂*H₂O, 35 mM NaCl, 10 mM Tris-HCl) were added to the flow through and spun down at 2720 rpm (1500×g) for 10 min at 4° C. The pellet was resuspended in 50 mL STC and centrifuged again. After the washing steps, the pellet was resuspended in 1 mL STC.

Transformation

[0330] Into the bottom of a 15 mL sterile tube, 2 μg DNA plasmid containing the desired transformants, and 1 ug DNA of plasmid containing KU70 ligase for increased transformation efficiency were pipetted, and 1 μL aurintricarboxylic acid and 100 μL protoplasts were added. The content was mixed and the protoplasts with the DNA were incubated at room temperature for 25 min. Then, 1.7 mL PEG4000 solution (60% PEG4000 (polyethylene glycol, average molecular weight 4000 daltons), 50 mM CaCl₂.H₂O, 35 mM NaCl, 10 mM Tris-HCl) were added and mixed thoroughly. The solution was kept at room temperature for 20 min. The tube was filled with STC, mixed and centrifuged at 2500 rpm (1250 xg) for 10 min at 4° C. The STC was poured off and the pellet was resuspended in the remaining STC and plated on minimal media agar plates containing sucrose, as well as 20 mg/L phleomycin for selection. The plates were incubated for 7 days at 35° C. to allow for growth and sporulation of colonies.

Colony Picking and Fermentation

[0331] Colonies of transformants were picked using sterile toothpicks into 400 uL minimal media in a 96-well CORNING® COSTAR® deep well culture plate. The plates were incubated for 96 hours at 35° C., at 250 rpm. Then, 40 uL of culture was transferred into CORNING® COSTAR® deep well culture plates containing 360 uL of minimal media supplemented with biotin. Plates were incubated for 96 hours at 35° C., at 250 rpm. Supernatants were harvested for assay by centrifugation of the plates at 1500×g for 10 min. To confirm protein expression, supernatants of the transformants were analyzed by SDS-PAGE analysis. The SDS-PAGE results showed a 24 kDa protein for Xyl5; a 67 kDa protein for BXyl7; and three proteins of 24, 34 and 49 kDa for BXyl8). It is noted that BXyl8 is proteolyzed during production in M. thermophila. These fragments are active and appear as three bands on SDS-PAGE with these molecular weights. On gel-filtration columns and native gels, there is one peak/band for BXyl8.

Example 3

BXyl8 Cloning and Expression in S. cerevisiae

[0332] In this Example, cloning of BXyl8 into pYTsec72tc vector is described. Cloning of BXyl8 for expression in yeast required the removal of a 130 bp intron. PCR primers were designed such that each exon PCR product contained a 20 bp overlap with the adjacent exon and 40 bp overlaps with corresponding vector sequences for recombination cloning in yeast. PCR products were amplified using pC1DX10PhR-v4chrl-b-xyl8 m26 plasmid as template and primers b-xyl8-ADHtc_Fwd and b-xyl8-exon1_Rev for a 260 bp product and b-xyl8_exon2_Fwd and b-xyl8_ter_Rev for a 2395 bp product. PCR reactions were performed by using Phusion Hot Start II High Fidelity DNA Polymerase (Finnzymes F-540L). PCR conditions were used following the manufacturer's instructions with 5% DMSO final concentration. PCR cycling conditions were: 98° C. 30'', 30 cycles of 98° C. 10'', 60° C. 20'', 72° C. 2' and final extension at 72° C. for 5'.

TABLE-US-00006 TABLE 3.1 Primers Used b-xyl8- TACAATCAACTATCAACTATTAACTATATCGTAATACACA ADHtc_Fwd ATGAAGGCCTCTGTATCATG (SEQ ID NO: 72) b-xyl8- GCGGCGCCCCCGGCGCCTTGCTGACCAGGTTTTGCAGCTT exon1_Rev (SEQ ID NO: 73) b-xyl8_ AAGCTGCAAAACCTGGTCAGCAAGGCGCCGGGGGCGCCGC exon2_Fwd (SEQ ID NO: 74) b-xyl8_ TCAGAACCTCCTTCAGAGAGGTTCGTTTACTTACTTATTA ter_Rev CCTGTGCCTCCCCCTGGCGG (SEQ ID NO: 75)

[0333] PCR fragments were spin column purified (QIAquick PCR Purification Kit), and eluted in 50 μl elution buffer. The purified PCR products were cloned into pYTsec72tc vector (See, FIG. 2) by co-transformation of the two PCR products and vector DNA that was previously linearized with Pm11 restriction endonuclease downstream from the ADH2 promoter to allow for expression of the BXyl8 gene under this promoter.

[0334] Yeast transformation was done using standard methods. The transformation was plated on minimal media lacking uracil for positive selection of clones. Colonies were picked and screened for the correct BXyl8 DNA sequence by sequencing of plasmid DNA extracted from these colonies.

Protein Expression

[0335] Colonies of transformants were picked using sterile inoculating loops into 5 mL of minimal medium lacking uracil for selection and supplemented with 6% glucose. Cultures were incubated at 30° C., 250 RPM for 24 hours. Cultures were then used to inoculate 250 mL of minimal medium lacking uracil and supplemented with 2% glucose. Cultures were incubated at 30° C., 250 RPM for 48 hours. Cells and supernatant were harvested by centrifugation at 3000 RPM for 5 minutes and assayed for activity using the PNP--X assay described in Example 4.

Example 4

Xylanase and Xylosidase Activity

[0336] In order to demonstrate activity for the xylanase and xylosidases they were tested against birchwood xylan (Sigma Aldrich) and p-nitrophenyl-beta-xylanopyranoside (PNP-X) (Sigma Aldrich) respectively. Broths from cultures overexpressing the beta-xylosidases (BXyl7 and BXyl8) were diluted to 0.1025 or 0.065 g/L total protein in 150 mM sodium acetate pH 6.0. These solutions were further serially diluted in 150 mM sodium acetate pH 6.0 four times, two-fold each dilution. Then, 20 uL of the diluted supernatants were added to 80 uL of 6.25 mM PNP--X in 150 mM sodium acetate pH 6.0 in a Nunc 96-well flat bottom plate. The samples were incubated at 37° C. for 30 minutes, quenched with 150 uL of 1 M sodium carbonate and absorbance was measured at 400 nm on a SpectraMax M2 spectrophotometer. The results are shown in FIG. 3. In this Figure, the values are reported as the average and standard deviation of three replicate experiments.

[0337] Activity of xylanase Xyl5 was measured versus birchwood xylan. In this assay, 35 mg of birchwood xylan was placed into a CORNING® COSTAR® deep well culture plate. Broth from a culture overexpressing Xyl5 was serially diluted in 75 mM sodium acetate pH 6.0 from 79 g/L to 3E-06 g/L. Then, 480 uL of 75 mM sodium acetate pH 6.0, and 20 uL of enzyme dilutions were added to the 96-well plate, and it was incubated at 45° C., 950 rpm for 2.5 h in a Multitron II incubator shaker (Infors HT [Infors]). The reactions were centrifuged (2800×g, 6 min), and 20 uL of the reaction supernatant were added to 80 uL of active PAHBAH reagent in a hard-shell 96-well skirted PCR plate (Biorad). (PAHBAH reagent A: 10 gp-hydroxy benzoic acid hydrazide, 10 ml of 12 N HCl, in 200 ml water. PAHBAH reagent B: 24.9 g sodium citrate, 2.2 g calcium chloride, 40.0 g sodium hydroxide in 2 L water. Active PAHBAH reagent: 10 ml reagent B+1 ml reagent A). The PAHBAH reaction was heated to 60° C. for 10 minutes in a DNA engine Tetrad 2 Thermal Cycler (Biorad). Then, 80 uL of the reaction was transferred to a Nunc 96 well-flat bottom plate and the absorbance was measured at 412 nm on a SpectraMax M2 spectrophotometer. The results are shown in FIG. 4. In this Figure, the values are reported as the average and standard deviation of three replicate experiments.

Example 5

Improved Wheat Straw Saccharification

[0338] To assess the roles of the xylosidases in saccharification reactions, broths containing the overproduced enzymes were added to pre-treated wheat straw. First, 20 uL of diluted enzyme broths containing the xylosidases (corresponding to 0.25, 0.5, 1 or 2% enzyme with regard to glucan) were added to a mixture of 26 mg pressed and sieved pre-treated wheat straw, 21 uL of pre-treated wheat straw filtrate, 8 uL of 1 mM copper sulfate, 24 ul of 1 M sodium acetate pH 6.0, and 65 uL of water. Reactions were centrifuged 3200×g for 4 min, and agitated at 950 rpm, 45° C. for 48 h. The reactions were diluted with 300 uL of water, shaken for 30 min at rt, and centrifuged 2800×g for 10 min. The supernatant was transferred to a Multiscreen Solivinert filter plate (Millipore) and centrifuged at 1250×g for 5 min into a CORNING® COSTAR® round bottom 96-well culture plate. Filtrates were heated to 95° C. for 10 min, cooled to rt and analyzed on an Agilent HPLC 1200.Numerous strains with improved levels of glucose, xylose and xylobiose utilization were identified, as shown in FIG. 5. Both enzymes increased the proportion of xylose to xylobiose compared to the results provided by a strain containing an empty vector control.

[0339] To assess the role of Xyl5 in a saccharification reaction, broth containing the overproduced enzyme was cross titrated with CF-418 broth and added to pre-treated wheat straw. CF-418 and Xyl5-containing broths were mixed at various ratios, and 20 uL of diluted enzymes (0.25% enzyme with regard to glucan) were added to a mixture of 28 mg pressed and sieved pre-treated wheat straw, 24 uL of pre-treated wheat straw filtrate, 9 uL of 1 mM copper sulfate, 27 ul of 1 M sodium acetate pH 6.0, and 77 uL of water. Reactions were centrifuged 3200×g for 4 min, and agitated at 950 rpm, 45° C. for 48 h. The reactions were diluted with 300 uL of water, shaken for 30 min at rt, and centrifuged 2800×g for 10 min. The supernatant was transferred to a Multiscreen Solivinert filter plate (Millipore) and centrifuged 1250×g for 5 min into a CORNING® COSTAR® round bottom 96-well culture plate. Filtrates were heated to 95° C. for 10 min, cooled to rt and analyzed on an Agilent HPLC 1200. Numerous strains with improved levels of glucose, xylose and xylobiose were identified, as shown in FIG. 6. As indicated in this Figure, increasing proportions of Xyl5 increase the levels of xylose and xylobiose.

Example 6

Temperature and pH Stability

[0340] To assess the stability of xylosidases BXyl8 and BXyl7, broths containing the overproduced enzymes were diluted 1:100 or 1:140 respectively in 100 mM sodium acetate pH 5.0, 5.5, or 6.0. The diluted enzymes were heated across a gradient of temperatures from 40-60° C. for 1 h in a DNA engine Tetrad 2 Thermal Cycler (Biorad). Then, 20 uL of the heated enzymes were added to 80 uL of 6.25 mM PNP--X in 100 mM sodium acetate pH 6.0 (BXyl8) or 100 mM sodium acetate pH 5, 5.5 or 6 (BXyl7). The samples were incubated at 37° C. for 30 minutes, quenched with 150 uL of 1 M sodium carbonate and absorbance was measured at 400 nm. The results are shown in FIGS. 7 and 8. In these Figures, the values are reported as the average and standard deviation of two replicate experiments.

[0341] To test the pH and thermal stability of Xyl5, broth overexpressing the enzyme was diluted to 1.3 mg/ml with water. Then, 25 uL of diluted broth were mixed with 75 uL of 200 mM sodium acetate pH 5, 5.3, 5.5 or 6, and heated to 40-60° C. for 17 h. Residual activity of the enzymes was determined in 100 mM sodium acetate at their respective pHs, via the method described in Example 4. FIG. 9 provides the results.

Example 7

Transformation of CF-419 with Multiple Genes

[0342] CF-419 cells were inoculated into 100 mL growth medium in a 500 mL Erlenmeyer flask using 10⁶ spores/mL. The culture was incubated for 48 hours at 35° C., 250 rpm. To harvest the mycelia, the culture was filtered over a sterile Miracloth filter (Calbiochem) and washed with 100 mL 1700 mM NaCl/CaCl₂ solution (0.6 M NaCl, 0.27 M CaCl₂*H₂O). The washed mycelia were transferred into a 50 mL tube and weighed. Caylase (20 mg/gram mycelia) was dissolved in 1700 mM NaCl/CaCl₂ and UV-sterilized for 90 sec. Then, 3 mL of sterile Caylase solution were added into the tube containing washed mycelia and mixed. Then, 15 mL of 1700 mM NaCl/CaCl₂ solution were added into the tube and mixed. The mycelium/Caylase suspension was incubated at 30° C., 70 rpm for 3 hours. Protoplasts were harvested by filtering through a sterile Miracloth filter into a sterile 50 mL tube. Then, 25 mL cold STC (1.2 M sorbitol, 50 mM CaCl₂*H₂O, 35 mM NaCl, 10 mM Tris-HCl) were added to the flow through and spun down at 2720 rpm (1500×g) for 10 min at 4° C. The pellet was resuspended in 50 mL STC and centrifuged again. After the washing steps the pellet was resuspended in 1 mL STC.

[0343] Transformation was carried out in CF-417, with KU70 cotransformation, in order to increase the number of transformed colonies. Into the bottom of a 15 mL sterile tube, 2 μg DNA of each plasmids containing Xyl5, X18, and GH61a were pipetted and 1 μL aurintricarboxylic acid and 100 μL protoplasts were added. The contents were mixed and the protoplasts with the DNA were incubated at room temperature for 25 min. Then, 1.7 mL PEG4000 solution (60% PEG4000 (polyethylene glycol, average molecular weight 4000 daltons), 50 mM CaCl₂.H₂O, 35 mM NaCl, 10 mM Tris-HCl) were added and mixed thoroughly. The solution was kept at room temperature for 20 min. The tube was filled with STC, mixed and centrifuged at 2500 rpm (1250×g) for 10 min at 4° C. The STC was poured off and the pellet was resuspended in the remaining STC and plated on M4 minimal media petri plates with 20 mg/L phleomycin for selection. The plates were incubated for 7 days at 35° C. to allow for growth and sporulation of colonies.

[0344] Colonies were picked into 96-well CORNING® COSTAR® sterile square deep well culture plates containing 400 uL minimal medium. Plates were incubated for 96 hours at 35° C., 250 rpm, 85% relative humidity. First, 200 uL of seed culture were transferred into 24-well deep well plates containing 1.8 mL rich media. These plates were then incubated for 168 hours at 35° C., 250 rpm, 85% relative humidity.

[0345] To assay activity, cell cultures were spun 3200×g for 10 min. The supernatant was removed from the cell pellet, diluted 2× with water, mixed for 20 minutes, and centrifuged at 3200×g for 10 min. To assess the activity of the enzymes in a saccharification reaction, 10 uL of the diluted enzymes were added to a mixture of 28 mg pressed and sieved pre-treated wheat straw, 23 uL of pre-treated wheat straw filtrate, 9 uL of 1 mM copper sulfate, 54 ul of 1 M MES pH 6.0, and 55 uL of water. Reactions were centrifuged 3200×g for 4 min, and agitated at 950 rpm, 45° C. for 48 h. The reactions were diluted with 300 uL of water, shaken for 30 min at rt, and centrifuged 2800×g for 10 min. The supernatant was transferred to a Multiscreen Solivinert filter plate (Millipore) and centrifuged 1250×g for 5 min into a CORNING® COSTAR® round bottom 96-well culture plate. Filtrates were heated to 95° C. for 10 min, cooled to rt and analyzed on an Agilent HPLC 1200. Numerous strains were identified that exhibited improved levels of glucose (glc), xylose (xyl), and xylobiose (XB), as shown in FIG. 10.

[0346] While particular embodiments of the present invention have been illustrated and described, it will be apparent to those skilled in the art that various other changes and modifications can be made without departing from the spirit and scope of the present invention. Therefore, it is intended that the present invention encompass all such changes and modifications with the scope of the present invention.

[0347] The present invention has been described broadly and generically herein. Each of the narrower species and subgeneric groupings falling within the generic disclosure also form part(s) of the invention. The invention described herein suitably may be practiced in the absence of any element or elements, limitation or limitations which is/are not specifically disclosed herein. The terms and expressions which have been employed are used as terms of description and not of limitation. There is no intention that in the use of such terms and expressions, of excluding any equivalents of the features described and/or shown or portions thereof, but it is recognized that various modifications are possible within the scope of the claimed invention. Thus, it should be understood that although the present invention has been specifically disclosed by some preferred embodiments and optional features, modification and variation of the concepts herein disclosed may be utilized by those skilled in the art, and that such modifications and variations are considered to be within the scope of the present invention.

Sequence CWU 1

1

751678DNAMyceliophthora thermophila 1atggttaccc tcactcgcct ggcggtcgcc gcggcggcca tgatctccag cactggcctg 60gctgccccga cgcccgaagc tggccccgac cttcccgact ttgagctcgg ggtcaacaac 120ctcgcccgcc gcgcgctgga ctacaaccag aactacagga ccagcggcaa cgtcaactac 180tcgcccaccg acaacggcta ctcggtcagc ttctccaacg cgggagattt tgtcgtcggg 240aagggctgga ggacgggagc caccagaaac atcaccttct cgggatcgac acagcatacc 300tcgggcaccg tgctcgtctc cgtctacggc tggacccgga acccgctgat cgagtactac 360gtgcaggagt acacgtccaa cggggccggc tccgctcagg gcgagaagct gggcacggtc 420gagagcgacg ggggcacgta cgagatctgg cggcaccagc aggtcaacca gccgtcgatc 480gagggcacct cgaccttctg gcagtacatc tcgaaccgcg tgtccggcca gcggcccaac 540ggcggcaccg tcaccctcgc caaccacttc gccgcctggc agaagctcgg cctgaacctg 600ggccagcacg actaccaggt cctggccacc gagggctggg gcaacgccgg cggcagctcc 660cagtacaccg tcagcggc 6782226PRTMyceliophthora thermophila 2Met Val Thr Leu Thr Arg Leu Ala Val Ala Ala Ala Ala Met Ile Ser 1 5 10 15 Ser Thr Gly Leu Ala Ala Pro Thr Pro Glu Ala Gly Pro Asp Leu Pro 20 25 30 Asp Phe Glu Leu Gly Val Asn Asn Leu Ala Arg Arg Ala Leu Asp Tyr 35 40 45 Asn Gln Asn Tyr Arg Thr Ser Gly Asn Val Asn Tyr Ser Pro Thr Asp 50 55 60 Asn Gly Tyr Ser Val Ser Phe Ser Asn Ala Gly Asp Phe Val Val Gly 65 70 75 80 Lys Gly Trp Arg Thr Gly Ala Thr Arg Asn Ile Thr Phe Ser Gly Ser 85 90 95 Thr Gln His Thr Ser Gly Thr Val Leu Val Ser Val Tyr Gly Trp Thr 100 105 110 Arg Asn Pro Leu Ile Glu Tyr Tyr Val Gln Glu Tyr Thr Ser Asn Gly 115 120 125 Ala Gly Ser Ala Gln Gly Glu Lys Leu Gly Thr Val Glu Ser Asp Gly 130 135 140 Gly Thr Tyr Glu Ile Trp Arg His Gln Gln Val Asn Gln Pro Ser Ile 145 150 155 160 Glu Gly Thr Ser Thr Phe Trp Gln Tyr Ile Ser Asn Arg Val Ser Gly 165 170 175 Gln Arg Pro Asn Gly Gly Thr Val Thr Leu Ala Asn His Phe Ala Ala 180 185 190 Trp Gln Lys Leu Gly Leu Asn Leu Gly Gln His Asp Tyr Gln Val Leu 195 200 205 Ala Thr Glu Gly Trp Gly Asn Ala Gly Gly Ser Ser Gln Tyr Thr Val 210 215 220 Ser Gly 225 3205PRTMyceliophthora thermophila 3Ala Pro Thr Pro Glu Ala Gly Pro Asp Leu Pro Asp Phe Glu Leu Gly 1 5 10 15 Val Asn Asn Leu Ala Arg Arg Ala Leu Asp Tyr Asn Gln Asn Tyr Arg 20 25 30 Thr Ser Gly Asn Val Asn Tyr Ser Pro Thr Asp Asn Gly Tyr Ser Val 35 40 45 Ser Phe Ser Asn Ala Gly Asp Phe Val Val Gly Lys Gly Trp Arg Thr 50 55 60 Gly Ala Thr Arg Asn Ile Thr Phe Ser Gly Ser Thr Gln His Thr Ser 65 70 75 80 Gly Thr Val Leu Val Ser Val Tyr Gly Trp Thr Arg Asn Pro Leu Ile 85 90 95 Glu Tyr Tyr Val Gln Glu Tyr Thr Ser Asn Gly Ala Gly Ser Ala Gln 100 105 110 Gly Glu Lys Leu Gly Thr Val Glu Ser Asp Gly Gly Thr Tyr Glu Ile 115 120 125 Trp Arg His Gln Gln Val Asn Gln Pro Ser Ile Glu Gly Thr Ser Thr 130 135 140 Phe Trp Gln Tyr Ile Ser Asn Arg Val Ser Gly Gln Arg Pro Asn Gly 145 150 155 160 Gly Thr Val Thr Leu Ala Asn His Phe Ala Ala Trp Gln Lys Leu Gly 165 170 175 Leu Asn Leu Gly Gln His Asp Tyr Gln Val Leu Ala Thr Glu Gly Trp 180 185 190 Gly Asn Ala Gly Gly Ser Ser Gln Tyr Thr Val Ser Gly 195 200 205 41833DNAMyceliophthora thermophila 4atgttcttcg cttctctgct gctcggtctc ctggcgggcg tgtccgcttc accgggacac 60gggcggaatt ccaccttcta caaccccatc ttccccggct tctaccccga tccgagctgc 120atctacgtgc ccgagcgtga ccacaccttc ttctgtgcct cgtcgagctt caacgccttc 180ccgggcatcc cgattcatgc cagcaaggac ctgcagaact ggaagttgat cggccatgtg 240ctgaatcgca aggaacagct tccccggctc gctgagacca accggtcgac cagcggcatc 300tgggcaccca ccctccggtt ccatgacgac accttctggt tggtcaccac actagtggac 360gacgaccggc cgcaggagga cgcttccaga tgggacaata ttatcttcaa ggcaaagaat 420ccgtatgatc cgaggtcctg gtccaaggcc gtccacttca acttcactgg ctacgacacg 480gagcctttct gggacgaaga tggaaaggtg tacatcaccg gcgcccatgc ttggcatgtt 540ggcccataca tccagcaggc cgaagtcgat ctcgacacgg gggccgtcgg cgagtggcgc 600atcatctgga acggaacggg cggcatggct cctgaagggc cgcacatcta ccgcaaagat 660gggtggtact acttgctggc tgctgaaggg gggaccggca tcgaccatat ggtgaccatg 720gcccggtcga gaaaaatctc cagtccttac gagtccaacc caaacaaccc cgtgttgacc 780aacgccaaca cgaccagtta ctttcaaacc gtcgggcatt cagacctgtt ccatgacaga 840catgggaact ggtgggcagt cgccctctcc acccgctccg gtccagaata tcttcactac 900cccatgggcc gcgagaccgt catgacagcc gtgagctggc cgaaggacga gtggccaacc 960ttcaccccca tatctggcaa gatgagcggc tggccgatgc ctccttcgca gaaggacatt 1020cgcggagtcg gcccctacgt caactccccc gacccggaac acctgacctt cccccgctcg 1080gcgcccctgc cggcccacct cacctactgg cgatacccga acccgtcctc ctacacgccg 1140tccccgcccg ggcaccccaa caccctccgc ctgaccccgt cccgcctgaa cctgaccgcc 1200ctcaacggca actacgcggg ggccgaccag accttcgtct cgcgccggca gcagcacacc 1260ctcttcacct acagcgtcac gctcgactac gcgccgcgga ccgccgggga ggaggccggc 1320gtgaccgcct tcctgacgca gaaccaccac ctcgacctgg gcgtcgtcct gctccctcgc 1380ggctccgcca ccgcgccctc gctgccgggc ctgagtagta gtacaactac tactagtagt 1440agtagtagtc gtccggacga ggaggaggag cgcgaggcgg gcgaagagga agaagagggc 1500ggacaagact tgatgatccc gcatgtgcgg ttcaggggcg agtcgtacgt gcccgtcccg 1560gcgcccgtcg tgtacccgat accccgggcc tggagaggcg ggaagcttgt gttagagatc 1620cgggcttgta attcgactca cttctcgttc cgtgtcgggc cggacgggag acggtctgag 1680cggacggtgg tcatggaggc ttcgaacgag gccgttagct ggggctttac tggaacgctg 1740ctgggcatct atgcgaccag taatggtggc aacggaacca cgccggcgta tttttcggat 1800tggaggtaca caccattgga gcagtttagg gat 18335611PRTMyceliophthora thermophila 5Met Phe Phe Ala Ser Leu Leu Leu Gly Leu Leu Ala Gly Val Ser Ala 1 5 10 15 Ser Pro Gly His Gly Arg Asn Ser Thr Phe Tyr Asn Pro Ile Phe Pro 20 25 30 Gly Phe Tyr Pro Asp Pro Ser Cys Ile Tyr Val Pro Glu Arg Asp His 35 40 45 Thr Phe Phe Cys Ala Ser Ser Ser Phe Asn Ala Phe Pro Gly Ile Pro 50 55 60 Ile His Ala Ser Lys Asp Leu Gln Asn Trp Lys Leu Ile Gly His Val 65 70 75 80 Leu Asn Arg Lys Glu Gln Leu Pro Arg Leu Ala Glu Thr Asn Arg Ser 85 90 95 Thr Ser Gly Ile Trp Ala Pro Thr Leu Arg Phe His Asp Asp Thr Phe 100 105 110 Trp Leu Val Thr Thr Leu Val Asp Asp Asp Arg Pro Gln Glu Asp Ala 115 120 125 Ser Arg Trp Asp Asn Ile Ile Phe Lys Ala Lys Asn Pro Tyr Asp Pro 130 135 140 Arg Ser Trp Ser Lys Ala Val His Phe Asn Phe Thr Gly Tyr Asp Thr 145 150 155 160 Glu Pro Phe Trp Asp Glu Asp Gly Lys Val Tyr Ile Thr Gly Ala His 165 170 175 Ala Trp His Val Gly Pro Tyr Ile Gln Gln Ala Glu Val Asp Leu Asp 180 185 190 Thr Gly Ala Val Gly Glu Trp Arg Ile Ile Trp Asn Gly Thr Gly Gly 195 200 205 Met Ala Pro Glu Gly Pro His Ile Tyr Arg Lys Asp Gly Trp Tyr Tyr 210 215 220 Leu Leu Ala Ala Glu Gly Gly Thr Gly Ile Asp His Met Val Thr Met 225 230 235 240 Ala Arg Ser Arg Lys Ile Ser Ser Pro Tyr Glu Ser Asn Pro Asn Asn 245 250 255 Pro Val Leu Thr Asn Ala Asn Thr Thr Ser Tyr Phe Gln Thr Val Gly 260 265 270 His Ser Asp Leu Phe His Asp Arg His Gly Asn Trp Trp Ala Val Ala 275 280 285 Leu Ser Thr Arg Ser Gly Pro Glu Tyr Leu His Tyr Pro Met Gly Arg 290 295 300 Glu Thr Val Met Thr Ala Val Ser Trp Pro Lys Asp Glu Trp Pro Thr 305 310 315 320 Phe Thr Pro Ile Ser Gly Lys Met Ser Gly Trp Pro Met Pro Pro Ser 325 330 335 Gln Lys Asp Ile Arg Gly Val Gly Pro Tyr Val Asn Ser Pro Asp Pro 340 345 350 Glu His Leu Thr Phe Pro Arg Ser Ala Pro Leu Pro Ala His Leu Thr 355 360 365 Tyr Trp Arg Tyr Pro Asn Pro Ser Ser Tyr Thr Pro Ser Pro Pro Gly 370 375 380 His Pro Asn Thr Leu Arg Leu Thr Pro Ser Arg Leu Asn Leu Thr Ala 385 390 395 400 Leu Asn Gly Asn Tyr Ala Gly Ala Asp Gln Thr Phe Val Ser Arg Arg 405 410 415 Gln Gln His Thr Leu Phe Thr Tyr Ser Val Thr Leu Asp Tyr Ala Pro 420 425 430 Arg Thr Ala Gly Glu Glu Ala Gly Val Thr Ala Phe Leu Thr Gln Asn 435 440 445 His His Leu Asp Leu Gly Val Val Leu Leu Pro Arg Gly Ser Ala Thr 450 455 460 Ala Pro Ser Leu Pro Gly Leu Ser Ser Ser Thr Thr Thr Thr Ser Ser 465 470 475 480 Ser Ser Ser Arg Pro Asp Glu Glu Glu Glu Arg Glu Ala Gly Glu Glu 485 490 495 Glu Glu Glu Gly Gly Gln Asp Leu Met Ile Pro His Val Arg Phe Arg 500 505 510 Gly Glu Ser Tyr Val Pro Val Pro Ala Pro Val Val Tyr Pro Ile Pro 515 520 525 Arg Ala Trp Arg Gly Gly Lys Leu Val Leu Glu Ile Arg Ala Cys Asn 530 535 540 Ser Thr His Phe Ser Phe Arg Val Gly Pro Asp Gly Arg Arg Ser Glu 545 550 555 560 Arg Thr Val Val Met Glu Ala Ser Asn Glu Ala Val Ser Trp Gly Phe 565 570 575 Thr Gly Thr Leu Leu Gly Ile Tyr Ala Thr Ser Asn Gly Gly Asn Gly 580 585 590 Thr Thr Pro Ala Tyr Phe Ser Asp Trp Arg Tyr Thr Pro Leu Glu Gln 595 600 605 Phe Arg Asp 610 6595PRTMyceliophthora thermophila 6Ser Pro Gly His Gly Arg Asn Ser Thr Phe Tyr Asn Pro Ile Phe Pro 1 5 10 15 Gly Phe Tyr Pro Asp Pro Ser Cys Ile Tyr Val Pro Glu Arg Asp His 20 25 30 Thr Phe Phe Cys Ala Ser Ser Ser Phe Asn Ala Phe Pro Gly Ile Pro 35 40 45 Ile His Ala Ser Lys Asp Leu Gln Asn Trp Lys Leu Ile Gly His Val 50 55 60 Leu Asn Arg Lys Glu Gln Leu Pro Arg Leu Ala Glu Thr Asn Arg Ser 65 70 75 80 Thr Ser Gly Ile Trp Ala Pro Thr Leu Arg Phe His Asp Asp Thr Phe 85 90 95 Trp Leu Val Thr Thr Leu Val Asp Asp Asp Arg Pro Gln Glu Asp Ala 100 105 110 Ser Arg Trp Asp Asn Ile Ile Phe Lys Ala Lys Asn Pro Tyr Asp Pro 115 120 125 Arg Ser Trp Ser Lys Ala Val His Phe Asn Phe Thr Gly Tyr Asp Thr 130 135 140 Glu Pro Phe Trp Asp Glu Asp Gly Lys Val Tyr Ile Thr Gly Ala His 145 150 155 160 Ala Trp His Val Gly Pro Tyr Ile Gln Gln Ala Glu Val Asp Leu Asp 165 170 175 Thr Gly Ala Val Gly Glu Trp Arg Ile Ile Trp Asn Gly Thr Gly Gly 180 185 190 Met Ala Pro Glu Gly Pro His Ile Tyr Arg Lys Asp Gly Trp Tyr Tyr 195 200 205 Leu Leu Ala Ala Glu Gly Gly Thr Gly Ile Asp His Met Val Thr Met 210 215 220 Ala Arg Ser Arg Lys Ile Ser Ser Pro Tyr Glu Ser Asn Pro Asn Asn 225 230 235 240 Pro Val Leu Thr Asn Ala Asn Thr Thr Ser Tyr Phe Gln Thr Val Gly 245 250 255 His Ser Asp Leu Phe His Asp Arg His Gly Asn Trp Trp Ala Val Ala 260 265 270 Leu Ser Thr Arg Ser Gly Pro Glu Tyr Leu His Tyr Pro Met Gly Arg 275 280 285 Glu Thr Val Met Thr Ala Val Ser Trp Pro Lys Asp Glu Trp Pro Thr 290 295 300 Phe Thr Pro Ile Ser Gly Lys Met Ser Gly Trp Pro Met Pro Pro Ser 305 310 315 320 Gln Lys Asp Ile Arg Gly Val Gly Pro Tyr Val Asn Ser Pro Asp Pro 325 330 335 Glu His Leu Thr Phe Pro Arg Ser Ala Pro Leu Pro Ala His Leu Thr 340 345 350 Tyr Trp Arg Tyr Pro Asn Pro Ser Ser Tyr Thr Pro Ser Pro Pro Gly 355 360 365 His Pro Asn Thr Leu Arg Leu Thr Pro Ser Arg Leu Asn Leu Thr Ala 370 375 380 Leu Asn Gly Asn Tyr Ala Gly Ala Asp Gln Thr Phe Val Ser Arg Arg 385 390 395 400 Gln Gln His Thr Leu Phe Thr Tyr Ser Val Thr Leu Asp Tyr Ala Pro 405 410 415 Arg Thr Ala Gly Glu Glu Ala Gly Val Thr Ala Phe Leu Thr Gln Asn 420 425 430 His His Leu Asp Leu Gly Val Val Leu Leu Pro Arg Gly Ser Ala Thr 435 440 445 Ala Pro Ser Leu Pro Gly Leu Ser Ser Ser Thr Thr Thr Thr Ser Ser 450 455 460 Ser Ser Ser Arg Pro Asp Glu Glu Glu Glu Arg Glu Ala Gly Glu Glu 465 470 475 480 Glu Glu Glu Gly Gly Gln Asp Leu Met Ile Pro His Val Arg Phe Arg 485 490 495 Gly Glu Ser Tyr Val Pro Val Pro Ala Pro Val Val Tyr Pro Ile Pro 500 505 510 Arg Ala Trp Arg Gly Gly Lys Leu Val Leu Glu Ile Arg Ala Cys Asn 515 520 525 Ser Thr His Phe Ser Phe Arg Val Gly Pro Asp Gly Arg Arg Ser Glu 530 535 540 Arg Thr Val Val Met Glu Ala Ser Asn Glu Ala Val Ser Trp Gly Phe 545 550 555 560 Thr Gly Thr Leu Leu Gly Ile Tyr Ala Thr Ser Asn Gly Gly Asn Gly 565 570 575 Thr Thr Pro Ala Tyr Phe Ser Asp Trp Arg Tyr Thr Pro Leu Glu Gln 580 585 590 Phe Arg Asp 595 72535DNAMyceliophthora thermophila 7atgaaggcct ctgtatcatg cctcgtcggc atgagcgccg tggcctacgg cctcgatggc 60cctttccaga cctaccccga ctgcaccaag ccccccctgt ccgatattaa ggtgtgcgac 120cggacactgc ccgaggcgga gcgggcggca gccctcgtgg cagccctgac cgacgaggag 180aagctgcaaa acctggtcag caaggcgccg ggggcgccgc ggatcggcct gcccgcgtac 240aactggtgga gcgaggcgct gcacggggtg gcccacgcgc ccgggacgca gttccgcgac 300gggccggggg acttcaactc gtccacgtcg ttcccgatgc cgctgctgat ggccgccgcc 360ttcgacgacg agctgatcga ggccgtcggc gacgtcatcg gcaccgaggc ccgcgccttt 420ggcaacgccg gctggtccgg cctcgactac tggaccccca acgtcaaccc cttccgggac 480ccccgctggg gccgcggctc cgagacgccg ggcgaggacg tcgtgcgcct caagcgctac 540gccgcctcca tgatccgcgg gctcgagggt cgttcctcct cctcctcctc ctgctccttc 600ggatccggag gggagccgcc gcgcgtcatc tcgacctgca agcactacgc cggcaacgac 660tttgaggact ggaacggcac gacgcggcac gacttcgacg ccgtcatctc ggcgcaggac 720ctggccgagt actacctggc gccgttccag cagtgcgcgc gcgactcgcg cgtcggctcc 780gtcatgtgcg cctacaacgc cgtcaacggg gtgccgtcgt gcgccaactc gtacctcatg 840aacacgatcc tgcgcgggca ctggaactgg accgagcacg acaactacgt caccagcgac 900tgcgaggccg tcctcgacgt ctcggcccac caccactacg ccgacaccaa cgccgagggc 960accggcctct gcttcgaggc cggcatggac acgagctgcg agtacgaggg ctcctccgac 1020atcccgggcg cctccgccgg cggcttcctg acctggcccg ccgtcgaccg cgccctgacg 1080cggctgtacc ggagcctggt gcgggtcggc tactttgacg gccccgagtc gccgcacgcc 1140tcgctgggct gggccgacgt caaccggccc gaggcgcagg agctggccct gcgcgctgcc 1200gtcgagggca tcgtgctgct caagaacgac aacgacacgc tgccgctgcc gctgccggac 1260gatgtcgttg tcaccgctga tggtggccgc cgccgcgtcg ccatgatcgg cttctgggcc 1320gacgccccgg acaagctgtt tggcgggtac agcggcgcgc cccccttcgc gcgctcgccc 1380gcgagcgccg cccggcagct gggctggaac gtcacggtcg ccggagggcc cgtcctggag 1440ggagactcgg acgaggagga ggacacgtgg acggcgccgg ccgtcgaggc ggccgccgac 1500gccgactaca tcgtctactt tggcggcctg gacacgtcgg cggcgggcga gaccaaggac 1560cggatgacga

tcgggtggcc ggcggcgcag ctggcgctca tctcggagct ggcgcggctc 1620ggcaagcccg tcgtggtggt gcagatgggc gaccagctcg acgacacgcc cctcttcgag 1680ctggacgggg tgggcgccgt cctgtgggcc aactggccgg gccaggacgg cggcacggcc 1740gtggtccggc tgctcagcgg cgccgagagc ccggccggcc gcctgcccgt gacccagtac 1800ccggccaact acaccgacgc ggtgcccctg accgacatga ccctgcgccc gtcggcgacc 1860aacccgggcc ggacctaccg ctggtacccg actcccgtcc ggcccttcgg cttcggcctc 1920cactatacca ccttccgggc cgagttcggc ccccacccct tcttcccggg ggcgggcaag 1980ggcgatggcg acggcgagga caagggcgag agcaagagcg agatcaggac gcagcagcag 2040caacagcagc agcagcagca gcgcagggcg gcggcggcgg ccaccacgcc gatccgggac 2100ctgctccgcg actgcgacaa gacgtacccg gacacgtgcc cgctgccgcc gctgacggtg 2160cgcgtgacca acgagggcga gcgcgcgtcc gactacgtgg tgctggcctt cgtgtcgggc 2220gagtacgggc cggcgccgta cccgatcaag acgctggtct cgtacgcgcg ggcgcgcggg 2280ctaaagggga agggcgggac gggcgccggc gacggcgacg tcgccaccac taccgtctcg 2340ctcgactgga ccgtcggcaa cctggcccgc cacgacgagc gcggcaacac aatcctgtac 2400ccgggaactt acaccctcac tctcgacgag ccggcccagg cgagcgtgca gttcgccctc 2460gagggcgagc ccgtcgtgct cgacgagtgg cctgcgccgc cgagtgccaa ctccaccgcc 2520agggggaggc acagg 25358845PRTMyceliophthora thermophila 8Met Lys Ala Ser Val Ser Cys Leu Val Gly Met Ser Ala Val Ala Tyr 1 5 10 15 Gly Leu Asp Gly Pro Phe Gln Thr Tyr Pro Asp Cys Thr Lys Pro Pro 20 25 30 Leu Ser Asp Ile Lys Val Cys Asp Arg Thr Leu Pro Glu Ala Glu Arg 35 40 45 Ala Ala Ala Leu Val Ala Ala Leu Thr Asp Glu Glu Lys Leu Gln Asn 50 55 60 Leu Val Ser Lys Ala Pro Gly Ala Pro Arg Ile Gly Leu Pro Ala Tyr 65 70 75 80 Asn Trp Trp Ser Glu Ala Leu His Gly Val Ala His Ala Pro Gly Thr 85 90 95 Gln Phe Arg Asp Gly Pro Gly Asp Phe Asn Ser Ser Thr Ser Phe Pro 100 105 110 Met Pro Leu Leu Met Ala Ala Ala Phe Asp Asp Glu Leu Ile Glu Ala 115 120 125 Val Gly Asp Val Ile Gly Thr Glu Ala Arg Ala Phe Gly Asn Ala Gly 130 135 140 Trp Ser Gly Leu Asp Tyr Trp Thr Pro Asn Val Asn Pro Phe Arg Asp 145 150 155 160 Pro Arg Trp Gly Arg Gly Ser Glu Thr Pro Gly Glu Asp Val Val Arg 165 170 175 Leu Lys Arg Tyr Ala Ala Ser Met Ile Arg Gly Leu Glu Gly Arg Ser 180 185 190 Ser Ser Ser Ser Ser Cys Ser Phe Gly Ser Gly Gly Glu Pro Pro Arg 195 200 205 Val Ile Ser Thr Cys Lys His Tyr Ala Gly Asn Asp Phe Glu Asp Trp 210 215 220 Asn Gly Thr Thr Arg His Asp Phe Asp Ala Val Ile Ser Ala Gln Asp 225 230 235 240 Leu Ala Glu Tyr Tyr Leu Ala Pro Phe Gln Gln Cys Ala Arg Asp Ser 245 250 255 Arg Val Gly Ser Val Met Cys Ala Tyr Asn Ala Val Asn Gly Val Pro 260 265 270 Ser Cys Ala Asn Ser Tyr Leu Met Asn Thr Ile Leu Arg Gly His Trp 275 280 285 Asn Trp Thr Glu His Asp Asn Tyr Val Thr Ser Asp Cys Glu Ala Val 290 295 300 Leu Asp Val Ser Ala His His His Tyr Ala Asp Thr Asn Ala Glu Gly 305 310 315 320 Thr Gly Leu Cys Phe Glu Ala Gly Met Asp Thr Ser Cys Glu Tyr Glu 325 330 335 Gly Ser Ser Asp Ile Pro Gly Ala Ser Ala Gly Gly Phe Leu Thr Trp 340 345 350 Pro Ala Val Asp Arg Ala Leu Thr Arg Leu Tyr Arg Ser Leu Val Arg 355 360 365 Val Gly Tyr Phe Asp Gly Pro Glu Ser Pro His Ala Ser Leu Gly Trp 370 375 380 Ala Asp Val Asn Arg Pro Glu Ala Gln Glu Leu Ala Leu Arg Ala Ala 385 390 395 400 Val Glu Gly Ile Val Leu Leu Lys Asn Asp Asn Asp Thr Leu Pro Leu 405 410 415 Pro Leu Pro Asp Asp Val Val Val Thr Ala Asp Gly Gly Arg Arg Arg 420 425 430 Val Ala Met Ile Gly Phe Trp Ala Asp Ala Pro Asp Lys Leu Phe Gly 435 440 445 Gly Tyr Ser Gly Ala Pro Pro Phe Ala Arg Ser Pro Ala Ser Ala Ala 450 455 460 Arg Gln Leu Gly Trp Asn Val Thr Val Ala Gly Gly Pro Val Leu Glu 465 470 475 480 Gly Asp Ser Asp Glu Glu Glu Asp Thr Trp Thr Ala Pro Ala Val Glu 485 490 495 Ala Ala Ala Asp Ala Asp Tyr Ile Val Tyr Phe Gly Gly Leu Asp Thr 500 505 510 Ser Ala Ala Gly Glu Thr Lys Asp Arg Met Thr Ile Gly Trp Pro Ala 515 520 525 Ala Gln Leu Ala Leu Ile Ser Glu Leu Ala Arg Leu Gly Lys Pro Val 530 535 540 Val Val Val Gln Met Gly Asp Gln Leu Asp Asp Thr Pro Leu Phe Glu 545 550 555 560 Leu Asp Gly Val Gly Ala Val Leu Trp Ala Asn Trp Pro Gly Gln Asp 565 570 575 Gly Gly Thr Ala Val Val Arg Leu Leu Ser Gly Ala Glu Ser Pro Ala 580 585 590 Gly Arg Leu Pro Val Thr Gln Tyr Pro Ala Asn Tyr Thr Asp Ala Val 595 600 605 Pro Leu Thr Asp Met Thr Leu Arg Pro Ser Ala Thr Asn Pro Gly Arg 610 615 620 Thr Tyr Arg Trp Tyr Pro Thr Pro Val Arg Pro Phe Gly Phe Gly Leu 625 630 635 640 His Tyr Thr Thr Phe Arg Ala Glu Phe Gly Pro His Pro Phe Phe Pro 645 650 655 Gly Ala Gly Lys Gly Asp Gly Asp Gly Glu Asp Lys Gly Glu Ser Lys 660 665 670 Ser Glu Ile Arg Thr Gln Gln Gln Gln Gln Gln Gln Gln Gln Gln Arg 675 680 685 Arg Ala Ala Ala Ala Ala Thr Thr Pro Ile Arg Asp Leu Leu Arg Asp 690 695 700 Cys Asp Lys Thr Tyr Pro Asp Thr Cys Pro Leu Pro Pro Leu Thr Val 705 710 715 720 Arg Val Thr Asn Glu Gly Glu Arg Ala Ser Asp Tyr Val Val Leu Ala 725 730 735 Phe Val Ser Gly Glu Tyr Gly Pro Ala Pro Tyr Pro Ile Lys Thr Leu 740 745 750 Val Ser Tyr Ala Arg Ala Arg Gly Leu Lys Gly Lys Gly Gly Thr Gly 755 760 765 Ala Gly Asp Gly Asp Val Ala Thr Thr Thr Val Ser Leu Asp Trp Thr 770 775 780 Val Gly Asn Leu Ala Arg His Asp Glu Arg Gly Asn Thr Ile Leu Tyr 785 790 795 800 Pro Gly Thr Tyr Thr Leu Thr Leu Asp Glu Pro Ala Gln Ala Ser Val 805 810 815 Gln Phe Ala Leu Glu Gly Glu Pro Val Val Leu Asp Glu Trp Pro Ala 820 825 830 Pro Pro Ser Ala Asn Ser Thr Ala Arg Gly Arg His Arg 835 840 845 9828PRTMyceliophthora thermophila 9Leu Asp Gly Pro Phe Gln Thr Tyr Pro Asp Cys Thr Lys Pro Pro Leu 1 5 10 15 Ser Asp Ile Lys Val Cys Asp Arg Thr Leu Pro Glu Ala Glu Arg Ala 20 25 30 Ala Ala Leu Val Ala Ala Leu Thr Asp Glu Glu Lys Leu Gln Asn Leu 35 40 45 Val Ser Lys Ala Pro Gly Ala Pro Arg Ile Gly Leu Pro Ala Tyr Asn 50 55 60 Trp Trp Ser Glu Ala Leu His Gly Val Ala His Ala Pro Gly Thr Gln 65 70 75 80 Phe Arg Asp Gly Pro Gly Asp Phe Asn Ser Ser Thr Ser Phe Pro Met 85 90 95 Pro Leu Leu Met Ala Ala Ala Phe Asp Asp Glu Leu Ile Glu Ala Val 100 105 110 Gly Asp Val Ile Gly Thr Glu Ala Arg Ala Phe Gly Asn Ala Gly Trp 115 120 125 Ser Gly Leu Asp Tyr Trp Thr Pro Asn Val Asn Pro Phe Arg Asp Pro 130 135 140 Arg Trp Gly Arg Gly Ser Glu Thr Pro Gly Glu Asp Val Val Arg Leu 145 150 155 160 Lys Arg Tyr Ala Ala Ser Met Ile Arg Gly Leu Glu Gly Arg Ser Ser 165 170 175 Ser Ser Ser Ser Cys Ser Phe Gly Ser Gly Gly Glu Pro Pro Arg Val 180 185 190 Ile Ser Thr Cys Lys His Tyr Ala Gly Asn Asp Phe Glu Asp Trp Asn 195 200 205 Gly Thr Thr Arg His Asp Phe Asp Ala Val Ile Ser Ala Gln Asp Leu 210 215 220 Ala Glu Tyr Tyr Leu Ala Pro Phe Gln Gln Cys Ala Arg Asp Ser Arg 225 230 235 240 Val Gly Ser Val Met Cys Ala Tyr Asn Ala Val Asn Gly Val Pro Ser 245 250 255 Cys Ala Asn Ser Tyr Leu Met Asn Thr Ile Leu Arg Gly His Trp Asn 260 265 270 Trp Thr Glu His Asp Asn Tyr Val Thr Ser Asp Cys Glu Ala Val Leu 275 280 285 Asp Val Ser Ala His His His Tyr Ala Asp Thr Asn Ala Glu Gly Thr 290 295 300 Gly Leu Cys Phe Glu Ala Gly Met Asp Thr Ser Cys Glu Tyr Glu Gly 305 310 315 320 Ser Ser Asp Ile Pro Gly Ala Ser Ala Gly Gly Phe Leu Thr Trp Pro 325 330 335 Ala Val Asp Arg Ala Leu Thr Arg Leu Tyr Arg Ser Leu Val Arg Val 340 345 350 Gly Tyr Phe Asp Gly Pro Glu Ser Pro His Ala Ser Leu Gly Trp Ala 355 360 365 Asp Val Asn Arg Pro Glu Ala Gln Glu Leu Ala Leu Arg Ala Ala Val 370 375 380 Glu Gly Ile Val Leu Leu Lys Asn Asp Asn Asp Thr Leu Pro Leu Pro 385 390 395 400 Leu Pro Asp Asp Val Val Val Thr Ala Asp Gly Gly Arg Arg Arg Val 405 410 415 Ala Met Ile Gly Phe Trp Ala Asp Ala Pro Asp Lys Leu Phe Gly Gly 420 425 430 Tyr Ser Gly Ala Pro Pro Phe Ala Arg Ser Pro Ala Ser Ala Ala Arg 435 440 445 Gln Leu Gly Trp Asn Val Thr Val Ala Gly Gly Pro Val Leu Glu Gly 450 455 460 Asp Ser Asp Glu Glu Glu Asp Thr Trp Thr Ala Pro Ala Val Glu Ala 465 470 475 480 Ala Ala Asp Ala Asp Tyr Ile Val Tyr Phe Gly Gly Leu Asp Thr Ser 485 490 495 Ala Ala Gly Glu Thr Lys Asp Arg Met Thr Ile Gly Trp Pro Ala Ala 500 505 510 Gln Leu Ala Leu Ile Ser Glu Leu Ala Arg Leu Gly Lys Pro Val Val 515 520 525 Val Val Gln Met Gly Asp Gln Leu Asp Asp Thr Pro Leu Phe Glu Leu 530 535 540 Asp Gly Val Gly Ala Val Leu Trp Ala Asn Trp Pro Gly Gln Asp Gly 545 550 555 560 Gly Thr Ala Val Val Arg Leu Leu Ser Gly Ala Glu Ser Pro Ala Gly 565 570 575 Arg Leu Pro Val Thr Gln Tyr Pro Ala Asn Tyr Thr Asp Ala Val Pro 580 585 590 Leu Thr Asp Met Thr Leu Arg Pro Ser Ala Thr Asn Pro Gly Arg Thr 595 600 605 Tyr Arg Trp Tyr Pro Thr Pro Val Arg Pro Phe Gly Phe Gly Leu His 610 615 620 Tyr Thr Thr Phe Arg Ala Glu Phe Gly Pro His Pro Phe Phe Pro Gly 625 630 635 640 Ala Gly Lys Gly Asp Gly Asp Gly Glu Asp Lys Gly Glu Ser Lys Ser 645 650 655 Glu Ile Arg Thr Gln Gln Gln Gln Gln Gln Gln Gln Gln Gln Arg Arg 660 665 670 Ala Ala Ala Ala Ala Thr Thr Pro Ile Arg Asp Leu Leu Arg Asp Cys 675 680 685 Asp Lys Thr Tyr Pro Asp Thr Cys Pro Leu Pro Pro Leu Thr Val Arg 690 695 700 Val Thr Asn Glu Gly Glu Arg Ala Ser Asp Tyr Val Val Leu Ala Phe 705 710 715 720 Val Ser Gly Glu Tyr Gly Pro Ala Pro Tyr Pro Ile Lys Thr Leu Val 725 730 735 Ser Tyr Ala Arg Ala Arg Gly Leu Lys Gly Lys Gly Gly Thr Gly Ala 740 745 750 Gly Asp Gly Asp Val Ala Thr Thr Thr Val Ser Leu Asp Trp Thr Val 755 760 765 Gly Asn Leu Ala Arg His Asp Glu Arg Gly Asn Thr Ile Leu Tyr Pro 770 775 780 Gly Thr Tyr Thr Leu Thr Leu Asp Glu Pro Ala Gln Ala Ser Val Gln 785 790 795 800 Phe Ala Leu Glu Gly Glu Pro Val Val Leu Asp Glu Trp Pro Ala Pro 805 810 815 Pro Ser Ala Asn Ser Thr Ala Arg Gly Arg His Arg 820 825 102535DNAMyceliophthora thermophila 10atgaaggcct ctgtatcatg cctcgtcggc atgagcgccg tggcctacgg cctcgatggc 60cctttccaga cctaccccga ctgcaccaag ccccccctgt ccgatattaa ggtgtgcgac 120cggacactgc ccgaggcgga gcgggcggca gccctcgtgg cagccctgac cgacgaggag 180aagctgcaaa acctggtcag caaggcgccg ggggcgccgc ggatcggcct gcccgcgtac 240aactggtgga gcgaggcgct gcacggggtg gcccacgcgc ccgggacgca gttccgcgac 300gggccggggg acttcaactc gtccacgtcg ttcccgatgc cgctgctgat ggccgccgcc 360ttcgacgacg agctgatcga ggccgtcggc gacgtcatcg gcaccgaggc ccgcgccttt 420ggcaacgccg gctggtccgg cctcgactac tggaccccca acgtcaaccc cttccgggac 480ccccgctggg gccgcggctc cgagacgccg ggcgaggacg tcgtgcgcct caagcgctac 540gccgcctcca tgatccgcgg gctcgagggt cgttcctcct cctcctcctc ctgctccttc 600ggatccggag gggagccgcc gcgcgtcatc tcgacctgca agcactacgc cggcaacgac 660tttgaggact ggaacggcac gacgcggcac gacttcgacg ccgtcatctc ggcgcaggac 720ctggccgagt actacctggc gccgttccag cagtgcgcgc gcgactcgcg cgtcggctcc 780gtcatgtgcg cctacaacgc cgtcaacggg gtgccgtcgt gcgccaactc gtacctcatg 840aacacgatcc tgcgcgggca ctggaactgg accgagcacg acaactacgt caccagcgac 900tgcgaggccg tcctcgacgt ctcggcccac caccactacg ccgacaccaa cgccgagggc 960accggcctct gcttcgaggc cggcatggac acgagctgcg agtacgaggg ctcctccgac 1020atcccgggcg cctccgccgg cggcttcctg acctggcccg ccgtcgaccg cgccctgacg 1080cggctgtacc ggagcctggt gcgggtcggc tactttgacg gccccgagtc gccgcacgcc 1140tcgctgggct gggccgacgt caaccggccc gaggcgcagg agctggccct gcgcgctgcc 1200gtcgagggca tcgtgctgct caagaacgac aacgacacgc tgccgctgcc gctgccggac 1260gatgtcgttg tcaccgctga tggtggccgc cgccgcgtcg ccatgatcgg cttctgggcc 1320gacgccccgg acaagctgtt tggcgggtac agcggcgcgc cccccttcgc gcgctcgccc 1380gcgagcgccg cccggcagct gggctggaac gtcacggtcg ccggagggcc cgtcctggag 1440ggagactcgg acgaggagga ggacacgtgg acggcgccgg ccgtcgaggc ggccgccgac 1500gccgactaca tcgtctactt tggcggcctg gacacgtcgg cggcgggcga gaccaaggac 1560cggatgacga tcgggtggcc ggcggcgcag ctggcgctca tctcggagct ggcgcggctc 1620ggcaagcccg tcgtggtggt gcagatgggc gaccagctcg acgacacgcc cctcttcgag 1680ctggacgggg tgggcgccgt cctgtgggcc aactggccgg gccaggacgg cggcacggcc 1740gtggtccggc tgctcagcgg cgccgagagc ccggccggcc gcctgcccgt gacccagtac 1800ccggccaact acaccgacgc ggtgcccctg accgacatga ccctgcgccc gtcggcgacc 1860aacccgggcc ggacctaccg ctggtacccg actcccgtcc ggcccttcgg cttcggcctc 1920cactatacca ccttccgggc cgagttcggc ccccacccct tcttcccggg ggcgggcaag 1980ggcgatggcg acggcgagga caagggcgag agcaagagcg agatcaggac gcagcagcag 2040caacagcagc agcagcagca gcgcagggcg gcggcggcgg ccaccacgcc gatccgggac 2100ctgctccgcg actgcgacaa gacgtacccg gacacgtgcc cgctgccgcc gctgacggtg 2160cgcgtgacca acgagggcga gcgcgcgtcc gactacgtgg tgctggcctt cgtgtcgggc 2220gagtacgggc cggcgccgta cccgatcaag acgctggtct cgtacgcgcg ggcgcgcggg 2280ctaaagggga agggcggcga cggcgacggc gacggcgacg gcgccaccac taccgtctcg 2340ctcgactgga ccgtcggcaa cctggcccgc cacgacgagc gcggcaacac aatcctgtac 2400ccgggaactt acaccctcac tctcgacgag ccggcccagg cgagcgtgca gttcgccctc 2460gagggcgagc ccgtcgtgct cgacgagtgg cctgcgccgc cgagtgccaa ctccaccgcc 2520agggggaggc acagg 253511845PRTMyceliophthora thermophila 11Met Lys Ala Ser Val Ser Cys Leu Val Gly Met Ser Ala Val Ala Tyr 1 5 10 15 Gly Leu Asp Gly Pro Phe Gln Thr Tyr Pro Asp Cys Thr Lys Pro Pro 20 25 30 Leu Ser Asp Ile Lys Val Cys Asp Arg Thr Leu Pro Glu Ala Glu Arg 35 40 45 Ala Ala Ala Leu Val Ala Ala Leu Thr Asp Glu Glu Lys Leu Gln Asn 50 55

60 Leu Val Ser Lys Ala Pro Gly Ala Pro Arg Ile Gly Leu Pro Ala Tyr 65 70 75 80 Asn Trp Trp Ser Glu Ala Leu His Gly Val Ala His Ala Pro Gly Thr 85 90 95 Gln Phe Arg Asp Gly Pro Gly Asp Phe Asn Ser Ser Thr Ser Phe Pro 100 105 110 Met Pro Leu Leu Met Ala Ala Ala Phe Asp Asp Glu Leu Ile Glu Ala 115 120 125 Val Gly Asp Val Ile Gly Thr Glu Ala Arg Ala Phe Gly Asn Ala Gly 130 135 140 Trp Ser Gly Leu Asp Tyr Trp Thr Pro Asn Val Asn Pro Phe Arg Asp 145 150 155 160 Pro Arg Trp Gly Arg Gly Ser Glu Thr Pro Gly Glu Asp Val Val Arg 165 170 175 Leu Lys Arg Tyr Ala Ala Ser Met Ile Arg Gly Leu Glu Gly Arg Ser 180 185 190 Ser Ser Ser Ser Ser Cys Ser Phe Gly Ser Gly Gly Glu Pro Pro Arg 195 200 205 Val Ile Ser Thr Cys Lys His Tyr Ala Gly Asn Asp Phe Glu Asp Trp 210 215 220 Asn Gly Thr Thr Arg His Asp Phe Asp Ala Val Ile Ser Ala Gln Asp 225 230 235 240 Leu Ala Glu Tyr Tyr Leu Ala Pro Phe Gln Gln Cys Ala Arg Asp Ser 245 250 255 Arg Val Gly Ser Val Met Cys Ala Tyr Asn Ala Val Asn Gly Val Pro 260 265 270 Ser Cys Ala Asn Ser Tyr Leu Met Asn Thr Ile Leu Arg Gly His Trp 275 280 285 Asn Trp Thr Glu His Asp Asn Tyr Val Thr Ser Asp Cys Glu Ala Val 290 295 300 Leu Asp Val Ser Ala His His His Tyr Ala Asp Thr Asn Ala Glu Gly 305 310 315 320 Thr Gly Leu Cys Phe Glu Ala Gly Met Asp Thr Ser Cys Glu Tyr Glu 325 330 335 Gly Ser Ser Asp Ile Pro Gly Ala Ser Ala Gly Gly Phe Leu Thr Trp 340 345 350 Pro Ala Val Asp Arg Ala Leu Thr Arg Leu Tyr Arg Ser Leu Val Arg 355 360 365 Val Gly Tyr Phe Asp Gly Pro Glu Ser Pro His Ala Ser Leu Gly Trp 370 375 380 Ala Asp Val Asn Arg Pro Glu Ala Gln Glu Leu Ala Leu Arg Ala Ala 385 390 395 400 Val Glu Gly Ile Val Leu Leu Lys Asn Asp Asn Asp Thr Leu Pro Leu 405 410 415 Pro Leu Pro Asp Asp Val Val Val Thr Ala Asp Gly Gly Arg Arg Arg 420 425 430 Val Ala Met Ile Gly Phe Trp Ala Asp Ala Pro Asp Lys Leu Phe Gly 435 440 445 Gly Tyr Ser Gly Ala Pro Pro Phe Ala Arg Ser Pro Ala Ser Ala Ala 450 455 460 Arg Gln Leu Gly Trp Asn Val Thr Val Ala Gly Gly Pro Val Leu Glu 465 470 475 480 Gly Asp Ser Asp Glu Glu Glu Asp Thr Trp Thr Ala Pro Ala Val Glu 485 490 495 Ala Ala Ala Asp Ala Asp Tyr Ile Val Tyr Phe Gly Gly Leu Asp Thr 500 505 510 Ser Ala Ala Gly Glu Thr Lys Asp Arg Met Thr Ile Gly Trp Pro Ala 515 520 525 Ala Gln Leu Ala Leu Ile Ser Glu Leu Ala Arg Leu Gly Lys Pro Val 530 535 540 Val Val Val Gln Met Gly Asp Gln Leu Asp Asp Thr Pro Leu Phe Glu 545 550 555 560 Leu Asp Gly Val Gly Ala Val Leu Trp Ala Asn Trp Pro Gly Gln Asp 565 570 575 Gly Gly Thr Ala Val Val Arg Leu Leu Ser Gly Ala Glu Ser Pro Ala 580 585 590 Gly Arg Leu Pro Val Thr Gln Tyr Pro Ala Asn Tyr Thr Asp Ala Val 595 600 605 Pro Leu Thr Asp Met Thr Leu Arg Pro Ser Ala Thr Asn Pro Gly Arg 610 615 620 Thr Tyr Arg Trp Tyr Pro Thr Pro Val Arg Pro Phe Gly Phe Gly Leu 625 630 635 640 His Tyr Thr Thr Phe Arg Ala Glu Phe Gly Pro His Pro Phe Phe Pro 645 650 655 Gly Ala Gly Lys Gly Asp Gly Asp Gly Glu Asp Lys Gly Glu Ser Lys 660 665 670 Ser Glu Ile Arg Thr Gln Gln Gln Gln Gln Gln Gln Gln Gln Gln Arg 675 680 685 Arg Ala Ala Ala Ala Ala Thr Thr Pro Ile Arg Asp Leu Leu Arg Asp 690 695 700 Cys Asp Lys Thr Tyr Pro Asp Thr Cys Pro Leu Pro Pro Leu Thr Val 705 710 715 720 Arg Val Thr Asn Glu Gly Glu Arg Ala Ser Asp Tyr Val Val Leu Ala 725 730 735 Phe Val Ser Gly Glu Tyr Gly Pro Ala Pro Tyr Pro Ile Lys Thr Leu 740 745 750 Val Ser Tyr Ala Arg Ala Arg Gly Leu Lys Gly Lys Gly Gly Asp Gly 755 760 765 Asp Gly Asp Gly Asp Gly Ala Thr Thr Thr Val Ser Leu Asp Trp Thr 770 775 780 Val Gly Asn Leu Ala Arg His Asp Glu Arg Gly Asn Thr Ile Leu Tyr 785 790 795 800 Pro Gly Thr Tyr Thr Leu Thr Leu Asp Glu Pro Ala Gln Ala Ser Val 805 810 815 Gln Phe Ala Leu Glu Gly Glu Pro Val Val Leu Asp Glu Trp Pro Ala 820 825 830 Pro Pro Ser Ala Asn Ser Thr Ala Arg Gly Arg His Arg 835 840 845 122535DNAArtificial sequenceSynthetic polynucleotide 12atgaaggcct ctgtatcatg cctcgtcggc atgagcgccg tggcctacgg cctcgatggc 60cctttccaga cctaccccga ctgcaccaag ccccccctgt ccgatattaa ggtgtgcgac 120cggacactgc ccgaggcgga gcgggcggca gccctcgtgg cagccctgac cgacgaggag 180aagctgcaaa acctggtcag caaggcgccg ggggcgccgc ggatcggcct gcccgcgtac 240aactggtgga gcgaggcgct gcacggggtg gcccacgcgc ccgggacgca attccgcgac 300gggccggggg acttcaactc gtccacgtcg ttcccgatgc cgctgctgat ggccgccgcc 360ttcgacgacg agctgatcga ggccgtcggc gacgtcatcg gcaccgaggc ccgcgccttt 420ggcaacgccg gctggtccgg cctcgactac tggaccccca acgtcaaccc cttccgggac 480ccccgctggg gccgcggctc cgagacgccg ggcgaggacg tcgtgcgcct caagcgctac 540gccgcctcca tgatccgcgg gctcgagggt cgttcctcct cctcctcctc ctgctccttc 600ggatccggag gggagccgcc gcgcgtcatc tcgacctgca agcactacgc cggctacgac 660tttgaggact ggaacggcac gacgcggcac gacttcgacg ccgtcatctc ggcgcaggac 720ctggccgagt actacctggc gccgttccag cagtgcgcgc gcgactcgcg cgtcggctcc 780gtcatgtgcg cctacaacgc cgtcaacggg gtgccgtcgt gcgccaactc gtacctcatg 840aacacgatcc tgcgcgggca ctggaactgg accgagcacg acaactacgt caccagcgac 900tgcgaggccg tcctcgacgt ctcggcccac caccactacg ccgacaccaa cgccgagggc 960accggcctct gcttcgaggc cggcatggac acgagctgcg agtacgaggg ctcctccgac 1020atcccgggcg cctccgccgg cggcttcctg acctggcccg ccgtcgaccg cgccctgacg 1080cggctgtacc ggagcctggt gcgggtcggc tactttgacg gccccgagtc gccgcacgcc 1140tcgctgggct gggccgacgt caaccggccc gaggcgcagg agctggccct gcgcgctgcc 1200gtcgagggca tcgtgctgct caagaacgac aacgacacgc tgccgctgcc gctgccggac 1260gatgtcgttg tcaccgctga tggtggccgc cgccgcgtcg ccatgatcgg cttctgggcc 1320gacgccccgg acaagctgtt tggcgggtac agcggcgcgc cccccttcgc gcgctcgccc 1380gcgagcgccg cccggcagct gggctggaac gtcacggtcg ccggagggcc cgtcctggag 1440ggagactcgg acgaggagga ggacacgtgg acggcgccgg ccgtcgaggc ggccgccgac 1500gccgactaca tcgtctactt tggcggcctg gacacgtcgg cggcgggcga gaccaaggac 1560cggatgacga tcgggtggcc ggcggcgcag ctggcgctca tctcggagct ggcgcggctc 1620ggcaagcccg tcgtggtggt gcagatgggc gaccagctcg acgacacgcc cctcttcgag 1680ctggacgggg tgggcgccgt cctgtgggcc aactggccgg gccaggacgg cggcacggcc 1740gtggtccggc tgctcagcgg cgccgagagc ccggccggcc gcctgcccgt gacccagtac 1800ccggccaact acaccgacgc ggtgcccctg accgacatga ccctgcgccc gtcggcgacc 1860aacccgggcc ggacctaccg ctggtacccg actcccgtcc ggcccttcgg cttcggcctc 1920cactatacca ccttccgggc cgagttcggc ccccacccct tcttcccggg ggcgggcaag 1980ggcgatggcg acggcgagga caagggcgag agcaagagcg agatcaggac gcagcagcag 2040caacagcagc agcagcagca gcgcagggcg gcggcggcgg ccaccacgcc gatccgggac 2100ctgctccgcg actgcgacaa gacgtacccg gacacgtgcc cgctgccgcc gctgacggtg 2160cgcgtgacca acgagggcga gcgcgcgtcc gactacgtgg tgctggcctt cgtgtcgggc 2220gagtacgggc cggcgccgta cccgatcaag acgctggtct cgtacgcgcg ggcgcgcggg 2280ctaaagggga agggcggcga cggcgacggc gacggcgacg gcgccaccac taccgtctcg 2340ctcgactgga ccgtcggcaa cctggcccgc cacgacgagc gcggcaacac aatcctgtac 2400ccgggaactt acaccctcac tctcgacgag ccggcccagg cgagcgtgca gttcgccctc 2460gagggcgagc ccgtcgtgct cgacgagtgg cctgcgccgc cgagtgccaa ctccaccgcc 2520agggggaggc acagg 253513845PRTArtificial sequenceSynthetic polypeptide 13Met Lys Ala Ser Val Ser Cys Leu Val Gly Met Ser Ala Val Ala Tyr 1 5 10 15 Gly Leu Asp Gly Pro Phe Gln Thr Tyr Pro Asp Cys Thr Lys Pro Pro 20 25 30 Leu Ser Asp Ile Lys Val Cys Asp Arg Thr Leu Pro Glu Ala Glu Arg 35 40 45 Ala Ala Ala Leu Val Ala Ala Leu Thr Asp Glu Glu Lys Leu Gln Asn 50 55 60 Leu Val Ser Lys Ala Pro Gly Ala Pro Arg Ile Gly Leu Pro Ala Tyr 65 70 75 80 Asn Trp Trp Ser Glu Ala Leu His Gly Val Ala His Ala Pro Gly Thr 85 90 95 Gln Phe Arg Asp Gly Pro Gly Asp Phe Asn Ser Ser Thr Ser Phe Pro 100 105 110 Met Pro Leu Leu Met Ala Ala Ala Phe Asp Asp Glu Leu Ile Glu Ala 115 120 125 Val Gly Asp Val Ile Gly Thr Glu Ala Arg Ala Phe Gly Asn Ala Gly 130 135 140 Trp Ser Gly Leu Asp Tyr Trp Thr Pro Asn Val Asn Pro Phe Arg Asp 145 150 155 160 Pro Arg Trp Gly Arg Gly Ser Glu Thr Pro Gly Glu Asp Val Val Arg 165 170 175 Leu Lys Arg Tyr Ala Ala Ser Met Ile Arg Gly Leu Glu Gly Arg Ser 180 185 190 Ser Ser Ser Ser Ser Cys Ser Phe Gly Ser Gly Gly Glu Pro Pro Arg 195 200 205 Val Ile Ser Thr Cys Lys His Tyr Ala Gly Tyr Asp Phe Glu Asp Trp 210 215 220 Asn Gly Thr Thr Arg His Asp Phe Asp Ala Val Ile Ser Ala Gln Asp 225 230 235 240 Leu Ala Glu Tyr Tyr Leu Ala Pro Phe Gln Gln Cys Ala Arg Asp Ser 245 250 255 Arg Val Gly Ser Val Met Cys Ala Tyr Asn Ala Val Asn Gly Val Pro 260 265 270 Ser Cys Ala Asn Ser Tyr Leu Met Asn Thr Ile Leu Arg Gly His Trp 275 280 285 Asn Trp Thr Glu His Asp Asn Tyr Val Thr Ser Asp Cys Glu Ala Val 290 295 300 Leu Asp Val Ser Ala His His His Tyr Ala Asp Thr Asn Ala Glu Gly 305 310 315 320 Thr Gly Leu Cys Phe Glu Ala Gly Met Asp Thr Ser Cys Glu Tyr Glu 325 330 335 Gly Ser Ser Asp Ile Pro Gly Ala Ser Ala Gly Gly Phe Leu Thr Trp 340 345 350 Pro Ala Val Asp Arg Ala Leu Thr Arg Leu Tyr Arg Ser Leu Val Arg 355 360 365 Val Gly Tyr Phe Asp Gly Pro Glu Ser Pro His Ala Ser Leu Gly Trp 370 375 380 Ala Asp Val Asn Arg Pro Glu Ala Gln Glu Leu Ala Leu Arg Ala Ala 385 390 395 400 Val Glu Gly Ile Val Leu Leu Lys Asn Asp Asn Asp Thr Leu Pro Leu 405 410 415 Pro Leu Pro Asp Asp Val Val Val Thr Ala Asp Gly Gly Arg Arg Arg 420 425 430 Val Ala Met Ile Gly Phe Trp Ala Asp Ala Pro Asp Lys Leu Phe Gly 435 440 445 Gly Tyr Ser Gly Ala Pro Pro Phe Ala Arg Ser Pro Ala Ser Ala Ala 450 455 460 Arg Gln Leu Gly Trp Asn Val Thr Val Ala Gly Gly Pro Val Leu Glu 465 470 475 480 Gly Asp Ser Asp Glu Glu Glu Asp Thr Trp Thr Ala Pro Ala Val Glu 485 490 495 Ala Ala Ala Asp Ala Asp Tyr Ile Val Tyr Phe Gly Gly Leu Asp Thr 500 505 510 Ser Ala Ala Gly Glu Thr Lys Asp Arg Met Thr Ile Gly Trp Pro Ala 515 520 525 Ala Gln Leu Ala Leu Ile Ser Glu Leu Ala Arg Leu Gly Lys Pro Val 530 535 540 Val Val Val Gln Met Gly Asp Gln Leu Asp Asp Thr Pro Leu Phe Glu 545 550 555 560 Leu Asp Gly Val Gly Ala Val Leu Trp Ala Asn Trp Pro Gly Gln Asp 565 570 575 Gly Gly Thr Ala Val Val Arg Leu Leu Ser Gly Ala Glu Ser Pro Ala 580 585 590 Gly Arg Leu Pro Val Thr Gln Tyr Pro Ala Asn Tyr Thr Asp Ala Val 595 600 605 Pro Leu Thr Asp Met Thr Leu Arg Pro Ser Ala Thr Asn Pro Gly Arg 610 615 620 Thr Tyr Arg Trp Tyr Pro Thr Pro Val Arg Pro Phe Gly Phe Gly Leu 625 630 635 640 His Tyr Thr Thr Phe Arg Ala Glu Phe Gly Pro His Pro Phe Phe Pro 645 650 655 Gly Ala Gly Lys Gly Asp Gly Asp Gly Glu Asp Lys Gly Glu Ser Lys 660 665 670 Ser Glu Ile Arg Thr Gln Gln Gln Gln Gln Gln Gln Gln Gln Gln Arg 675 680 685 Arg Ala Ala Ala Ala Ala Thr Thr Pro Ile Arg Asp Leu Leu Arg Asp 690 695 700 Cys Asp Lys Thr Tyr Pro Asp Thr Cys Pro Leu Pro Pro Leu Thr Val 705 710 715 720 Arg Val Thr Asn Glu Gly Glu Arg Ala Ser Asp Tyr Val Val Leu Ala 725 730 735 Phe Val Ser Gly Glu Tyr Gly Pro Ala Pro Tyr Pro Ile Lys Thr Leu 740 745 750 Val Ser Tyr Ala Arg Ala Arg Gly Leu Lys Gly Lys Gly Gly Asp Gly 755 760 765 Asp Gly Asp Gly Asp Gly Ala Thr Thr Thr Val Ser Leu Asp Trp Thr 770 775 780 Val Gly Asn Leu Ala Arg His Asp Glu Arg Gly Asn Thr Ile Leu Tyr 785 790 795 800 Pro Gly Thr Tyr Thr Leu Thr Leu Asp Glu Pro Ala Gln Ala Ser Val 805 810 815 Gln Phe Ala Leu Glu Gly Glu Pro Val Val Leu Asp Glu Trp Pro Ala 820 825 830 Pro Pro Ser Ala Asn Ser Thr Ala Arg Gly Arg His Arg 835 840 845 14837DNAMyceliophthora thermophila 14atggttgctc tctcttctct cctcgtcgct gcctctgcgg cggccgtggc cgtggctgcg 60ccgagcgagg ccctccagaa gcgccagacg ctcacgagca gccagacggg cttccacgac 120ggcttttact actccttctg gaccgacggt gccggcaacg tccggtacac gaacgaggcc 180ggcggccggt acagtgtcac ctggtccggc aacaacggca actgggttgg cggcaagggc 240tggaacccgg gggctgctcg caacatcagc ttcacggggc agtataaccc caacggcaac 300tcgtacctgg ccgtgtacgg gtggacgcgc aacccgctga tcgagtacta catcgtcgag 360aacttcggca cgtacgaccc gtcgacgggg gcgcagcggc tcggcagcat cacggtggac 420gggtcgacgt acaacatcct caagacgacg cgggtcaacc agccgtccat cgagggcacc 480agcacctttg accagttctg gtccgtccgg accaacaagc gcagcagcgg ctccgtcaac 540gtcaaggctc acttcgacgc ttgggcccag gccggcctcc gcctgggcac ccacgactac 600cagatcatgg ccaccgaggg ctacttctcg agcggctccg ccaccatcac cgtcggcgag 660ggcaccagca gcggcggcgg cggcgacaat ggcggcggca acaacggcgg cggcggcaac 720accggcacct gcagcgccct gtacggccag tgcggtggcc aggggtggac gggcccgact 780tgctgctccc agggaacctg ccgcgtctcc aaccagtggt actcgcagtg cttgtaa 83715278PRTMyceliophthora thermophila 15Met Val Ala Leu Ser Ser Leu Leu Val Ala Ala Ser Ala Ala Ala Val 1 5 10 15 Ala Val Ala Ala Pro Ser Glu Ala Leu Gln Lys Arg Gln Thr Leu Thr 20 25 30 Ser Ser Gln Thr Gly Phe His Asp Gly Phe Tyr Tyr Ser Phe Trp Thr 35 40 45 Asp Gly Ala Gly Asn Val Arg Tyr Thr Asn Glu Ala Gly Gly Arg Tyr 50 55 60 Ser Val Thr Trp Ser Gly Asn Asn Gly Asn Trp Val Gly Gly Lys Gly 65 70 75 80 Trp Asn Pro Gly Ala Ala Arg Asn Ile Ser Phe Thr Gly Gln Tyr Asn 85 90 95 Pro Asn Gly Asn Ser Tyr Leu Ala Val Tyr Gly Trp Thr Arg Asn Pro 100 105 110 Leu Ile Glu Tyr Tyr Ile Val Glu Asn Phe Gly Thr Tyr Asp Pro Ser 115 120 125 Thr Gly Ala Gln Arg Leu Gly

Ser Ile Thr Val Asp Gly Ser Thr Tyr 130 135 140 Asn Ile Leu Lys Thr Thr Arg Val Asn Gln Pro Ser Ile Glu Gly Thr 145 150 155 160 Ser Thr Phe Asp Gln Phe Trp Ser Val Arg Thr Asn Lys Arg Ser Ser 165 170 175 Gly Ser Val Asn Val Lys Ala His Phe Asp Ala Trp Ala Gln Ala Gly 180 185 190 Leu Arg Leu Gly Thr His Asp Tyr Gln Ile Met Ala Thr Glu Gly Tyr 195 200 205 Phe Ser Ser Gly Ser Ala Thr Ile Thr Val Gly Glu Gly Thr Ser Ser 210 215 220 Gly Gly Gly Gly Asp Asn Gly Gly Gly Asn Asn Gly Gly Gly Gly Asn 225 230 235 240 Thr Gly Thr Cys Ser Ala Leu Tyr Gly Gln Cys Gly Gly Gln Gly Trp 245 250 255 Thr Gly Pro Thr Cys Cys Ser Gln Gly Thr Cys Arg Val Ser Asn Gln 260 265 270 Trp Tyr Ser Gln Cys Leu 275 16259PRTMyceliophthora thermophila 16Ala Pro Ser Glu Ala Leu Gln Lys Arg Gln Thr Leu Thr Ser Ser Gln 1 5 10 15 Thr Gly Phe His Asp Gly Phe Tyr Tyr Ser Phe Trp Thr Asp Gly Ala 20 25 30 Gly Asn Val Arg Tyr Thr Asn Glu Ala Gly Gly Arg Tyr Ser Val Thr 35 40 45 Trp Ser Gly Asn Asn Gly Asn Trp Val Gly Gly Lys Gly Trp Asn Pro 50 55 60 Gly Ala Ala Arg Asn Ile Ser Phe Thr Gly Gln Tyr Asn Pro Asn Gly 65 70 75 80 Asn Ser Tyr Leu Ala Val Tyr Gly Trp Thr Arg Asn Pro Leu Ile Glu 85 90 95 Tyr Tyr Ile Val Glu Asn Phe Gly Thr Tyr Asp Pro Ser Thr Gly Ala 100 105 110 Gln Arg Leu Gly Ser Ile Thr Val Asp Gly Ser Thr Tyr Asn Ile Leu 115 120 125 Lys Thr Thr Arg Val Asn Gln Pro Ser Ile Glu Gly Thr Ser Thr Phe 130 135 140 Asp Gln Phe Trp Ser Val Arg Thr Asn Lys Arg Ser Ser Gly Ser Val 145 150 155 160 Asn Val Lys Ala His Phe Asp Ala Trp Ala Gln Ala Gly Leu Arg Leu 165 170 175 Gly Thr His Asp Tyr Gln Ile Met Ala Thr Glu Gly Tyr Phe Ser Ser 180 185 190 Gly Ser Ala Thr Ile Thr Val Gly Glu Gly Thr Ser Ser Gly Gly Gly 195 200 205 Gly Asp Asn Gly Gly Gly Asn Asn Gly Gly Gly Gly Asn Thr Gly Thr 210 215 220 Cys Ser Ala Leu Tyr Gly Gln Cys Gly Gly Gln Gly Trp Thr Gly Pro 225 230 235 240 Thr Cys Cys Ser Gln Gly Thr Cys Arg Val Ser Asn Gln Trp Tyr Ser 245 250 255 Gln Cys Leu 17981DNAMyceliophthora thermophila 17atgaaggcca atctcctggt cctcgcgccg ctggccgtct cggcagcgcc cgcgctcgag 60caccgccagg caactgagag catcgacgcg ctcattaagg ccaagggcaa gctctacttt 120ggcacctgta ccgaccaggg ccggctgacg tcgggcaaga acgcggacat catcagggcc 180aacttcggcc aggtgacgcc cgagaacagc atgaagtggc agagcatcga gccatcgcgg 240ggtcagttca cctggggcca ggctgactac ctcgtcgact gggccactca gaacaacaag 300accatccgcg gccacacgct cgtctggcac tcgcagctcg ccggctacgt tcagcagatc 360ggcgaccgga acaccttgac ccagaccatc caggaccaca ttgccgccgt catgggccgc 420tacaagggca agatctacgc ctgggatgtc atcaacgaga tgttcaacga ggatggctcg 480cttcgcagca gcgtcttctc caacgtcctc ggagaggact ttgttgggat cgccttcaag 540gcggcgcgcg aggccgaccc cgacaccaag ttgtacatca acgactacaa cctcgacagc 600cccaactacg ccaagctgac caacggcatg gtcgctcacg tcaagaagtg gctcgcggcc 660ggcatcccca tcgacggcat cggcacccag ggtcacctgc agtctggcca gggttccggt 720cttgcgcagg ccatcaaggc tctcgcccag gctggcgtcg aggaggttgc cgtcaccgag 780ctcgatatcc agaaccagaa caccaacgac tacactgccg ttgtccaggg ctgcttggac 840gagcccaagt gcgtcggtat caccgtctgg ggtgtccgcg atcccgactc gtggcgtccc 900cagggcaacc ccttgctctt cgacagcaac ttcaacccca aggcgaacta caatgccatc 960gtccagctcc tcaagcagta g 98118326PRTMyceliophthora thermophila 18Met Lys Ala Asn Leu Leu Val Leu Ala Pro Leu Ala Val Ser Ala Ala 1 5 10 15 Pro Ala Leu Glu His Arg Gln Ala Thr Glu Ser Ile Asp Ala Leu Ile 20 25 30 Lys Ala Lys Gly Lys Leu Tyr Phe Gly Thr Cys Thr Asp Gln Gly Arg 35 40 45 Leu Thr Ser Gly Lys Asn Ala Asp Ile Ile Arg Ala Asn Phe Gly Gln 50 55 60 Val Thr Pro Glu Asn Ser Met Lys Trp Gln Ser Ile Glu Pro Ser Arg 65 70 75 80 Gly Gln Phe Thr Trp Gly Gln Ala Asp Tyr Leu Val Asp Trp Ala Thr 85 90 95 Gln Asn Asn Lys Thr Ile Arg Gly His Thr Leu Val Trp His Ser Gln 100 105 110 Leu Ala Gly Tyr Val Gln Gln Ile Gly Asp Arg Asn Thr Leu Thr Gln 115 120 125 Thr Ile Gln Asp His Ile Ala Ala Val Met Gly Arg Tyr Lys Gly Lys 130 135 140 Ile Tyr Ala Trp Asp Val Ile Asn Glu Met Phe Asn Glu Asp Gly Ser 145 150 155 160 Leu Arg Ser Ser Val Phe Ser Asn Val Leu Gly Glu Asp Phe Val Gly 165 170 175 Ile Ala Phe Lys Ala Ala Arg Glu Ala Asp Pro Asp Thr Lys Leu Tyr 180 185 190 Ile Asn Asp Tyr Asn Leu Asp Ser Pro Asn Tyr Ala Lys Leu Thr Asn 195 200 205 Gly Met Val Ala His Val Lys Lys Trp Leu Ala Ala Gly Ile Pro Ile 210 215 220 Asp Gly Ile Gly Thr Gln Gly His Leu Gln Ser Gly Gln Gly Ser Gly 225 230 235 240 Leu Ala Gln Ala Ile Lys Ala Leu Ala Gln Ala Gly Val Glu Glu Val 245 250 255 Ala Val Thr Glu Leu Asp Ile Gln Asn Gln Asn Thr Asn Asp Tyr Thr 260 265 270 Ala Val Val Gln Gly Cys Leu Asp Glu Pro Lys Cys Val Gly Ile Thr 275 280 285 Val Trp Gly Val Arg Asp Pro Asp Ser Trp Arg Pro Gln Gly Asn Pro 290 295 300 Leu Leu Phe Asp Ser Asn Phe Asn Pro Lys Ala Asn Tyr Asn Ala Ile 305 310 315 320 Val Gln Leu Leu Lys Gln 325 19311PRTMyceliophthora thermophila 19Ala Pro Ala Leu Glu His Arg Gln Ala Thr Glu Ser Ile Asp Ala Leu 1 5 10 15 Ile Lys Ala Lys Gly Lys Leu Tyr Phe Gly Thr Cys Thr Asp Gln Gly 20 25 30 Arg Leu Thr Ser Gly Lys Asn Ala Asp Ile Ile Arg Ala Asn Phe Gly 35 40 45 Gln Val Thr Pro Glu Asn Ser Met Lys Trp Gln Ser Ile Glu Pro Ser 50 55 60 Arg Gly Gln Phe Thr Trp Gly Gln Ala Asp Tyr Leu Val Asp Trp Ala 65 70 75 80 Thr Gln Asn Asn Lys Thr Ile Arg Gly His Thr Leu Val Trp His Ser 85 90 95 Gln Leu Ala Gly Tyr Val Gln Gln Ile Gly Asp Arg Asn Thr Leu Thr 100 105 110 Gln Thr Ile Gln Asp His Ile Ala Ala Val Met Gly Arg Tyr Lys Gly 115 120 125 Lys Ile Tyr Ala Trp Asp Val Ile Asn Glu Met Phe Asn Glu Asp Gly 130 135 140 Ser Leu Arg Ser Ser Val Phe Ser Asn Val Leu Gly Glu Asp Phe Val 145 150 155 160 Gly Ile Ala Phe Lys Ala Ala Arg Glu Ala Asp Pro Asp Thr Lys Leu 165 170 175 Tyr Ile Asn Asp Tyr Asn Leu Asp Ser Pro Asn Tyr Ala Lys Leu Thr 180 185 190 Asn Gly Met Val Ala His Val Lys Lys Trp Leu Ala Ala Gly Ile Pro 195 200 205 Ile Asp Gly Ile Gly Thr Gln Gly His Leu Gln Ser Gly Gln Gly Ser 210 215 220 Gly Leu Ala Gln Ala Ile Lys Ala Leu Ala Gln Ala Gly Val Glu Glu 225 230 235 240 Val Ala Val Thr Glu Leu Asp Ile Gln Asn Gln Asn Thr Asn Asp Tyr 245 250 255 Thr Ala Val Val Gln Gly Cys Leu Asp Glu Pro Lys Cys Val Gly Ile 260 265 270 Thr Val Trp Gly Val Arg Asp Pro Asp Ser Trp Arg Pro Gln Gly Asn 275 280 285 Pro Leu Leu Phe Asp Ser Asn Phe Asn Pro Lys Ala Asn Tyr Asn Ala 290 295 300 Ile Val Gln Leu Leu Lys Gln 305 310 20669DNAArtificial sequenceSynthetic polynucleotide 20atggtcaagc tctctctcat cgcagcgagc cttgtggcac ctagcgtgct tgcgggtcct 60ctcatcggcc ccaagacgca aaccgagagc cagctgaacc cgcgtcaagg cggctacaac 120tacttccaga attggtccga gggaggcagc aatatccgct gcaacaacgg ccctgggggt 180tcctacacgg ccgactggaa cagcaggggc ggcttcgtct gtggcaaggg ctggagctat 240ggaggcaatc gcgccatcac gtacaccggc gaatacaacg ccagcggccc cggctacctc 300gccgtctacg ggtggacccg caacccgctg attgaatact acatcatcga ggcccatgcc 360gacctcgccc ccaacgagcc gtggacatcc aagggtaatt tcagcttcga ggagggcgag 420tacgaggtct tcaccagcac ccgcgtcaac aagccgtcca tcgagggcac caggactttt 480cagcagtact ggtcgctgcg caaggagcag cgggtcggcg gcaccgtcac cacccagagg 540cactttgaag agtgggccaa gctgggcatg aagctgggca atcatgacta tgtcatcctg 600gcgaccgaag gatacactgc caacggagga tccggtagca gcgggcactc gagcattact 660ctgcagtag 66921222PRTArtificial sequenceSynthetic polypeptide 21Met Val Lys Leu Ser Leu Ile Ala Ala Ser Leu Val Ala Pro Ser Val 1 5 10 15 Leu Ala Gly Pro Leu Ile Gly Pro Lys Thr Gln Thr Glu Ser Gln Leu 20 25 30 Asn Pro Arg Gln Gly Gly Tyr Asn Tyr Phe Gln Asn Trp Ser Glu Gly 35 40 45 Gly Ser Asn Ile Arg Cys Asn Asn Gly Pro Gly Gly Ser Tyr Thr Ala 50 55 60 Asp Trp Asn Ser Arg Gly Gly Phe Val Cys Gly Lys Gly Trp Ser Tyr 65 70 75 80 Gly Gly Asn Arg Ala Ile Thr Tyr Thr Gly Glu Tyr Asn Ala Ser Gly 85 90 95 Pro Gly Tyr Leu Ala Val Tyr Gly Trp Thr Arg Asn Pro Leu Ile Glu 100 105 110 Tyr Tyr Ile Ile Glu Ala His Ala Asp Leu Ala Pro Asn Glu Pro Trp 115 120 125 Thr Ser Lys Gly Asn Phe Ser Phe Glu Glu Gly Glu Tyr Glu Val Phe 130 135 140 Thr Ser Thr Arg Val Asn Lys Pro Ser Ile Glu Gly Thr Arg Thr Phe 145 150 155 160 Gln Gln Tyr Trp Ser Leu Arg Lys Glu Gln Arg Val Gly Gly Thr Val 165 170 175 Thr Thr Gln Arg His Phe Glu Glu Trp Ala Lys Leu Gly Met Lys Leu 180 185 190 Gly Asn His Asp Tyr Val Ile Leu Ala Thr Glu Gly Tyr Thr Ala Asn 195 200 205 Gly Gly Ser Gly Ser Ser Gly His Ser Ser Ile Thr Leu Gln 210 215 220 22204PRTArtificial sequenceSynthetic polypeptide 22Gly Pro Leu Ile Gly Pro Lys Thr Gln Thr Glu Ser Gln Leu Asn Pro 1 5 10 15 Arg Gln Gly Gly Tyr Asn Tyr Phe Gln Asn Trp Ser Glu Gly Gly Ser 20 25 30 Asn Ile Arg Cys Asn Asn Gly Pro Gly Gly Ser Tyr Thr Ala Asp Trp 35 40 45 Asn Ser Arg Gly Gly Phe Val Cys Gly Lys Gly Trp Ser Tyr Gly Gly 50 55 60 Asn Arg Ala Ile Thr Tyr Thr Gly Glu Tyr Asn Ala Ser Gly Pro Gly 65 70 75 80 Tyr Leu Ala Val Tyr Gly Trp Thr Arg Asn Pro Leu Ile Glu Tyr Tyr 85 90 95 Ile Ile Glu Ala His Ala Asp Leu Ala Pro Asn Glu Pro Trp Thr Ser 100 105 110 Lys Gly Asn Phe Ser Phe Glu Glu Gly Glu Tyr Glu Val Phe Thr Ser 115 120 125 Thr Arg Val Asn Lys Pro Ser Ile Glu Gly Thr Arg Thr Phe Gln Gln 130 135 140 Tyr Trp Ser Leu Arg Lys Glu Gln Arg Val Gly Gly Thr Val Thr Thr 145 150 155 160 Gln Arg His Phe Glu Glu Trp Ala Lys Leu Gly Met Lys Leu Gly Asn 165 170 175 His Asp Tyr Val Ile Leu Ala Thr Glu Gly Tyr Thr Ala Asn Gly Gly 180 185 190 Ser Gly Ser Ser Gly His Ser Ser Ile Thr Leu Gln 195 200 23657DNAArtificial sequenceSynthetic polynucleotide 23atggtctcgt tcactctcct cctcacggtc atcgccgctg cggtgacgac ggccagccct 60ctcgaggtgg tcaagcgcgg catccagccg ggcacgggca cccacgaggg gtacttctac 120tcgttctgga ccgacggccg tggctcggtc gacttcaacc ccgggccccg cggctcgtac 180agcgtcacct ggaacaacgt caacaactgg gttggcggca agggctggaa cccgggcccg 240ccgcgcaaga ttgcgtacaa cggcacctgg aacaactaca acgtgaacag ctacctcgcc 300ctgtacggct ggactcgcaa cccgctggtc gagtattaca tcgtggaggc atacggcacg 360tacaacccct cgtcgggcac ggcgcggctg ggcaccatcg aggacgacgg cggcgtgtac 420gacatctaca agacgacgcg gtacaaccag ccgtccatcg aggggacctc caccttcgac 480cagtactggt ccgtccgccg ccagaagcgc gtcggcggca ctatcgacac gggcaagcac 540tttgacgagt ggaagcgcca gggcaacctc cagctcggca cctggaacta catgatcatg 600gccaccgagg gctaccagag ctctggttcg gccactatcg aggtccggga ggcctaa 65724218PRTArtificial sequenceSynthetic polypeptide 24Met Val Ser Phe Thr Leu Leu Leu Thr Val Ile Ala Ala Ala Val Thr 1 5 10 15 Thr Ala Ser Pro Leu Glu Val Val Lys Arg Gly Ile Gln Pro Gly Thr 20 25 30 Gly Thr His Glu Gly Tyr Phe Tyr Ser Phe Trp Thr Asp Gly Arg Gly 35 40 45 Ser Val Asp Phe Asn Pro Gly Pro Arg Gly Ser Tyr Ser Val Thr Trp 50 55 60 Asn Asn Val Asn Asn Trp Val Gly Gly Lys Gly Trp Asn Pro Gly Pro 65 70 75 80 Pro Arg Lys Ile Ala Tyr Asn Gly Thr Trp Asn Asn Tyr Asn Val Asn 85 90 95 Ser Tyr Leu Ala Leu Tyr Gly Trp Thr Arg Asn Pro Leu Val Glu Tyr 100 105 110 Tyr Ile Val Glu Ala Tyr Gly Thr Tyr Asn Pro Ser Ser Gly Thr Ala 115 120 125 Arg Leu Gly Thr Ile Glu Asp Asp Gly Gly Val Tyr Asp Ile Tyr Lys 130 135 140 Thr Thr Arg Tyr Asn Gln Pro Ser Ile Glu Gly Thr Ser Thr Phe Asp 145 150 155 160 Gln Tyr Trp Ser Val Arg Arg Gln Lys Arg Val Gly Gly Thr Ile Asp 165 170 175 Thr Gly Lys His Phe Asp Glu Trp Lys Arg Gln Gly Asn Leu Gln Leu 180 185 190 Gly Thr Trp Asn Tyr Met Ile Met Ala Thr Glu Gly Tyr Gln Ser Ser 195 200 205 Gly Ser Ala Thr Ile Glu Val Arg Glu Ala 210 215 25200PRTArtificial sequenceSynthetic polypeptide 25Ser Pro Leu Glu Val Val Lys Arg Gly Ile Gln Pro Gly Thr Gly Thr 1 5 10 15 His Glu Gly Tyr Phe Tyr Ser Phe Trp Thr Asp Gly Arg Gly Ser Val 20 25 30 Asp Phe Asn Pro Gly Pro Arg Gly Ser Tyr Ser Val Thr Trp Asn Asn 35 40 45 Val Asn Asn Trp Val Gly Gly Lys Gly Trp Asn Pro Gly Pro Pro Arg 50 55 60 Lys Ile Ala Tyr Asn Gly Thr Trp Asn Asn Tyr Asn Val Asn Ser Tyr 65 70 75 80 Leu Ala Leu Tyr Gly Trp Thr Arg Asn Pro Leu Val Glu Tyr Tyr Ile 85 90 95 Val Glu Ala Tyr Gly Thr Tyr Asn Pro Ser Ser Gly Thr Ala Arg Leu 100 105 110 Gly Thr Ile Glu Asp Asp Gly Gly Val Tyr Asp Ile Tyr Lys Thr Thr 115 120 125 Arg Tyr Asn Gln Pro Ser Ile Glu Gly Thr Ser Thr Phe Asp Gln Tyr 130 135 140 Trp Ser Val Arg Arg Gln Lys Arg Val Gly Gly Thr Ile Asp Thr Gly 145 150 155 160 Lys His Phe Asp Glu Trp Lys Arg Gln Gly Asn Leu Gln Leu Gly Thr 165 170 175 Trp Asn Tyr Met Ile Met Ala Thr Glu Gly Tyr Gln Ser Ser Gly Ser 180 185

190 Ala Thr Ile Glu Val Arg Glu Ala 195 200 26687DNAMyceliophthora thermophila 26atggtctcgc tcaagtccct cctcctcgcc gcggcggcga cgttgacggc ggtgacggcg 60cgcccgttcg actttgacga cggcaactcg accgaggcgc tggccaagcg ccaggtcacg 120cccaacgcgc agggctacca ctcgggctac ttctactcgt ggtggtccga cggcggcggc 180caggccacct tcaccctgct cgagggcagc cactaccagg tcaactggag gaacacgggc 240aactttgtcg gtggcaaggg ctggaacccg ggtaccggcc ggaccatcaa ctacggcggc 300tcgttcaacc cgagcggcaa cggctacctg gccgtctacg gctggacgca caacccgctg 360atcgagtact acgtggtcga gtcgtacggg acctacaacc cgggcagcca ggcccagtac 420aagggcagct tccagagcga cggcggcacc tacaacatct acgtctcgac ccgctacaac 480gcgccctcga tcgagggcac ccgcaccttc cagcagtact ggtccatccg cacctccaag 540cgcgtcggcg gctccgtcac catgcagaac cacttcaacg cctgggccca gcacggcatg 600cccctcggct cccacgacta ccagatcgtc gccaccgagg gctaccagag cagcggctcc 660tccgacatct acgtccagac tcactag 68727228PRTMyceliophthora thermophila 27Met Val Ser Leu Lys Ser Leu Leu Leu Ala Ala Ala Ala Thr Leu Thr 1 5 10 15 Ala Val Thr Ala Arg Pro Phe Asp Phe Asp Asp Gly Asn Ser Thr Glu 20 25 30 Ala Leu Ala Lys Arg Gln Val Thr Pro Asn Ala Gln Gly Tyr His Ser 35 40 45 Gly Tyr Phe Tyr Ser Trp Trp Ser Asp Gly Gly Gly Gln Ala Thr Phe 50 55 60 Thr Leu Leu Glu Gly Ser His Tyr Gln Val Asn Trp Arg Asn Thr Gly 65 70 75 80 Asn Phe Val Gly Gly Lys Gly Trp Asn Pro Gly Thr Gly Arg Thr Ile 85 90 95 Asn Tyr Gly Gly Ser Phe Asn Pro Ser Gly Asn Gly Tyr Leu Ala Val 100 105 110 Tyr Gly Trp Thr His Asn Pro Leu Ile Glu Tyr Tyr Val Val Glu Ser 115 120 125 Tyr Gly Thr Tyr Asn Pro Gly Ser Gln Ala Gln Tyr Lys Gly Ser Phe 130 135 140 Gln Ser Asp Gly Gly Thr Tyr Asn Ile Tyr Val Ser Thr Arg Tyr Asn 145 150 155 160 Ala Pro Ser Ile Glu Gly Thr Arg Thr Phe Gln Gln Tyr Trp Ser Ile 165 170 175 Arg Thr Ser Lys Arg Val Gly Gly Ser Val Thr Met Gln Asn His Phe 180 185 190 Asn Ala Trp Ala Gln His Gly Met Pro Leu Gly Ser His Asp Tyr Gln 195 200 205 Ile Val Ala Thr Glu Gly Tyr Gln Ser Ser Gly Ser Ser Asp Ile Tyr 210 215 220 Val Gln Thr His 225 28208PRTMyceliophthora thermophila 28Arg Pro Phe Asp Phe Asp Asp Gly Asn Ser Thr Glu Ala Leu Ala Lys 1 5 10 15 Arg Gln Val Thr Pro Asn Ala Gln Gly Tyr His Ser Gly Tyr Phe Tyr 20 25 30 Ser Trp Trp Ser Asp Gly Gly Gly Gln Ala Thr Phe Thr Leu Leu Glu 35 40 45 Gly Ser His Tyr Gln Val Asn Trp Arg Asn Thr Gly Asn Phe Val Gly 50 55 60 Gly Lys Gly Trp Asn Pro Gly Thr Gly Arg Thr Ile Asn Tyr Gly Gly 65 70 75 80 Ser Phe Asn Pro Ser Gly Asn Gly Tyr Leu Ala Val Tyr Gly Trp Thr 85 90 95 His Asn Pro Leu Ile Glu Tyr Tyr Val Val Glu Ser Tyr Gly Thr Tyr 100 105 110 Asn Pro Gly Ser Gln Ala Gln Tyr Lys Gly Ser Phe Gln Ser Asp Gly 115 120 125 Gly Thr Tyr Asn Ile Tyr Val Ser Thr Arg Tyr Asn Ala Pro Ser Ile 130 135 140 Glu Gly Thr Arg Thr Phe Gln Gln Tyr Trp Ser Ile Arg Thr Ser Lys 145 150 155 160 Arg Val Gly Gly Ser Val Thr Met Gln Asn His Phe Asn Ala Trp Ala 165 170 175 Gln His Gly Met Pro Leu Gly Ser His Asp Tyr Gln Ile Val Ala Thr 180 185 190 Glu Gly Tyr Gln Ser Ser Gly Ser Ser Asp Ile Tyr Val Gln Thr His 195 200 205 292283DNAMyceliophthora thermophila 29atggccttcc tttcctcctt tgcccttgcc gccctcgggg cactcgtcgt cccggcgagg 60ggcggcgtga cgtacccgga ctgcgcaaac ggaccgctca agtcaaatac ggtgtgcgat 120acgtcggcgt ccccgggagc ccgagccgct gctcttgtga gtgtaatgaa caacaacgaa 180aaacttgcaa atcttgtcaa caattcgccc ggcgtctcgc ggctcggcct gagtgcgtac 240cagtggtgga acgaagccct ccacggagta gcccataacc gcggcattac ctggggcggc 300gagttcagcg cggcaaccca gttcccgcag gctatcacga cttccgccac tttcgatgac 360gctttgatcg agcaaatcgg caccattatc agcaccgagg cccgtgcctt tgccaacaat 420gggcgcgctc atctcgactt ctggacgccc aacgtcaacc cgtttcgaga cccgcgatgg 480ggtcgcggac acgagacgcc gggagaggat gcattcaaga ataagaagtg ggccgaggcc 540ttcgtcaagg gcatgcaagg acccggaccg acgcaccgag tcatcgccac atgtaagcac 600tacgccgcct acgacctcga gaactccggg agcacgaccc gattcaactt cgatgcgaag 660gtgtcaactc aagatctcgc cgagtactat ctccctccgt tccaacagtg cgcccgggac 720tctaaggtgg gctccatcat gtgcagctac aatgcggtca atgaaatccc ggcctgcgcg 780aatccttacc tgatggatac catcctgcgg aaacattgga attggaccga cgagcaccag 840tatattgtga gcgactgcga tgccgtgtac tatctcggca atgcgaacgg cggccaccga 900tacaagccga gctatgcggc ggcgatcgga gcatctctcg aggctggttg cgataacatg 960tgctgggcga ccggcggcac cgccccggat cccgcctcag ccttcaattc cggccagttc 1020agccagacga cactggacac ggctattttg cgccagatgc agggcctcgt cctagcggga 1080tactttgacg gtccgggcgg tatgtaccgc aacctgagcg tggcggacgt gaacacgcag 1140accgcccagg acactgcact caaggcggcg gaaggaggca tcgtgctcct caagaacgat 1200gggatccttc cgctgtcggt taacggttcc aatttccagg tcgctatgat cgggttctgg 1260gcgaacgcag ccgacaagat gctcgggggt tacagcggga gcccgccgtt caaccatgat 1320cccgtgaccg ctgcaagatc gatgggcatc acggtcaact acgtcaacgg gccattgacg 1380caacccaacg gggatacgtc ggcagcactc aatgcggccc aaaagtccaa cgcggtggta 1440ttctttggtg gaatcgacaa tacggtggag aaggagagtc aggacagaac gtccatcgag 1500tggccctcag ggcaactggc tctgattcgg aggctagccg aaaccggcaa accagtcatc 1560gtcgtcaggc tcgggacgca cgtcgacgac accccgctcc tcagcattcc gaatgtgaga 1620gccattttgt gggcaggata cccgggtcaa gacggcggga ctgctgtggt gaaaatcatt 1680accggccttg ctagtccggc ggggaggctg cccgccactg tgtatccgtc ttcgtacacc 1740agccaagcgc cctttacaaa catggccctg aggccttctt cgtcctatcc cgggcgaaca 1800taccgctggt acagtaacgc cgtctttcca tttggccacg gcctacatta taccaatttc 1860agtgtctcgg tgcgggactt tccggccagc ttcgcgattg ccgatctcct ggcttcctgc 1920ggggattccg tggcgtatct tgatctttgc cccttcccgt ccgtgtcgct caatgtgacc 1980aatacaggca cccgcgtgtc cgattacgtt gcgcttgggt tcttgtcggg agattttggt 2040cccagcccac atcccatcaa gacattggcg acgtataagc gcgtgtttaa catcgaacct 2100ggggaaacac aggtggccga gctagactgg aagctggaga gcctggtccg ggtagatgag 2160aagggcaaca gggtactcta ccccggaaca tatacgcttc ttgtggatca gccaaccttg 2220gcaaatatca cctttatttt gacaggagaa gaggcagtgt tggatagttg gccgcagccg 2280tga 228330760PRTMyceliophthora thermophila 30Met Ala Phe Leu Ser Ser Phe Ala Leu Ala Ala Leu Gly Ala Leu Val 1 5 10 15 Val Pro Ala Arg Gly Gly Val Thr Tyr Pro Asp Cys Ala Asn Gly Pro 20 25 30 Leu Lys Ser Asn Thr Val Cys Asp Thr Ser Ala Ser Pro Gly Ala Arg 35 40 45 Ala Ala Ala Leu Val Ser Val Met Asn Asn Asn Glu Lys Leu Ala Asn 50 55 60 Leu Val Asn Asn Ser Pro Gly Val Ser Arg Leu Gly Leu Ser Ala Tyr 65 70 75 80 Gln Trp Trp Asn Glu Ala Leu His Gly Val Ala His Asn Arg Gly Ile 85 90 95 Thr Trp Gly Gly Glu Phe Ser Ala Ala Thr Gln Phe Pro Gln Ala Ile 100 105 110 Thr Thr Ser Ala Thr Phe Asp Asp Ala Leu Ile Glu Gln Ile Gly Thr 115 120 125 Ile Ile Ser Thr Glu Ala Arg Ala Phe Ala Asn Asn Gly Arg Ala His 130 135 140 Leu Asp Phe Trp Thr Pro Asn Val Asn Pro Phe Arg Asp Pro Arg Trp 145 150 155 160 Gly Arg Gly His Glu Thr Pro Gly Glu Asp Ala Phe Lys Asn Lys Lys 165 170 175 Trp Ala Glu Ala Phe Val Lys Gly Met Gln Gly Pro Gly Pro Thr His 180 185 190 Arg Val Ile Ala Thr Cys Lys His Tyr Ala Ala Tyr Asp Leu Glu Asn 195 200 205 Ser Gly Ser Thr Thr Arg Phe Asn Phe Asp Ala Lys Val Ser Thr Gln 210 215 220 Asp Leu Ala Glu Tyr Tyr Leu Pro Pro Phe Gln Gln Cys Ala Arg Asp 225 230 235 240 Ser Lys Val Gly Ser Ile Met Cys Ser Tyr Asn Ala Val Asn Glu Ile 245 250 255 Pro Ala Cys Ala Asn Pro Tyr Leu Met Asp Thr Ile Leu Arg Lys His 260 265 270 Trp Asn Trp Thr Asp Glu His Gln Tyr Ile Val Ser Asp Cys Asp Ala 275 280 285 Val Tyr Tyr Leu Gly Asn Ala Asn Gly Gly His Arg Tyr Lys Pro Ser 290 295 300 Tyr Ala Ala Ala Ile Gly Ala Ser Leu Glu Ala Gly Cys Asp Asn Met 305 310 315 320 Cys Trp Ala Thr Gly Gly Thr Ala Pro Asp Pro Ala Ser Ala Phe Asn 325 330 335 Ser Gly Gln Phe Ser Gln Thr Thr Leu Asp Thr Ala Ile Leu Arg Gln 340 345 350 Met Gln Gly Leu Val Leu Ala Gly Tyr Phe Asp Gly Pro Gly Gly Met 355 360 365 Tyr Arg Asn Leu Ser Val Ala Asp Val Asn Thr Gln Thr Ala Gln Asp 370 375 380 Thr Ala Leu Lys Ala Ala Glu Gly Gly Ile Val Leu Leu Lys Asn Asp 385 390 395 400 Gly Ile Leu Pro Leu Ser Val Asn Gly Ser Asn Phe Gln Val Ala Met 405 410 415 Ile Gly Phe Trp Ala Asn Ala Ala Asp Lys Met Leu Gly Gly Tyr Ser 420 425 430 Gly Ser Pro Pro Phe Asn His Asp Pro Val Thr Ala Ala Arg Ser Met 435 440 445 Gly Ile Thr Val Asn Tyr Val Asn Gly Pro Leu Thr Gln Pro Asn Gly 450 455 460 Asp Thr Ser Ala Ala Leu Asn Ala Ala Gln Lys Ser Asn Ala Val Val 465 470 475 480 Phe Phe Gly Gly Ile Asp Asn Thr Val Glu Lys Glu Ser Gln Asp Arg 485 490 495 Thr Ser Ile Glu Trp Pro Ser Gly Gln Leu Ala Leu Ile Arg Arg Leu 500 505 510 Ala Glu Thr Gly Lys Pro Val Ile Val Val Arg Leu Gly Thr His Val 515 520 525 Asp Asp Thr Pro Leu Leu Ser Ile Pro Asn Val Arg Ala Ile Leu Trp 530 535 540 Ala Gly Tyr Pro Gly Gln Asp Gly Gly Thr Ala Val Val Lys Ile Ile 545 550 555 560 Thr Gly Leu Ala Ser Pro Ala Gly Arg Leu Pro Ala Thr Val Tyr Pro 565 570 575 Ser Ser Tyr Thr Ser Gln Ala Pro Phe Thr Asn Met Ala Leu Arg Pro 580 585 590 Ser Ser Ser Tyr Pro Gly Arg Thr Tyr Arg Trp Tyr Ser Asn Ala Val 595 600 605 Phe Pro Phe Gly His Gly Leu His Tyr Thr Asn Phe Ser Val Ser Val 610 615 620 Arg Asp Phe Pro Ala Ser Phe Ala Ile Ala Asp Leu Leu Ala Ser Cys 625 630 635 640 Gly Asp Ser Val Ala Tyr Leu Asp Leu Cys Pro Phe Pro Ser Val Ser 645 650 655 Leu Asn Val Thr Asn Thr Gly Thr Arg Val Ser Asp Tyr Val Ala Leu 660 665 670 Gly Phe Leu Ser Gly Asp Phe Gly Pro Ser Pro His Pro Ile Lys Thr 675 680 685 Leu Ala Thr Tyr Lys Arg Val Phe Asn Ile Glu Pro Gly Glu Thr Gln 690 695 700 Val Ala Glu Leu Asp Trp Lys Leu Glu Ser Leu Val Arg Val Asp Glu 705 710 715 720 Lys Gly Asn Arg Val Leu Tyr Pro Gly Thr Tyr Thr Leu Leu Val Asp 725 730 735 Gln Pro Thr Leu Ala Asn Ile Thr Phe Ile Leu Thr Gly Glu Glu Ala 740 745 750 Val Leu Asp Ser Trp Pro Gln Pro 755 760 31739PRTMyceliophthora thermophila 31Gly Val Thr Tyr Pro Asp Cys Ala Asn Gly Pro Leu Lys Ser Asn Thr 1 5 10 15 Val Cys Asp Thr Ser Ala Ser Pro Gly Ala Arg Ala Ala Ala Leu Val 20 25 30 Ser Val Met Asn Asn Asn Glu Lys Leu Ala Asn Leu Val Asn Asn Ser 35 40 45 Pro Gly Val Ser Arg Leu Gly Leu Ser Ala Tyr Gln Trp Trp Asn Glu 50 55 60 Ala Leu His Gly Val Ala His Asn Arg Gly Ile Thr Trp Gly Gly Glu 65 70 75 80 Phe Ser Ala Ala Thr Gln Phe Pro Gln Ala Ile Thr Thr Ser Ala Thr 85 90 95 Phe Asp Asp Ala Leu Ile Glu Gln Ile Gly Thr Ile Ile Ser Thr Glu 100 105 110 Ala Arg Ala Phe Ala Asn Asn Gly Arg Ala His Leu Asp Phe Trp Thr 115 120 125 Pro Asn Val Asn Pro Phe Arg Asp Pro Arg Trp Gly Arg Gly His Glu 130 135 140 Thr Pro Gly Glu Asp Ala Phe Lys Asn Lys Lys Trp Ala Glu Ala Phe 145 150 155 160 Val Lys Gly Met Gln Gly Pro Gly Pro Thr His Arg Val Ile Ala Thr 165 170 175 Cys Lys His Tyr Ala Ala Tyr Asp Leu Glu Asn Ser Gly Ser Thr Thr 180 185 190 Arg Phe Asn Phe Asp Ala Lys Val Ser Thr Gln Asp Leu Ala Glu Tyr 195 200 205 Tyr Leu Pro Pro Phe Gln Gln Cys Ala Arg Asp Ser Lys Val Gly Ser 210 215 220 Ile Met Cys Ser Tyr Asn Ala Val Asn Glu Ile Pro Ala Cys Ala Asn 225 230 235 240 Pro Tyr Leu Met Asp Thr Ile Leu Arg Lys His Trp Asn Trp Thr Asp 245 250 255 Glu His Gln Tyr Ile Val Ser Asp Cys Asp Ala Val Tyr Tyr Leu Gly 260 265 270 Asn Ala Asn Gly Gly His Arg Tyr Lys Pro Ser Tyr Ala Ala Ala Ile 275 280 285 Gly Ala Ser Leu Glu Ala Gly Cys Asp Asn Met Cys Trp Ala Thr Gly 290 295 300 Gly Thr Ala Pro Asp Pro Ala Ser Ala Phe Asn Ser Gly Gln Phe Ser 305 310 315 320 Gln Thr Thr Leu Asp Thr Ala Ile Leu Arg Gln Met Gln Gly Leu Val 325 330 335 Leu Ala Gly Tyr Phe Asp Gly Pro Gly Gly Met Tyr Arg Asn Leu Ser 340 345 350 Val Ala Asp Val Asn Thr Gln Thr Ala Gln Asp Thr Ala Leu Lys Ala 355 360 365 Ala Glu Gly Gly Ile Val Leu Leu Lys Asn Asp Gly Ile Leu Pro Leu 370 375 380 Ser Val Asn Gly Ser Asn Phe Gln Val Ala Met Ile Gly Phe Trp Ala 385 390 395 400 Asn Ala Ala Asp Lys Met Leu Gly Gly Tyr Ser Gly Ser Pro Pro Phe 405 410 415 Asn His Asp Pro Val Thr Ala Ala Arg Ser Met Gly Ile Thr Val Asn 420 425 430 Tyr Val Asn Gly Pro Leu Thr Gln Pro Asn Gly Asp Thr Ser Ala Ala 435 440 445 Leu Asn Ala Ala Gln Lys Ser Asn Ala Val Val Phe Phe Gly Gly Ile 450 455 460 Asp Asn Thr Val Glu Lys Glu Ser Gln Asp Arg Thr Ser Ile Glu Trp 465 470 475 480 Pro Ser Gly Gln Leu Ala Leu Ile Arg Arg Leu Ala Glu Thr Gly Lys 485 490 495 Pro Val Ile Val Val Arg Leu Gly Thr His Val Asp Asp Thr Pro Leu 500 505 510 Leu Ser Ile Pro Asn Val Arg Ala Ile Leu Trp Ala Gly Tyr Pro Gly 515 520 525 Gln Asp Gly Gly Thr Ala Val Val Lys Ile Ile Thr Gly Leu Ala Ser 530 535 540 Pro Ala Gly Arg Leu Pro Ala Thr Val Tyr Pro Ser Ser Tyr Thr Ser 545 550 555 560 Gln Ala Pro Phe Thr Asn Met Ala Leu Arg Pro Ser Ser Ser Tyr Pro 565 570 575 Gly Arg Thr Tyr Arg Trp Tyr Ser Asn Ala Val Phe Pro Phe Gly His 580 585 590 Gly Leu His Tyr Thr Asn Phe Ser Val Ser Val Arg Asp Phe Pro Ala

595 600 605 Ser Phe Ala Ile Ala Asp Leu Leu Ala Ser Cys Gly Asp Ser Val Ala 610 615 620 Tyr Leu Asp Leu Cys Pro Phe Pro Ser Val Ser Leu Asn Val Thr Asn 625 630 635 640 Thr Gly Thr Arg Val Ser Asp Tyr Val Ala Leu Gly Phe Leu Ser Gly 645 650 655 Asp Phe Gly Pro Ser Pro His Pro Ile Lys Thr Leu Ala Thr Tyr Lys 660 665 670 Arg Val Phe Asn Ile Glu Pro Gly Glu Thr Gln Val Ala Glu Leu Asp 675 680 685 Trp Lys Leu Glu Ser Leu Val Arg Val Asp Glu Lys Gly Asn Arg Val 690 695 700 Leu Tyr Pro Gly Thr Tyr Thr Leu Leu Val Asp Gln Pro Thr Leu Ala 705 710 715 720 Asn Ile Thr Phe Ile Leu Thr Gly Glu Glu Ala Val Leu Asp Ser Trp 725 730 735 Pro Gln Pro 321155DNAArtificial sequenceSynthetic polynucleotide 32atgcgtactc ttacgttcgt gctggcagcc gccccggtgg ctgtgcttgc ccaatctcct 60ctgtggggcc agtgcggcgg tcaaggctgg acaggtccca cgacctgcgt ttctggcgca 120gtatgccaat tcgtcaatga ctggtactcc caatgcgtgc ccggatcgag caaccctcct 180acgggcacca ccagcagcac cactggaagc accccggctc ctactggcgg cggcggcagc 240ggaaccggcc tccacgacaa attcaaggcc aagggcaagc tctacttcgg aaccgagatc 300gatcactacc atctcaacaa caatgccttg accaacattg tcaagaaaga ctttggtcaa 360gtcactcacg agaacagctt gaagtgggat gctactgagc cgagccgcaa tcaattcaac 420tttgccaacg ccgacgcggt tgtcaacttt gcccaggcca acggcaagct catccgcggc 480cacaccctcc tctggcactc tcagctgccg cagtgggtgc agaacatcaa cgaccgcaac 540accttgaccc aggtcatcga gaaccacgtc accacccttg tcactcgcta caagggcaag 600atcctccact gggacgtcgt taacgagatc tttgccgagg acggctcgct ccgcgacagc 660gtcttcagcc gcgtcctcgg cgaggacttt gtcggcatcg ccttccgcgc cgcccgcgcc 720gccgatccca acgccaagct ctacatcaac gactacaacc tcgacattgc caactacgcc 780aaggtgaccc ggggcatggt cgagaaggtc aacaagtgga tcgcccaggg catcccgatc 840gacggcatcg gcacccagtg ccacctggcc gggcccggcg ggtggaacac ggccgccggc 900gtccccgacg ccctcaaggc cctcgccgcg gccaacgtca aggagatcgc catcaccgag 960ctcgacatcg ccggcgcctc cgccaacgac tacctcaccg tcatgaacgc ctgcctccag 1020gtctccaagt gcgtcggcat caccgtctgg ggcgtctctg acaaggacag ctggaggtcg 1080agcagcaacc cgctcctctt cgacagcaac taccagccaa aggcggcata caatgctctg 1140attaatgcct tgtaa 115533384PRTMyceliophthora thermophila 33Met Arg Thr Leu Thr Phe Val Leu Ala Ala Ala Pro Val Ala Val Leu 1 5 10 15 Ala Gln Ser Pro Leu Trp Gly Gln Cys Gly Gly Gln Gly Trp Thr Gly 20 25 30 Pro Thr Thr Cys Val Ser Gly Ala Val Cys Gln Phe Val Asn Asp Trp 35 40 45 Tyr Ser Gln Cys Val Pro Gly Ser Ser Asn Pro Pro Thr Gly Thr Thr 50 55 60 Ser Ser Thr Thr Gly Ser Thr Pro Ala Pro Thr Gly Gly Gly Gly Ser 65 70 75 80 Gly Thr Gly Leu His Asp Lys Phe Lys Ala Lys Gly Lys Leu Tyr Phe 85 90 95 Gly Thr Glu Ile Asp His Tyr His Leu Asn Asn Asn Ala Leu Thr Asn 100 105 110 Ile Val Lys Lys Asp Phe Gly Gln Val Thr His Glu Asn Ser Leu Lys 115 120 125 Trp Asp Ala Thr Glu Pro Ser Arg Asn Gln Phe Asn Phe Ala Asn Ala 130 135 140 Asp Ala Val Val Asn Phe Ala Gln Ala Asn Gly Lys Leu Ile Arg Gly 145 150 155 160 His Thr Leu Leu Trp His Ser Gln Leu Pro Gln Trp Val Gln Asn Ile 165 170 175 Asn Asp Arg Asn Thr Leu Thr Gln Val Ile Glu Asn His Val Thr Thr 180 185 190 Leu Val Thr Arg Tyr Lys Gly Lys Ile Leu His Trp Asp Val Val Asn 195 200 205 Glu Ile Phe Ala Glu Asp Gly Ser Leu Arg Asp Ser Val Phe Ser Arg 210 215 220 Val Leu Gly Glu Asp Phe Val Gly Ile Ala Phe Arg Ala Ala Arg Ala 225 230 235 240 Ala Asp Pro Asn Ala Lys Leu Tyr Ile Asn Asp Tyr Asn Leu Asp Ile 245 250 255 Ala Asn Tyr Ala Lys Val Thr Arg Gly Met Val Glu Lys Val Asn Lys 260 265 270 Trp Ile Ala Gln Gly Ile Pro Ile Asp Gly Ile Gly Thr Gln Cys His 275 280 285 Leu Ala Gly Pro Gly Gly Trp Asn Thr Ala Ala Gly Val Pro Asp Ala 290 295 300 Leu Lys Ala Leu Ala Ala Ala Asn Val Lys Glu Ile Ala Ile Thr Glu 305 310 315 320 Leu Asp Ile Ala Gly Ala Ser Ala Asn Asp Tyr Leu Thr Val Met Asn 325 330 335 Ala Cys Leu Gln Val Ser Lys Cys Val Gly Ile Thr Val Trp Gly Val 340 345 350 Ser Asp Lys Asp Ser Trp Arg Ser Ser Ser Asn Pro Leu Leu Phe Asp 355 360 365 Ser Asn Tyr Gln Pro Lys Ala Ala Tyr Asn Ala Leu Ile Asn Ala Leu 370 375 380 34367PRTMyceliophthora thermophila 34Gln Ser Pro Leu Trp Gly Gln Cys Gly Gly Gln Gly Trp Thr Gly Pro 1 5 10 15 Thr Thr Cys Val Ser Gly Ala Val Cys Gln Phe Val Asn Asp Trp Tyr 20 25 30 Ser Gln Cys Val Pro Gly Ser Ser Asn Pro Pro Thr Gly Thr Thr Ser 35 40 45 Ser Thr Thr Gly Ser Thr Pro Ala Pro Thr Gly Gly Gly Gly Ser Gly 50 55 60 Thr Gly Leu His Asp Lys Phe Lys Ala Lys Gly Lys Leu Tyr Phe Gly 65 70 75 80 Thr Glu Ile Asp His Tyr His Leu Asn Asn Asn Ala Leu Thr Asn Ile 85 90 95 Val Lys Lys Asp Phe Gly Gln Val Thr His Glu Asn Ser Leu Lys Trp 100 105 110 Asp Ala Thr Glu Pro Ser Arg Asn Gln Phe Asn Phe Ala Asn Ala Asp 115 120 125 Ala Val Val Asn Phe Ala Gln Ala Asn Gly Lys Leu Ile Arg Gly His 130 135 140 Thr Leu Leu Trp His Ser Gln Leu Pro Gln Trp Val Gln Asn Ile Asn 145 150 155 160 Asp Arg Asn Thr Leu Thr Gln Val Ile Glu Asn His Val Thr Thr Leu 165 170 175 Val Thr Arg Tyr Lys Gly Lys Ile Leu His Trp Asp Val Val Asn Glu 180 185 190 Ile Phe Ala Glu Asp Gly Ser Leu Arg Asp Ser Val Phe Ser Arg Val 195 200 205 Leu Gly Glu Asp Phe Val Gly Ile Ala Phe Arg Ala Ala Arg Ala Ala 210 215 220 Asp Pro Asn Ala Lys Leu Tyr Ile Asn Asp Tyr Asn Leu Asp Ile Ala 225 230 235 240 Asn Tyr Ala Lys Val Thr Arg Gly Met Val Glu Lys Val Asn Lys Trp 245 250 255 Ile Ala Gln Gly Ile Pro Ile Asp Gly Ile Gly Thr Gln Cys His Leu 260 265 270 Ala Gly Pro Gly Gly Trp Asn Thr Ala Ala Gly Val Pro Asp Ala Leu 275 280 285 Lys Ala Leu Ala Ala Ala Asn Val Lys Glu Ile Ala Ile Thr Glu Leu 290 295 300 Asp Ile Ala Gly Ala Ser Ala Asn Asp Tyr Leu Thr Val Met Asn Ala 305 310 315 320 Cys Leu Gln Val Ser Lys Cys Val Gly Ile Thr Val Trp Gly Val Ser 325 330 335 Asp Lys Asp Ser Trp Arg Ser Ser Ser Asn Pro Leu Leu Phe Asp Ser 340 345 350 Asn Tyr Gln Pro Lys Ala Ala Tyr Asn Ala Leu Ile Asn Ala Leu 355 360 365 351128DNAMyceliophthora thermophila 35atgcatctct cctcgtctct cctcctcctc gccgccttgc ccctgggcat cgccggcaag 60ggcaagggcc acggccacgg cccccatacc gggctccaca ccctcgccaa gcaggccggc 120ctcaagtact tcggctctgc caccgactct cccggccagc gtgagcgcgc cggctacgag 180gacaagtacg cccagtacga ccagatcatg tggaagtcgg gcgagttcgg cctgacgacc 240ccgaccaacg gccaaaagtg gctgtttact gagcccgagc gtggcgtgtt caacttcacc 300gagggtgaca tcgtgacgaa cctggcccgg aagcacggtt tcatgcagcg gtgccacgcg 360ctcgtctggc acagccagct cgccccttgg gtcgagtcga ccgagtggac gcccgaggag 420ctgcgccagg tcattgtcaa ccacatcacc cacgtggccg gctactacaa gggcaagtgc 480tatgcctggg acgtcgtcaa cgaggccctg aacgaggacg gcacctaccg cgagtccgtc 540ttctacaagg tgctcggcga ggactacatc aagctggcct tcgagacggc cgccaaggtc 600gacccccacg ccaagctcta ctacaacgac tacaacctcg agtcccccag cgccaagacc 660gagggcgcca agcgcatcgt caagatgctc aaggacgccg gcatccgcat cgacggcgtc 720ggcctgcagg cccacctcgt cgccgagagc cacccgaccc tcgacgagca catcgatgcc 780atcaagggct tcaccgagct cggcgtcgag gtcgccctga ccgagctcga catccgcctc 840tccatcccgg ccaacgccac caacctcgcc cagcagaggg aggcgtacaa gaacgtcgtc 900ggcgcttgcg tccaggttcg cggctgcatt ggcgtggaga tctgggactt ctatgacccc 960ttcagctggg tccctgccac cttccccggc cagggcgccc ccctgctctg gttcgaggac 1020ttttccaagc accccgccta cgacggcgtc gtcgaggccc tgaccaacag gaccacgggc 1080gggtgcaagg gcaagggcaa gggcaagggc aaggtttgga aggcctaa 112836375PRTMyceliophthora thermophila 36Met His Leu Ser Ser Ser Leu Leu Leu Leu Ala Ala Leu Pro Leu Gly 1 5 10 15 Ile Ala Gly Lys Gly Lys Gly His Gly His Gly Pro His Thr Gly Leu 20 25 30 His Thr Leu Ala Lys Gln Ala Gly Leu Lys Tyr Phe Gly Ser Ala Thr 35 40 45 Asp Ser Pro Gly Gln Arg Glu Arg Ala Gly Tyr Glu Asp Lys Tyr Ala 50 55 60 Gln Tyr Asp Gln Ile Met Trp Lys Ser Gly Glu Phe Gly Leu Thr Thr 65 70 75 80 Pro Thr Asn Gly Gln Lys Trp Leu Phe Thr Glu Pro Glu Arg Gly Val 85 90 95 Phe Asn Phe Thr Glu Gly Asp Ile Val Thr Asn Leu Ala Arg Lys His 100 105 110 Gly Phe Met Gln Arg Cys His Ala Leu Val Trp His Ser Gln Leu Ala 115 120 125 Pro Trp Val Glu Ser Thr Glu Trp Thr Pro Glu Glu Leu Arg Gln Val 130 135 140 Ile Val Asn His Ile Thr His Val Ala Gly Tyr Tyr Lys Gly Lys Cys 145 150 155 160 Tyr Ala Trp Asp Val Val Asn Glu Ala Leu Asn Glu Asp Gly Thr Tyr 165 170 175 Arg Glu Ser Val Phe Tyr Lys Val Leu Gly Glu Asp Tyr Ile Lys Leu 180 185 190 Ala Phe Glu Thr Ala Ala Lys Val Asp Pro His Ala Lys Leu Tyr Tyr 195 200 205 Asn Asp Tyr Asn Leu Glu Ser Pro Ser Ala Lys Thr Glu Gly Ala Lys 210 215 220 Arg Ile Val Lys Met Leu Lys Asp Ala Gly Ile Arg Ile Asp Gly Val 225 230 235 240 Gly Leu Gln Ala His Leu Val Ala Glu Ser His Pro Thr Leu Asp Glu 245 250 255 His Ile Asp Ala Ile Lys Gly Phe Thr Glu Leu Gly Val Glu Val Ala 260 265 270 Leu Thr Glu Leu Asp Ile Arg Leu Ser Ile Pro Ala Asn Ala Thr Asn 275 280 285 Leu Ala Gln Gln Arg Glu Ala Tyr Lys Asn Val Val Gly Ala Cys Val 290 295 300 Gln Val Arg Gly Cys Ile Gly Val Glu Ile Trp Asp Phe Tyr Asp Pro 305 310 315 320 Phe Ser Trp Val Pro Ala Thr Phe Pro Gly Gln Gly Ala Pro Leu Leu 325 330 335 Trp Phe Glu Asp Phe Ser Lys His Pro Ala Tyr Asp Gly Val Val Glu 340 345 350 Ala Leu Thr Asn Arg Thr Thr Gly Gly Cys Lys Gly Lys Gly Lys Gly 355 360 365 Lys Gly Lys Val Trp Lys Ala 370 375 37356PRTMyceliophthora thermophila 37Lys Gly Lys Gly His Gly His Gly Pro His Thr Gly Leu His Thr Leu 1 5 10 15 Ala Lys Gln Ala Gly Leu Lys Tyr Phe Gly Ser Ala Thr Asp Ser Pro 20 25 30 Gly Gln Arg Glu Arg Ala Gly Tyr Glu Asp Lys Tyr Ala Gln Tyr Asp 35 40 45 Gln Ile Met Trp Lys Ser Gly Glu Phe Gly Leu Thr Thr Pro Thr Asn 50 55 60 Gly Gln Lys Trp Leu Phe Thr Glu Pro Glu Arg Gly Val Phe Asn Phe 65 70 75 80 Thr Glu Gly Asp Ile Val Thr Asn Leu Ala Arg Lys His Gly Phe Met 85 90 95 Gln Arg Cys His Ala Leu Val Trp His Ser Gln Leu Ala Pro Trp Val 100 105 110 Glu Ser Thr Glu Trp Thr Pro Glu Glu Leu Arg Gln Val Ile Val Asn 115 120 125 His Ile Thr His Val Ala Gly Tyr Tyr Lys Gly Lys Cys Tyr Ala Trp 130 135 140 Asp Val Val Asn Glu Ala Leu Asn Glu Asp Gly Thr Tyr Arg Glu Ser 145 150 155 160 Val Phe Tyr Lys Val Leu Gly Glu Asp Tyr Ile Lys Leu Ala Phe Glu 165 170 175 Thr Ala Ala Lys Val Asp Pro His Ala Lys Leu Tyr Tyr Asn Asp Tyr 180 185 190 Asn Leu Glu Ser Pro Ser Ala Lys Thr Glu Gly Ala Lys Arg Ile Val 195 200 205 Lys Met Leu Lys Asp Ala Gly Ile Arg Ile Asp Gly Val Gly Leu Gln 210 215 220 Ala His Leu Val Ala Glu Ser His Pro Thr Leu Asp Glu His Ile Asp 225 230 235 240 Ala Ile Lys Gly Phe Thr Glu Leu Gly Val Glu Val Ala Leu Thr Glu 245 250 255 Leu Asp Ile Arg Leu Ser Ile Pro Ala Asn Ala Thr Asn Leu Ala Gln 260 265 270 Gln Arg Glu Ala Tyr Lys Asn Val Val Gly Ala Cys Val Gln Val Arg 275 280 285 Gly Cys Ile Gly Val Glu Ile Trp Asp Phe Tyr Asp Pro Phe Ser Trp 290 295 300 Val Pro Ala Thr Phe Pro Gly Gln Gly Ala Pro Leu Leu Trp Phe Glu 305 310 315 320 Asp Phe Ser Lys His Pro Ala Tyr Asp Gly Val Val Glu Ala Leu Thr 325 330 335 Asn Arg Thr Thr Gly Gly Cys Lys Gly Lys Gly Lys Gly Lys Gly Lys 340 345 350 Val Trp Lys Ala 355 381242DNAArtificial SequenceSynthetic polynucleotide 38atgcactcca aagctttctt ggcagcgctt cttgcgcctg ccgtctcagg gcaactgaac 60gacctcgccg tcagggctgg actcaagtac tttggtactg ctcttagcga gagcgtcatc 120aacagtgata ctcggtatgc tgccatcctc agcgacaaga gcatgttcgg ccagctcgtc 180cccgagaatg gcatgaagtg ggatgctact gagccgtccc gtggccagtt caactacgcc 240tcgggcgaca tcacggccaa cacggccaag aagaatggcc agggcatgcg ttgccacacc 300atggtctggt acagccagct cccgagctgg gtctcctcgg gctcgtggac cagggactcg 360ctcacctcgg tcatcgagac gcacatgaac aacgtcatgg gccactacaa gggccaatgc 420tacgcctggg atgtcatcaa cgaggccatc aatgacgacg gcaactcctg gcgcgacaac 480gtctttctcc ggacctttgg gaccgactac ttcgccctgt ccttcaacct agccaagaag 540gccgatcccg ataccaagct gtactacaac gactacaacc tcgagtacaa ccaggccaag 600acggaccgcg ctgttgagct cgtcaagatg gtccaggccg ccggcgcgcc catcgacggt 660gtcggcttcc agggccacct cattgtcggc tcgaccccga cgcgctcgca gctggccacc 720gccctccagc gcttcaccgc gctcggcctc gaggtcgcct acaccgagct cgacatccgc 780cactcgagcc tgccggcctc ttcgtcggcg ctcgcgaccc agggcaacga cttcgccaac 840gtggtcggct cttgcctcga caccgccggc tgcgtcggcg tcaccgtctg gggcttcacc 900gatgcgcact cgtggatccc gaacacgttc cccggccagg gcgacgccct gatctacgac 960agcaactaca acaagaagcc cgcgtggacc tcgatctcgt ccgtcctggc cgccaaggcc 1020accggcgccc cgcccgcctc gtcctccacc accctcgtca ccatcaccac ccctccgccg 1080gcatccacca ccgcctcctc ctcctccagt gccacgccca cgagcgtccc gacgcagacg 1140aggtggggac agtgcggcgg catcggatgg acggggccga cccagtgcga gagcccatgg 1200acctgccaga agctgaacga ctggtactgg cagtgcctgt aa 124239413PRTMyceliophthora thermophila 39Met His Ser Lys Ala Phe Leu Ala Ala Leu Leu Ala Pro Ala Val Ser 1 5 10 15 Gly Gln Leu Asn Asp Leu Ala Val Arg Ala Gly Leu Lys Tyr Phe Gly 20 25 30 Thr Ala Leu Ser Glu Ser Val Ile Asn Ser Asp Thr Arg Tyr Ala Ala 35 40 45 Ile Leu Ser Asp Lys Ser Met Phe Gly Gln Leu Val Pro Glu Asn Gly 50 55 60 Met Lys Trp Asp Ala Thr Glu Pro Ser Arg Gly Gln Phe Asn Tyr Ala 65 70 75 80 Ser Gly Asp Ile Thr Ala Asn Thr Ala Lys Lys

Asn Gly Gln Gly Met 85 90 95 Arg Cys His Thr Met Val Trp Tyr Ser Gln Leu Pro Ser Trp Val Ser 100 105 110 Ser Gly Ser Trp Thr Arg Asp Ser Leu Thr Ser Val Ile Glu Thr His 115 120 125 Met Asn Asn Val Met Gly His Tyr Lys Gly Gln Cys Tyr Ala Trp Asp 130 135 140 Val Ile Asn Glu Ala Ile Asn Asp Asp Gly Asn Ser Trp Arg Asp Asn 145 150 155 160 Val Phe Leu Arg Thr Phe Gly Thr Asp Tyr Phe Ala Leu Ser Phe Asn 165 170 175 Leu Ala Lys Lys Ala Asp Pro Asp Thr Lys Leu Tyr Tyr Asn Asp Tyr 180 185 190 Asn Leu Glu Tyr Asn Gln Ala Lys Thr Asp Arg Ala Val Glu Leu Val 195 200 205 Lys Met Val Gln Ala Ala Gly Ala Pro Ile Asp Gly Val Gly Phe Gln 210 215 220 Gly His Leu Ile Val Gly Ser Thr Pro Thr Arg Ser Gln Leu Ala Thr 225 230 235 240 Ala Leu Gln Arg Phe Thr Ala Leu Gly Leu Glu Val Ala Tyr Thr Glu 245 250 255 Leu Asp Ile Arg His Ser Ser Leu Pro Ala Ser Ser Ser Ala Leu Ala 260 265 270 Thr Gln Gly Asn Asp Phe Ala Asn Val Val Gly Ser Cys Leu Asp Thr 275 280 285 Ala Gly Cys Val Gly Val Thr Val Trp Gly Phe Thr Asp Ala His Ser 290 295 300 Trp Ile Pro Asn Thr Phe Pro Gly Gln Gly Asp Ala Leu Ile Tyr Asp 305 310 315 320 Ser Asn Tyr Asn Lys Lys Pro Ala Trp Thr Ser Ile Ser Ser Val Leu 325 330 335 Ala Ala Lys Ala Thr Gly Ala Pro Pro Ala Ser Ser Ser Thr Thr Leu 340 345 350 Val Thr Ile Thr Thr Pro Pro Pro Ala Ser Thr Thr Ala Ser Ser Ser 355 360 365 Ser Ser Ala Thr Pro Thr Ser Val Pro Thr Gln Thr Arg Trp Gly Gln 370 375 380 Cys Gly Gly Ile Gly Trp Thr Gly Pro Thr Gln Cys Glu Ser Pro Trp 385 390 395 400 Thr Cys Gln Lys Leu Asn Asp Trp Tyr Trp Gln Cys Leu 405 410 40396PRTMyceliophthora thermophila 40Gln Leu Asn Asp Leu Ala Val Arg Ala Gly Leu Lys Tyr Phe Gly Thr 1 5 10 15 Ala Leu Ser Glu Ser Val Ile Asn Ser Asp Thr Arg Tyr Ala Ala Ile 20 25 30 Leu Ser Asp Lys Ser Met Phe Gly Gln Leu Val Pro Glu Asn Gly Met 35 40 45 Lys Trp Asp Ala Thr Glu Pro Ser Arg Gly Gln Phe Asn Tyr Ala Ser 50 55 60 Gly Asp Ile Thr Ala Asn Thr Ala Lys Lys Asn Gly Gln Gly Met Arg 65 70 75 80 Cys His Thr Met Val Trp Tyr Ser Gln Leu Pro Ser Trp Val Ser Ser 85 90 95 Gly Ser Trp Thr Arg Asp Ser Leu Thr Ser Val Ile Glu Thr His Met 100 105 110 Asn Asn Val Met Gly His Tyr Lys Gly Gln Cys Tyr Ala Trp Asp Val 115 120 125 Ile Asn Glu Ala Ile Asn Asp Asp Gly Asn Ser Trp Arg Asp Asn Val 130 135 140 Phe Leu Arg Thr Phe Gly Thr Asp Tyr Phe Ala Leu Ser Phe Asn Leu 145 150 155 160 Ala Lys Lys Ala Asp Pro Asp Thr Lys Leu Tyr Tyr Asn Asp Tyr Asn 165 170 175 Leu Glu Tyr Asn Gln Ala Lys Thr Asp Arg Ala Val Glu Leu Val Lys 180 185 190 Met Val Gln Ala Ala Gly Ala Pro Ile Asp Gly Val Gly Phe Gln Gly 195 200 205 His Leu Ile Val Gly Ser Thr Pro Thr Arg Ser Gln Leu Ala Thr Ala 210 215 220 Leu Gln Arg Phe Thr Ala Leu Gly Leu Glu Val Ala Tyr Thr Glu Leu 225 230 235 240 Asp Ile Arg His Ser Ser Leu Pro Ala Ser Ser Ser Ala Leu Ala Thr 245 250 255 Gln Gly Asn Asp Phe Ala Asn Val Val Gly Ser Cys Leu Asp Thr Ala 260 265 270 Gly Cys Val Gly Val Thr Val Trp Gly Phe Thr Asp Ala His Ser Trp 275 280 285 Ile Pro Asn Thr Phe Pro Gly Gln Gly Asp Ala Leu Ile Tyr Asp Ser 290 295 300 Asn Tyr Asn Lys Lys Pro Ala Trp Thr Ser Ile Ser Ser Val Leu Ala 305 310 315 320 Ala Lys Ala Thr Gly Ala Pro Pro Ala Ser Ser Ser Thr Thr Leu Val 325 330 335 Thr Ile Thr Thr Pro Pro Pro Ala Ser Thr Thr Ala Ser Ser Ser Ser 340 345 350 Ser Ala Thr Pro Thr Ser Val Pro Thr Gln Thr Arg Trp Gly Gln Cys 355 360 365 Gly Gly Ile Gly Trp Thr Gly Pro Thr Gln Cys Glu Ser Pro Trp Thr 370 375 380 Cys Gln Lys Leu Asn Asp Trp Tyr Trp Gln Cys Leu 385 390 395 41693DNAMyceliophthora thermophila 41atggtctcct tcaaggccct cgttctcggc gccgttggcg ccctctcctt ccctttcaac 60gtcaccgagc tgtccgaggc gcacgcccgg ggcgagaatg tgaccgagct cttgatgtct 120cgcgccggca cgccgagcca gaccggctgg cacgggggct actacttctc cttctggacc 180gacaacggcg gcaccgtcaa ctactggaac ggcgacaatg gcagatacgg tgtccagtgg 240cagaactgcg gcaactttgt cggcggtaag ggatggaacc ccggcgcggc gcggaccatc 300aacttcagcg gctccttcaa cccgtcgggc aacgggtacc tggccgtgta cgggtggacg 360cagaacccgc tgatcgagta ctacatcgtc gagtcgttcg gcacgtacga cccgtcgtcg 420caggcccagg tcctcggcac cttctaccag gacggcagca actacaagat cgccaagacg 480acccgctaca accagccctc catcgagggc accagcacct tcgaccagtt ctggtccgtc 540cgcgagaacc accgcaccag cggcagcgtc aacgtcggcg cccacttcgc ccgctggcag 600caggccggcc tccgcctcgg cacccacaac taccaaatca tggccaccga gggctaccag 660agcagcggct cctccgatat caccgtctgg taa 69342230PRTMyceliophthora thermophila 42Met Val Ser Phe Lys Ala Leu Val Leu Gly Ala Val Gly Ala Leu Ser 1 5 10 15 Phe Pro Phe Asn Val Thr Glu Leu Ser Glu Ala His Ala Arg Gly Glu 20 25 30 Asn Val Thr Glu Leu Leu Met Ser Arg Ala Gly Thr Pro Ser Gln Thr 35 40 45 Gly Trp His Gly Gly Tyr Tyr Phe Ser Phe Trp Thr Asp Asn Gly Gly 50 55 60 Thr Val Asn Tyr Trp Asn Gly Asp Asn Gly Arg Tyr Gly Val Gln Trp 65 70 75 80 Gln Asn Cys Gly Asn Phe Val Gly Gly Lys Gly Trp Asn Pro Gly Ala 85 90 95 Ala Arg Thr Ile Asn Phe Ser Gly Ser Phe Asn Pro Ser Gly Asn Gly 100 105 110 Tyr Leu Ala Val Tyr Gly Trp Thr Gln Asn Pro Leu Ile Glu Tyr Tyr 115 120 125 Ile Val Glu Ser Phe Gly Thr Tyr Asp Pro Ser Ser Gln Ala Gln Val 130 135 140 Leu Gly Thr Phe Tyr Gln Asp Gly Ser Asn Tyr Lys Ile Ala Lys Thr 145 150 155 160 Thr Arg Tyr Asn Gln Pro Ser Ile Glu Gly Thr Ser Thr Phe Asp Gln 165 170 175 Phe Trp Ser Val Arg Glu Asn His Arg Thr Ser Gly Ser Val Asn Val 180 185 190 Gly Ala His Phe Ala Arg Trp Gln Gln Ala Gly Leu Arg Leu Gly Thr 195 200 205 His Asn Tyr Gln Ile Met Ala Thr Glu Gly Tyr Gln Ser Ser Gly Ser 210 215 220 Ser Asp Ile Thr Val Trp 225 230 43214PRTMyceliophthora thermophila 43Phe Pro Phe Asn Val Thr Glu Leu Ser Glu Ala His Ala Arg Gly Glu 1 5 10 15 Asn Val Thr Glu Leu Leu Met Ser Arg Ala Gly Thr Pro Ser Gln Thr 20 25 30 Gly Trp His Gly Gly Tyr Tyr Phe Ser Phe Trp Thr Asp Asn Gly Gly 35 40 45 Thr Val Asn Tyr Trp Asn Gly Asp Asn Gly Arg Tyr Gly Val Gln Trp 50 55 60 Gln Asn Cys Gly Asn Phe Val Gly Gly Lys Gly Trp Asn Pro Gly Ala 65 70 75 80 Ala Arg Thr Ile Asn Phe Ser Gly Ser Phe Asn Pro Ser Gly Asn Gly 85 90 95 Tyr Leu Ala Val Tyr Gly Trp Thr Gln Asn Pro Leu Ile Glu Tyr Tyr 100 105 110 Ile Val Glu Ser Phe Gly Thr Tyr Asp Pro Ser Ser Gln Ala Gln Val 115 120 125 Leu Gly Thr Phe Tyr Gln Asp Gly Ser Asn Tyr Lys Ile Ala Lys Thr 130 135 140 Thr Arg Tyr Asn Gln Pro Ser Ile Glu Gly Thr Ser Thr Phe Asp Gln 145 150 155 160 Phe Trp Ser Val Arg Glu Asn His Arg Thr Ser Gly Ser Val Asn Val 165 170 175 Gly Ala His Phe Ala Arg Trp Gln Gln Ala Gly Leu Arg Leu Gly Thr 180 185 190 His Asn Tyr Gln Ile Met Ala Thr Glu Gly Tyr Gln Ser Ser Gly Ser 195 200 205 Ser Asp Ile Thr Val Trp 210 44738DNAArtificial sequenceSynthetic polynucleotide 44atggtttctg tcaaggcagt cctcctcctc ggcgccgccg gcaccaccct ggccttcccg 60ttcaacgcta cccagttcag cgagctcgtt gcccgggccg gcaccccgag cggcaccggc 120acgcacgacg gcttctacta ctccttctgg accgacggcg gcggcaacgt caactacgag 180aacggtcctg gcggctccta caccgtccag tggcagaact gcggcaactt tgtcggcggc 240aagggctgga accccggcca ggcccgcacc atcacctact cgggcaccgt cgacttccag 300ggcggcaacg gctacctggc catctacggc tggacgcaga acccgctgat cgagtactac 360atcgtcgagt cgttcggctc gtacgacccc tcgtcgcagg cccagacttt cggcaccgtc 420gaggtggacg gcggcaccta cacgctggcc aagacgacgc gcgtcaacca gccctcgatc 480gagggcacca gcaccttcga ccagttctgg tccgtccgcc agcagcaccg cacctccggc 540tccgtcgacg tcggcgccca cttcgacgcc tgggccaagg ccggcctcca gctcggcacc 600cacaactaca gatcgtcgcc accgagggct accagagcag cggctcctct tccatcaccg 660tccaggccta agagggccct caggcctttg ctctactgcc ctctcctctc ctctgcgctt 720tccgtaaggg agatctaa 73845245PRTArtificial sequenceSynthetic polypeptide 45Met Val Ser Val Lys Ala Val Leu Leu Leu Gly Ala Ala Gly Thr Thr 1 5 10 15 Leu Ala Phe Pro Phe Asn Ala Thr Gln Phe Ser Glu Leu Val Ala Arg 20 25 30 Ala Gly Thr Pro Ser Gly Thr Gly Thr His Asp Gly Phe Tyr Tyr Ser 35 40 45 Phe Trp Thr Asp Gly Gly Gly Asn Val Asn Tyr Glu Asn Gly Pro Gly 50 55 60 Gly Ser Tyr Thr Val Gln Trp Gln Asn Cys Gly Asn Phe Val Gly Gly 65 70 75 80 Lys Gly Trp Asn Pro Gly Gln Ala Arg Thr Ile Thr Tyr Ser Gly Thr 85 90 95 Val Asp Phe Gln Gly Gly Asn Gly Tyr Leu Ala Ile Tyr Gly Trp Thr 100 105 110 Gln Asn Pro Leu Ile Glu Tyr Tyr Ile Val Glu Ser Phe Gly Ser Tyr 115 120 125 Asp Pro Ser Ser Gln Ala Gln Thr Phe Gly Thr Val Glu Val Asp Gly 130 135 140 Gly Thr Tyr Thr Leu Ala Lys Thr Thr Arg Val Asn Gln Pro Ser Ile 145 150 155 160 Glu Gly Thr Ser Thr Phe Asp Gln Phe Trp Ser Val Arg Gln Gln His 165 170 175 Arg Thr Ser Gly Ser Val Asp Val Gly Ala His Phe Asp Ala Trp Ala 180 185 190 Lys Ala Gly Leu Gln Leu Gly Thr His Asn Tyr Arg Ser Ser Pro Pro 195 200 205 Arg Ala Thr Arg Ala Ala Ala Pro Leu Pro Ser Pro Ser Arg Pro Lys 210 215 220 Arg Ala Leu Arg Pro Leu Leu Tyr Cys Pro Leu Leu Ser Ser Ala Leu 225 230 235 240 Ser Val Arg Glu Ile 245 46227PRTArtificial sequenceSynthetic polypeptide 46Phe Pro Phe Asn Ala Thr Gln Phe Ser Glu Leu Val Ala Arg Ala Gly 1 5 10 15 Thr Pro Ser Gly Thr Gly Thr His Asp Gly Phe Tyr Tyr Ser Phe Trp 20 25 30 Thr Asp Gly Gly Gly Asn Val Asn Tyr Glu Asn Gly Pro Gly Gly Ser 35 40 45 Tyr Thr Val Gln Trp Gln Asn Cys Gly Asn Phe Val Gly Gly Lys Gly 50 55 60 Trp Asn Pro Gly Gln Ala Arg Thr Ile Thr Tyr Ser Gly Thr Val Asp 65 70 75 80 Phe Gln Gly Gly Asn Gly Tyr Leu Ala Ile Tyr Gly Trp Thr Gln Asn 85 90 95 Pro Leu Ile Glu Tyr Tyr Ile Val Glu Ser Phe Gly Ser Tyr Asp Pro 100 105 110 Ser Ser Gln Ala Gln Thr Phe Gly Thr Val Glu Val Asp Gly Gly Thr 115 120 125 Tyr Thr Leu Ala Lys Thr Thr Arg Val Asn Gln Pro Ser Ile Glu Gly 130 135 140 Thr Ser Thr Phe Asp Gln Phe Trp Ser Val Arg Gln Gln His Arg Thr 145 150 155 160 Ser Gly Ser Val Asp Val Gly Ala His Phe Asp Ala Trp Ala Lys Ala 165 170 175 Gly Leu Gln Leu Gly Thr His Asn Tyr Arg Ser Ser Pro Pro Arg Ala 180 185 190 Thr Arg Ala Ala Ala Pro Leu Pro Ser Pro Ser Arg Pro Lys Arg Ala 195 200 205 Leu Arg Pro Leu Leu Tyr Cys Pro Leu Leu Ser Ser Ala Leu Ser Val 210 215 220 Arg Glu Ile 225 472046DNAArtificial sequenceSynthetic polynucleotide 47atgataatga tgagactcaa gtcgggactg gccggggcgc tggcctgggg aacgacggcg 60gcggcggcgg cggcggtggc gagagtggga gccggcgcgg ccgcgaactc gacctactac 120aacccgatcc tccccgggtg gcactcggac ccgtcgtgcg tgcaggtgga ggggatcttc 180tactgcgtga cgtcgacctt catctcgttc cccggcctgc ccatctacgc gtcccgggac 240ctgatcaact ggaagcacgt cagccacgtg tggaaccgcg agtcccagct gcccgggtac 300agctgggcga cggagggcca gcaggagggc atgtacgcgg cgacgatccg gcaccgcgag 360ggcgtcttct atgtcatctg cgagtacctg ggcgtcggcg gcagggacgc cggcgtgctc 420ttccgggcga cggacccgtt cgacgacgcg gcctggagcg acgccctgac cttcgccgcg 480cccaagatcg acccggacct gttctgggac gacgacggga cggcctacgt ggcgacgcag 540ggcgtgcagg tgcagcgcat ggacctcgac acgggcgcca tcggcccgcc cgtgccgctg 600tggaacggga cgggcggggt gtggcccgag ggcccgcaca tctaccgccg cgccgaccac 660ttctacctca tgatcgccga gggcggcacg gccgaggacc acgccatcac catcgcccgc 720agcgaccggc tgacggggcc ctacgtctcc tgcccgcaca acccgatcct gaccaaccgc 780ggcacggacg agtacttcca gacggtcggc cacggcgacc tcttccagga cgccgccggc 840aactggtggg gcgtcgccct ggccacgcgc tccggcccgg agtaccgcgt ctacccgatg 900gggcgcgaga ccgtgctgtt ccccgtcacc tggcgcgagg gcgactggcc ggtcctgcag 960cccgtgcgcg gcgccatgtc gggctggccg ctgccgccgc cgacgcgcga cctgcccggc 1020gacgggccct tcaacgcgga cccggacgtg aaggcgatgc cgcggaacct ggtgcactgg 1080cgggtcccgc gcgagggcgc cttcgcgacc acggcgcgcg ggctccgcgt cgcgctgggg 1140cgcaaccggc tcgacggctg gcccgggggc gccgagccgg ccgccagggc cgtctccttc 1200gtggggcgcc gccagaccga cagcctcttc accttcagcg aggccggcgt gaccgcgttc 1260ctgacccagc tcgccaacct gcagctcggc ctggtcctcc ctggacggcg ggccagctgc 1320ggctccgctt catcgcgtcg ggccacgtca cgcgataccg cggtgccgga ggactgcacc 1380gatgtcggca gctgtgacgg cggtgacgac ggcggtgacg gcgggtaccg gttcgcggcc 1440atgctggcgt ccgacccgga cccggaccgg acccggatcg aggtcggcac cgcgccggcc 1500gagctgctca gcggcggctc cggctccttc gtcggcaccc tgctcggcgt ctacgccacc 1560tgcaacgggg ccggggaggg catcgactgc cccgccggca cgcccgacgc ttacttcacc 1620cggtggaggt acacgggcga gggccagttc tacaccgaga ccgatctcgt cccgcccgac 1680gagggccagg gcaagggtaa aggtaaaggg aacggtaaag gcaagggcaa cggcaacggc 1740aacggcaaag ccgccaagag aagcaggttt ccaaggtgga cgccgggtct aaatggcgtc 1800gttatcccgc ccctgtggat catggaggac gacccggaga cccgctggcc ggcccagaag 1860cgggctgggg cgggcgggca gagctacgtc ttccgccacg gcaacctgca cacagttcgg 1920gatgagaatg atgccttcaa gggcgcctct ctctgcgtac cttaccatac ctaccttgcc 1980aaggtgatcc aggcacttac tctcaacttt gcgcatcttt tcggggcgtg gagactgacg 2040gtgtag 204648681PRTArtificial sequenceSynthetic polypeptide 48Met Ile Met Met Arg Leu Lys Ser Gly Leu Ala Gly Ala Leu Ala Trp 1 5 10 15 Gly Thr Thr Ala Ala Ala Ala Ala Ala Val Ala Arg Val Gly Ala Gly 20 25 30 Ala Ala Ala Asn Ser Thr Tyr Tyr Asn Pro Ile Leu Pro Gly Trp His 35 40 45 Ser Asp Pro Ser Cys Val Gln Val Glu Gly Ile Phe Tyr Cys Val Thr

50 55 60 Ser Thr Phe Ile Ser Phe Pro Gly Leu Pro Ile Tyr Ala Ser Arg Asp 65 70 75 80 Leu Ile Asn Trp Lys His Val Ser His Val Trp Asn Arg Glu Ser Gln 85 90 95 Leu Pro Gly Tyr Ser Trp Ala Thr Glu Gly Gln Gln Glu Gly Met Tyr 100 105 110 Ala Ala Thr Ile Arg His Arg Glu Gly Val Phe Tyr Val Ile Cys Glu 115 120 125 Tyr Leu Gly Val Gly Gly Arg Asp Ala Gly Val Leu Phe Arg Ala Thr 130 135 140 Asp Pro Phe Asp Asp Ala Ala Trp Ser Asp Ala Leu Thr Phe Ala Ala 145 150 155 160 Pro Lys Ile Asp Pro Asp Leu Phe Trp Asp Asp Asp Gly Thr Ala Tyr 165 170 175 Val Ala Thr Gln Gly Val Gln Val Gln Arg Met Asp Leu Asp Thr Gly 180 185 190 Ala Ile Gly Pro Pro Val Pro Leu Trp Asn Gly Thr Gly Gly Val Trp 195 200 205 Pro Glu Gly Pro His Ile Tyr Arg Arg Ala Asp His Phe Tyr Leu Met 210 215 220 Ile Ala Glu Gly Gly Thr Ala Glu Asp His Ala Ile Thr Ile Ala Arg 225 230 235 240 Ser Asp Arg Leu Thr Gly Pro Tyr Val Ser Cys Pro His Asn Pro Ile 245 250 255 Leu Thr Asn Arg Gly Thr Asp Glu Tyr Phe Gln Thr Val Gly His Gly 260 265 270 Asp Leu Phe Gln Asp Ala Ala Gly Asn Trp Trp Gly Val Ala Leu Ala 275 280 285 Thr Arg Ser Gly Pro Glu Tyr Arg Val Tyr Pro Met Gly Arg Glu Thr 290 295 300 Val Leu Phe Pro Val Thr Trp Arg Glu Gly Asp Trp Pro Val Leu Gln 305 310 315 320 Pro Val Arg Gly Ala Met Ser Gly Trp Pro Leu Pro Pro Pro Thr Arg 325 330 335 Asp Leu Pro Gly Asp Gly Pro Phe Asn Ala Asp Pro Asp Val Lys Ala 340 345 350 Met Pro Arg Asn Leu Val His Trp Arg Val Pro Arg Glu Gly Ala Phe 355 360 365 Ala Thr Thr Ala Arg Gly Leu Arg Val Ala Leu Gly Arg Asn Arg Leu 370 375 380 Asp Gly Trp Pro Gly Gly Ala Glu Pro Ala Ala Arg Ala Val Ser Phe 385 390 395 400 Val Gly Arg Arg Gln Thr Asp Ser Leu Phe Thr Phe Ser Glu Ala Gly 405 410 415 Val Thr Ala Phe Leu Thr Gln Leu Ala Asn Leu Gln Leu Gly Leu Val 420 425 430 Leu Pro Gly Arg Arg Ala Ser Cys Gly Ser Ala Ser Ser Arg Arg Ala 435 440 445 Thr Ser Arg Asp Thr Ala Val Pro Glu Asp Cys Thr Asp Val Gly Ser 450 455 460 Cys Asp Gly Gly Asp Asp Gly Gly Asp Gly Gly Tyr Arg Phe Ala Ala 465 470 475 480 Met Leu Ala Ser Asp Pro Asp Pro Asp Arg Thr Arg Ile Glu Val Gly 485 490 495 Thr Ala Pro Ala Glu Leu Leu Ser Gly Gly Ser Gly Ser Phe Val Gly 500 505 510 Thr Leu Leu Gly Val Tyr Ala Thr Cys Asn Gly Ala Gly Glu Gly Ile 515 520 525 Asp Cys Pro Ala Gly Thr Pro Asp Ala Tyr Phe Thr Arg Trp Arg Tyr 530 535 540 Thr Gly Glu Gly Gln Phe Tyr Thr Glu Thr Asp Leu Val Pro Pro Asp 545 550 555 560 Glu Gly Gln Gly Lys Gly Lys Gly Lys Gly Asn Gly Lys Gly Lys Gly 565 570 575 Asn Gly Asn Gly Asn Gly Lys Ala Ala Lys Arg Ser Arg Phe Pro Arg 580 585 590 Trp Thr Pro Gly Leu Asn Gly Val Val Ile Pro Pro Leu Trp Ile Met 595 600 605 Glu Asp Asp Pro Glu Thr Arg Trp Pro Ala Gln Lys Arg Ala Gly Ala 610 615 620 Gly Gly Gln Ser Tyr Val Phe Arg His Gly Asn Leu His Thr Val Arg 625 630 635 640 Asp Glu Asn Asp Ala Phe Lys Gly Ala Ser Leu Cys Val Pro Tyr His 645 650 655 Thr Tyr Leu Ala Lys Val Ile Gln Ala Leu Thr Leu Asn Phe Ala His 660 665 670 Leu Phe Gly Ala Trp Arg Leu Thr Val 675 680 49666PRTArtificial sequenceSynthetic polypeptide 49Trp Gly Thr Thr Ala Ala Ala Ala Ala Ala Val Ala Arg Val Gly Ala 1 5 10 15 Gly Ala Ala Ala Asn Ser Thr Tyr Tyr Asn Pro Ile Leu Pro Gly Trp 20 25 30 His Ser Asp Pro Ser Cys Val Gln Val Glu Gly Ile Phe Tyr Cys Val 35 40 45 Thr Ser Thr Phe Ile Ser Phe Pro Gly Leu Pro Ile Tyr Ala Ser Arg 50 55 60 Asp Leu Ile Asn Trp Lys His Val Ser His Val Trp Asn Arg Glu Ser 65 70 75 80 Gln Leu Pro Gly Tyr Ser Trp Ala Thr Glu Gly Gln Gln Glu Gly Met 85 90 95 Tyr Ala Ala Thr Ile Arg His Arg Glu Gly Val Phe Tyr Val Ile Cys 100 105 110 Glu Tyr Leu Gly Val Gly Gly Arg Asp Ala Gly Val Leu Phe Arg Ala 115 120 125 Thr Asp Pro Phe Asp Asp Ala Ala Trp Ser Asp Ala Leu Thr Phe Ala 130 135 140 Ala Pro Lys Ile Asp Pro Asp Leu Phe Trp Asp Asp Asp Gly Thr Ala 145 150 155 160 Tyr Val Ala Thr Gln Gly Val Gln Val Gln Arg Met Asp Leu Asp Thr 165 170 175 Gly Ala Ile Gly Pro Pro Val Pro Leu Trp Asn Gly Thr Gly Gly Val 180 185 190 Trp Pro Glu Gly Pro His Ile Tyr Arg Arg Ala Asp His Phe Tyr Leu 195 200 205 Met Ile Ala Glu Gly Gly Thr Ala Glu Asp His Ala Ile Thr Ile Ala 210 215 220 Arg Ser Asp Arg Leu Thr Gly Pro Tyr Val Ser Cys Pro His Asn Pro 225 230 235 240 Ile Leu Thr Asn Arg Gly Thr Asp Glu Tyr Phe Gln Thr Val Gly His 245 250 255 Gly Asp Leu Phe Gln Asp Ala Ala Gly Asn Trp Trp Gly Val Ala Leu 260 265 270 Ala Thr Arg Ser Gly Pro Glu Tyr Arg Val Tyr Pro Met Gly Arg Glu 275 280 285 Thr Val Leu Phe Pro Val Thr Trp Arg Glu Gly Asp Trp Pro Val Leu 290 295 300 Gln Pro Val Arg Gly Ala Met Ser Gly Trp Pro Leu Pro Pro Pro Thr 305 310 315 320 Arg Asp Leu Pro Gly Asp Gly Pro Phe Asn Ala Asp Pro Asp Val Lys 325 330 335 Ala Met Pro Arg Asn Leu Val His Trp Arg Val Pro Arg Glu Gly Ala 340 345 350 Phe Ala Thr Thr Ala Arg Gly Leu Arg Val Ala Leu Gly Arg Asn Arg 355 360 365 Leu Asp Gly Trp Pro Gly Gly Ala Glu Pro Ala Ala Arg Ala Val Ser 370 375 380 Phe Val Gly Arg Arg Gln Thr Asp Ser Leu Phe Thr Phe Ser Glu Ala 385 390 395 400 Gly Val Thr Ala Phe Leu Thr Gln Leu Ala Asn Leu Gln Leu Gly Leu 405 410 415 Val Leu Pro Gly Arg Arg Ala Ser Cys Gly Ser Ala Ser Ser Arg Arg 420 425 430 Ala Thr Ser Arg Asp Thr Ala Val Pro Glu Asp Cys Thr Asp Val Gly 435 440 445 Ser Cys Asp Gly Gly Asp Asp Gly Gly Asp Gly Gly Tyr Arg Phe Ala 450 455 460 Ala Met Leu Ala Ser Asp Pro Asp Pro Asp Arg Thr Arg Ile Glu Val 465 470 475 480 Gly Thr Ala Pro Ala Glu Leu Leu Ser Gly Gly Ser Gly Ser Phe Val 485 490 495 Gly Thr Leu Leu Gly Val Tyr Ala Thr Cys Asn Gly Ala Gly Glu Gly 500 505 510 Ile Asp Cys Pro Ala Gly Thr Pro Asp Ala Tyr Phe Thr Arg Trp Arg 515 520 525 Tyr Thr Gly Glu Gly Gln Phe Tyr Thr Glu Thr Asp Leu Val Pro Pro 530 535 540 Asp Glu Gly Gln Gly Lys Gly Lys Gly Lys Gly Asn Gly Lys Gly Lys 545 550 555 560 Gly Asn Gly Asn Gly Asn Gly Lys Ala Ala Lys Arg Ser Arg Phe Pro 565 570 575 Arg Trp Thr Pro Gly Leu Asn Gly Val Val Ile Pro Pro Leu Trp Ile 580 585 590 Met Glu Asp Asp Pro Glu Thr Arg Trp Pro Ala Gln Lys Arg Ala Gly 595 600 605 Ala Gly Gly Gln Ser Tyr Val Phe Arg His Gly Asn Leu His Thr Val 610 615 620 Arg Asp Glu Asn Asp Ala Phe Lys Gly Ala Ser Leu Cys Val Pro Tyr 625 630 635 640 His Thr Tyr Leu Ala Lys Val Ile Gln Ala Leu Thr Leu Asn Phe Ala 645 650 655 His Leu Phe Gly Ala Trp Arg Leu Thr Val 660 665 501608DNAArtificial sequenceSynthetic polynucleotide 50atggggcgcc taaacgatct catagccctc cttgcactgt tgagcggcag tgccacatcc 60gctgccgtaa gaaacacggc ttctcaggct cgcgcggcgg aattcaacaa cccggtgctc 120tgggaggact atccggacct ggacgtgttc cgggtcgggt cgaccttcta ctactcctcc 180tccacgttcg cctactcccc gggggctccg gtgctcaagt cgtacgacct ggtgaactgg 240acccccgtca cccactcggt cccgacgctc aactttgggg accgctacaa cctcacgggc 300ggcacgccgg ccggctacgt caagggcatc tgggcgtcga cgctgcggta ccggccctcc 360aacgacaagt tctactggta cggctgcgtc gagttcggca agacgtacat ctggaccagc 420tccggcacgc gcgcgggcga cagggacggc gaggtggacc ccgccgactg ggtctgggag 480ccgcacccgc ccatcgaccg gtgctactac gacagcggcc tgttgatcga cgacgacgac 540aagatgtaca tcgcgtacgg caaccccaag atcgaggtcg ccgagctgtc cgacgacggg 600ctcaccgagg tctcctcccg ggtcgtctac accccgccgg ccggcaccac catcgagggc 660tcgcgcatgt acaaggtcgg cgacgcctac tacatcctgg tgacgcggcc ggccgacgcc 720gagtgggtgc tccggtcgac gtccgggccc tttcggcccg gcggcatggt cgacaccccg 780gacggccgca gctggtacta cgtcgccttc atggacgcgt acccgggggg ccgcatcccc 840gtggtcgcgc cgctgcgctg gacggacgac gggtggcccg aggtggtgac ggacgcgcag 900ggcggctggg gcgccagcta cccggtcccc gtggagacgg gcaagacggt gccggacgac 960ggctgggagc tggacgagtt caggggcggc cggctgagcc accactggga gtggaaccac 1020aacccggacc cggcccgctt cgcgctcgcg ggcggggacg agggcgggct ggtgctgcag 1080gcggcgacgg tgacggagga cctgttcgcg gccaggaaca cgctcacgcg gaggatcagg 1140ggccccaagt cgagcggcac gttccggctg gacgtcagca ggatgcgcga cggcgaccgg 1200gccggggccg tgctgttccg ggacacggcg gcgtatatcg gcgtgtggaa gcaaggggac 1260gaggccacca tcgtcgtagt cgacggcctt gagctggctc tgagctcctg gacgaccgtc 1320tcgaccggga gggtggccga gacgggcccg accctgagca gcacgcagga tgtctggctc 1380cggatcgagg ccgacatcac gcccgcgttc gggaccaaca cggcaaggac cacgactttc 1440tcgtacagtg tggacggcgg gaagaccttt gtccgtcttg gcccggcctt ctcgatgagc 1500aatacttggc aatactttac gggctacagg ttcggagtct tcaactttgc caccaaggag 1560cttgggggcg aagtcaaggt caagagcttc cagatgcagc ctctgtga 160851535PRTArtificial sequenceSynthetic polypeptide 51Met Gly Arg Leu Asn Asp Leu Ile Ala Leu Leu Ala Leu Leu Ser Gly 1 5 10 15 Ser Ala Thr Ser Ala Ala Val Arg Asn Thr Ala Ser Gln Ala Arg Ala 20 25 30 Ala Glu Phe Asn Asn Pro Val Leu Trp Glu Asp Tyr Pro Asp Leu Asp 35 40 45 Val Phe Arg Val Gly Ser Thr Phe Tyr Tyr Ser Ser Ser Thr Phe Ala 50 55 60 Tyr Ser Pro Gly Ala Pro Val Leu Lys Ser Tyr Asp Leu Val Asn Trp 65 70 75 80 Thr Pro Val Thr His Ser Val Pro Thr Leu Asn Phe Gly Asp Arg Tyr 85 90 95 Asn Leu Thr Gly Gly Thr Pro Ala Gly Tyr Val Lys Gly Ile Trp Ala 100 105 110 Ser Thr Leu Arg Tyr Arg Pro Ser Asn Asp Lys Phe Tyr Trp Tyr Gly 115 120 125 Cys Val Glu Phe Gly Lys Thr Tyr Ile Trp Thr Ser Ser Gly Thr Arg 130 135 140 Ala Gly Asp Arg Asp Gly Glu Val Asp Pro Ala Asp Trp Val Trp Glu 145 150 155 160 Pro His Pro Pro Ile Asp Arg Cys Tyr Tyr Asp Ser Gly Leu Leu Ile 165 170 175 Asp Asp Asp Asp Lys Met Tyr Ile Ala Tyr Gly Asn Pro Lys Ile Glu 180 185 190 Val Ala Glu Leu Ser Asp Asp Gly Leu Thr Glu Val Ser Ser Arg Val 195 200 205 Val Tyr Thr Pro Pro Ala Gly Thr Thr Ile Glu Gly Ser Arg Met Tyr 210 215 220 Lys Val Gly Asp Ala Tyr Tyr Ile Leu Val Thr Arg Pro Ala Asp Ala 225 230 235 240 Glu Trp Val Leu Arg Ser Thr Ser Gly Pro Phe Arg Pro Gly Gly Met 245 250 255 Val Asp Thr Pro Asp Gly Arg Ser Trp Tyr Tyr Val Ala Phe Met Asp 260 265 270 Ala Tyr Pro Gly Gly Arg Ile Pro Val Val Ala Pro Leu Arg Trp Thr 275 280 285 Asp Asp Gly Trp Pro Glu Val Val Thr Asp Ala Gln Gly Gly Trp Gly 290 295 300 Ala Ser Tyr Pro Val Pro Val Glu Thr Gly Lys Thr Val Pro Asp Asp 305 310 315 320 Gly Trp Glu Leu Asp Glu Phe Arg Gly Gly Arg Leu Ser His His Trp 325 330 335 Glu Trp Asn His Asn Pro Asp Pro Ala Arg Phe Ala Leu Ala Gly Gly 340 345 350 Asp Glu Gly Gly Leu Val Leu Gln Ala Ala Thr Val Thr Glu Asp Leu 355 360 365 Phe Ala Ala Arg Asn Thr Leu Thr Arg Arg Ile Arg Gly Pro Lys Ser 370 375 380 Ser Gly Thr Phe Arg Leu Asp Val Ser Arg Met Arg Asp Gly Asp Arg 385 390 395 400 Ala Gly Ala Val Leu Phe Arg Asp Thr Ala Ala Tyr Ile Gly Val Trp 405 410 415 Lys Gln Gly Asp Glu Ala Thr Ile Val Val Val Asp Gly Leu Glu Leu 420 425 430 Ala Leu Ser Ser Trp Thr Thr Val Ser Thr Gly Arg Val Ala Glu Thr 435 440 445 Gly Pro Thr Leu Ser Ser Thr Gln Asp Val Trp Leu Arg Ile Glu Ala 450 455 460 Asp Ile Thr Pro Ala Phe Gly Thr Asn Thr Ala Arg Thr Thr Thr Phe 465 470 475 480 Ser Tyr Ser Val Asp Gly Gly Lys Thr Phe Val Arg Leu Gly Pro Ala 485 490 495 Phe Ser Met Ser Asn Thr Trp Gln Tyr Phe Thr Gly Tyr Arg Phe Gly 500 505 510 Val Phe Asn Phe Ala Thr Lys Glu Leu Gly Gly Glu Val Lys Val Lys 515 520 525 Ser Phe Gln Met Gln Pro Leu 530 535 52513PRTArtificial sequenceSynthetic polypeptide 52Val Arg Asn Thr Ala Ser Gln Ala Arg Ala Ala Glu Phe Asn Asn Pro 1 5 10 15 Val Leu Trp Glu Asp Tyr Pro Asp Leu Asp Val Phe Arg Val Gly Ser 20 25 30 Thr Phe Tyr Tyr Ser Ser Ser Thr Phe Ala Tyr Ser Pro Gly Ala Pro 35 40 45 Val Leu Lys Ser Tyr Asp Leu Val Asn Trp Thr Pro Val Thr His Ser 50 55 60 Val Pro Thr Leu Asn Phe Gly Asp Arg Tyr Asn Leu Thr Gly Gly Thr 65 70 75 80 Pro Ala Gly Tyr Val Lys Gly Ile Trp Ala Ser Thr Leu Arg Tyr Arg 85 90 95 Pro Ser Asn Asp Lys Phe Tyr Trp Tyr Gly Cys Val Glu Phe Gly Lys 100 105 110 Thr Tyr Ile Trp Thr Ser Ser Gly Thr Arg Ala Gly Asp Arg Asp Gly 115 120 125 Glu Val Asp Pro Ala Asp Trp Val Trp Glu Pro His Pro Pro Ile Asp 130 135 140 Arg Cys Tyr Tyr Asp Ser Gly Leu Leu Ile Asp Asp Asp Asp Lys Met 145 150 155 160 Tyr Ile Ala Tyr Gly Asn Pro Lys Ile Glu Val Ala Glu Leu Ser Asp 165 170 175 Asp Gly Leu Thr Glu Val Ser Ser Arg Val Val Tyr Thr Pro Pro Ala 180 185 190 Gly Thr Thr Ile Glu Gly Ser Arg Met Tyr Lys Val Gly Asp Ala Tyr 195 200

205 Tyr Ile Leu Val Thr Arg Pro Ala Asp Ala Glu Trp Val Leu Arg Ser 210 215 220 Thr Ser Gly Pro Phe Arg Pro Gly Gly Met Val Asp Thr Pro Asp Gly 225 230 235 240 Arg Ser Trp Tyr Tyr Val Ala Phe Met Asp Ala Tyr Pro Gly Gly Arg 245 250 255 Ile Pro Val Val Ala Pro Leu Arg Trp Thr Asp Asp Gly Trp Pro Glu 260 265 270 Val Val Thr Asp Ala Gln Gly Gly Trp Gly Ala Ser Tyr Pro Val Pro 275 280 285 Val Glu Thr Gly Lys Thr Val Pro Asp Asp Gly Trp Glu Leu Asp Glu 290 295 300 Phe Arg Gly Gly Arg Leu Ser His His Trp Glu Trp Asn His Asn Pro 305 310 315 320 Asp Pro Ala Arg Phe Ala Leu Ala Gly Gly Asp Glu Gly Gly Leu Val 325 330 335 Leu Gln Ala Ala Thr Val Thr Glu Asp Leu Phe Ala Ala Arg Asn Thr 340 345 350 Leu Thr Arg Arg Ile Arg Gly Pro Lys Ser Ser Gly Thr Phe Arg Leu 355 360 365 Asp Val Ser Arg Met Arg Asp Gly Asp Arg Ala Gly Ala Val Leu Phe 370 375 380 Arg Asp Thr Ala Ala Tyr Ile Gly Val Trp Lys Gln Gly Asp Glu Ala 385 390 395 400 Thr Ile Val Val Val Asp Gly Leu Glu Leu Ala Leu Ser Ser Trp Thr 405 410 415 Thr Val Ser Thr Gly Arg Val Ala Glu Thr Gly Pro Thr Leu Ser Ser 420 425 430 Thr Gln Asp Val Trp Leu Arg Ile Glu Ala Asp Ile Thr Pro Ala Phe 435 440 445 Gly Thr Asn Thr Ala Arg Thr Thr Thr Phe Ser Tyr Ser Val Asp Gly 450 455 460 Gly Lys Thr Phe Val Arg Leu Gly Pro Ala Phe Ser Met Ser Asn Thr 465 470 475 480 Trp Gln Tyr Phe Thr Gly Tyr Arg Phe Gly Val Phe Asn Phe Ala Thr 485 490 495 Lys Glu Leu Gly Gly Glu Val Lys Val Lys Ser Phe Gln Met Gln Pro 500 505 510 Leu 531851DNAArtificial sequenceSynthetic polynucleotide 53atgacgatgc tcaagtcggc cctccccgcg gcgctggccc tcctcctaac ggcggccaac 60ggccaccctt ccaggacccc ggcggcggcg gcggcggggg gatgggcacc gctggcgaat 120gggacattcc ggaacccgat cctgtacgag gacttcccgg acaacgacgt gtcggtcggg 180ccggacgggg ccttctacct gtcggcgtcc aacttccact tcagccccgg ggcgcccatc 240ctgcggtctt acgacctggt cgactgggag tttgtgggcc actcgatccc gcgcctcgac 300ttcggcgccg gctacgacct gccgccgacg ggcgagcggg cgtaccgcgc gggcacgtgg 360gcgtcgacgc tgcggtaccg cgagagcacg gggctctggt actggatcgg gtgcaccaac 420ttctggcgca cctgggtctt caccgccccg gcgcccgagg ggccctggac ccgggcgggc 480gacttcggcg acggcgtgtg cttctacgac aacggcctgc tggtcgacga cgacgacacc 540atgtacgtcg tctacaccca cgacggcggc aagcgggtcc acgtgaccca gctgagcgcg 600gacgggctga gcgccgtccg caccgagacc gtcctggtgc cggagcaggc cggcgtcgac 660gccctcgagg gcaaccgcat gtacaagatc gacggccgct actacatcct caacgaccac 720ccgggcacca ccgcctacgt ctggaagtcc gactcgccct ggggtcccta cgagggcaag 780gcgctggccg acaacgtcgc cagccccctg cccggcggcg gcgccccgca ccagggcagc 840ctggtgccca cgccctcggg cgcctggtac tttatgtcct tcacctgggc ctacccgtcc 900ggccgcctgc ccgtgctggc cccgatcgag ttccagccgg acgggttccc gaccctcggc 960gcctggtact ttatgtcctt cacctgggcc tacccgtccg gccgcctgcc cgtgctggcc 1020ccgatcgagt tccagccgga cgggttcccg accctcgtca ccgccaagga caacaacaac 1080aacaacaaca acaacgcctg gggcgccagc tacccgctgc cgccgctacc gcgccggccg 1140ctgggctacc cgtggtcgcg ggcgcggtac gacttcagcg cgctcgccga actgccgccc 1200gcgttcgagt ggaaccacaa cccggacgcg agcaactaca cgctgggagg gaacggcgct 1260gccggcctga tcctgcgggc cgccaccgtc gcgcccgacg acgacctgta ctcggcgcgc 1320aacacgctga cgcaccgcgc ccacgggccc ttcccctcgg ccacgctggt cctcgacgtc 1380gcggacatgg ccgacggcga ccgcgccggg ctggccgcct tccgcgaccg cagtgcctac 1440atcggcatcc actgctcctc ctcctctgat gagaagaaga agaagacgta cgaggtggtg 1500gcgcgattca acatgacgct ggacgagtgg ggcagcggcg agacgctcga tctgggcgag 1560gtggtggagc gggtcgagct ggcctcgggc gtgacgcgcg tgtggctgcg ggcgagcatg 1620gacgcgcggc ccgacggcga gcggacggcc cggttcgggt acagcgtcga cgggggcgag 1680acctttgccg gcctggggcc cgcctaccaa ctctacgccg ggtggccctt ctttgtcggc 1740taccgcttcg ccgtcttcaa ctacgccacc aaggccctcg gcgggagcgt caccgtcctg 1800agcctcgaga ccgactcggg cgagggtgag cgcgatgccg agcaagcgtg a 185154616PRTArtificial sequenceSynthetic polypeptide 54Met Thr Met Leu Lys Ser Ala Leu Pro Ala Ala Leu Ala Leu Leu Leu 1 5 10 15 Thr Ala Ala Asn Gly His Pro Ser Arg Thr Pro Ala Ala Ala Ala Ala 20 25 30 Gly Gly Trp Ala Pro Leu Ala Asn Gly Thr Phe Arg Asn Pro Ile Leu 35 40 45 Tyr Glu Asp Phe Pro Asp Asn Asp Val Ser Val Gly Pro Asp Gly Ala 50 55 60 Phe Tyr Leu Ser Ala Ser Asn Phe His Phe Ser Pro Gly Ala Pro Ile 65 70 75 80 Leu Arg Ser Tyr Asp Leu Val Asp Trp Glu Phe Val Gly His Ser Ile 85 90 95 Pro Arg Leu Asp Phe Gly Ala Gly Tyr Asp Leu Pro Pro Thr Gly Glu 100 105 110 Arg Ala Tyr Arg Ala Gly Thr Trp Ala Ser Thr Leu Arg Tyr Arg Glu 115 120 125 Ser Thr Gly Leu Trp Tyr Trp Ile Gly Cys Thr Asn Phe Trp Arg Thr 130 135 140 Trp Val Phe Thr Ala Pro Ala Pro Glu Gly Pro Trp Thr Arg Ala Gly 145 150 155 160 Asp Phe Gly Asp Gly Val Cys Phe Tyr Asp Asn Gly Leu Leu Val Asp 165 170 175 Asp Asp Asp Thr Met Tyr Val Val Tyr Thr His Asp Gly Gly Lys Arg 180 185 190 Val His Val Thr Gln Leu Ser Ala Asp Gly Leu Ser Ala Val Arg Thr 195 200 205 Glu Thr Val Leu Val Pro Glu Gln Ala Gly Val Asp Ala Leu Glu Gly 210 215 220 Asn Arg Met Tyr Lys Ile Asp Gly Arg Tyr Tyr Ile Leu Asn Asp His 225 230 235 240 Pro Gly Thr Thr Ala Tyr Val Trp Lys Ser Asp Ser Pro Trp Gly Pro 245 250 255 Tyr Glu Gly Lys Ala Leu Ala Asp Asn Val Ala Ser Pro Leu Pro Gly 260 265 270 Gly Gly Ala Pro His Gln Gly Ser Leu Val Pro Thr Pro Ser Gly Ala 275 280 285 Trp Tyr Phe Met Ser Phe Thr Trp Ala Tyr Pro Ser Gly Arg Leu Pro 290 295 300 Val Leu Ala Pro Ile Glu Phe Gln Pro Asp Gly Phe Pro Thr Leu Gly 305 310 315 320 Ala Trp Tyr Phe Met Ser Phe Thr Trp Ala Tyr Pro Ser Gly Arg Leu 325 330 335 Pro Val Leu Ala Pro Ile Glu Phe Gln Pro Asp Gly Phe Pro Thr Leu 340 345 350 Val Thr Ala Lys Asp Asn Asn Asn Asn Asn Asn Asn Asn Ala Trp Gly 355 360 365 Ala Ser Tyr Pro Leu Pro Pro Leu Pro Arg Arg Pro Leu Gly Tyr Pro 370 375 380 Trp Ser Arg Ala Arg Tyr Asp Phe Ser Ala Leu Ala Glu Leu Pro Pro 385 390 395 400 Ala Phe Glu Trp Asn His Asn Pro Asp Ala Ser Asn Tyr Thr Leu Gly 405 410 415 Gly Asn Gly Ala Ala Gly Leu Ile Leu Arg Ala Ala Thr Val Ala Pro 420 425 430 Asp Asp Asp Leu Tyr Ser Ala Arg Asn Thr Leu Thr His Arg Ala His 435 440 445 Gly Pro Phe Pro Ser Ala Thr Leu Val Leu Asp Val Ala Asp Met Ala 450 455 460 Asp Gly Asp Arg Ala Gly Leu Ala Ala Phe Arg Asp Arg Ser Ala Tyr 465 470 475 480 Ile Gly Ile His Cys Ser Ser Ser Ser Asp Glu Lys Lys Lys Lys Thr 485 490 495 Tyr Glu Val Val Ala Arg Phe Asn Met Thr Leu Asp Glu Trp Gly Ser 500 505 510 Gly Glu Thr Leu Asp Leu Gly Glu Val Val Glu Arg Val Glu Leu Ala 515 520 525 Ser Gly Val Thr Arg Val Trp Leu Arg Ala Ser Met Asp Ala Arg Pro 530 535 540 Asp Gly Glu Arg Thr Ala Arg Phe Gly Tyr Ser Val Asp Gly Gly Glu 545 550 555 560 Thr Phe Ala Gly Leu Gly Pro Ala Tyr Gln Leu Tyr Ala Gly Trp Pro 565 570 575 Phe Phe Val Gly Tyr Arg Phe Ala Val Phe Asn Tyr Ala Thr Lys Ala 580 585 590 Leu Gly Gly Ser Val Thr Val Leu Ser Leu Glu Thr Asp Ser Gly Glu 595 600 605 Gly Glu Arg Asp Ala Glu Gln Ala 610 615 55595PRTArtificial sequenceSynthetic polypeptide 55His Pro Ser Arg Thr Pro Ala Ala Ala Ala Ala Gly Gly Trp Ala Pro 1 5 10 15 Leu Ala Asn Gly Thr Phe Arg Asn Pro Ile Leu Tyr Glu Asp Phe Pro 20 25 30 Asp Asn Asp Val Ser Val Gly Pro Asp Gly Ala Phe Tyr Leu Ser Ala 35 40 45 Ser Asn Phe His Phe Ser Pro Gly Ala Pro Ile Leu Arg Ser Tyr Asp 50 55 60 Leu Val Asp Trp Glu Phe Val Gly His Ser Ile Pro Arg Leu Asp Phe 65 70 75 80 Gly Ala Gly Tyr Asp Leu Pro Pro Thr Gly Glu Arg Ala Tyr Arg Ala 85 90 95 Gly Thr Trp Ala Ser Thr Leu Arg Tyr Arg Glu Ser Thr Gly Leu Trp 100 105 110 Tyr Trp Ile Gly Cys Thr Asn Phe Trp Arg Thr Trp Val Phe Thr Ala 115 120 125 Pro Ala Pro Glu Gly Pro Trp Thr Arg Ala Gly Asp Phe Gly Asp Gly 130 135 140 Val Cys Phe Tyr Asp Asn Gly Leu Leu Val Asp Asp Asp Asp Thr Met 145 150 155 160 Tyr Val Val Tyr Thr His Asp Gly Gly Lys Arg Val His Val Thr Gln 165 170 175 Leu Ser Ala Asp Gly Leu Ser Ala Val Arg Thr Glu Thr Val Leu Val 180 185 190 Pro Glu Gln Ala Gly Val Asp Ala Leu Glu Gly Asn Arg Met Tyr Lys 195 200 205 Ile Asp Gly Arg Tyr Tyr Ile Leu Asn Asp His Pro Gly Thr Thr Ala 210 215 220 Tyr Val Trp Lys Ser Asp Ser Pro Trp Gly Pro Tyr Glu Gly Lys Ala 225 230 235 240 Leu Ala Asp Asn Val Ala Ser Pro Leu Pro Gly Gly Gly Ala Pro His 245 250 255 Gln Gly Ser Leu Val Pro Thr Pro Ser Gly Ala Trp Tyr Phe Met Ser 260 265 270 Phe Thr Trp Ala Tyr Pro Ser Gly Arg Leu Pro Val Leu Ala Pro Ile 275 280 285 Glu Phe Gln Pro Asp Gly Phe Pro Thr Leu Gly Ala Trp Tyr Phe Met 290 295 300 Ser Phe Thr Trp Ala Tyr Pro Ser Gly Arg Leu Pro Val Leu Ala Pro 305 310 315 320 Ile Glu Phe Gln Pro Asp Gly Phe Pro Thr Leu Val Thr Ala Lys Asp 325 330 335 Asn Asn Asn Asn Asn Asn Asn Asn Ala Trp Gly Ala Ser Tyr Pro Leu 340 345 350 Pro Pro Leu Pro Arg Arg Pro Leu Gly Tyr Pro Trp Ser Arg Ala Arg 355 360 365 Tyr Asp Phe Ser Ala Leu Ala Glu Leu Pro Pro Ala Phe Glu Trp Asn 370 375 380 His Asn Pro Asp Ala Ser Asn Tyr Thr Leu Gly Gly Asn Gly Ala Ala 385 390 395 400 Gly Leu Ile Leu Arg Ala Ala Thr Val Ala Pro Asp Asp Asp Leu Tyr 405 410 415 Ser Ala Arg Asn Thr Leu Thr His Arg Ala His Gly Pro Phe Pro Ser 420 425 430 Ala Thr Leu Val Leu Asp Val Ala Asp Met Ala Asp Gly Asp Arg Ala 435 440 445 Gly Leu Ala Ala Phe Arg Asp Arg Ser Ala Tyr Ile Gly Ile His Cys 450 455 460 Ser Ser Ser Ser Asp Glu Lys Lys Lys Lys Thr Tyr Glu Val Val Ala 465 470 475 480 Arg Phe Asn Met Thr Leu Asp Glu Trp Gly Ser Gly Glu Thr Leu Asp 485 490 495 Leu Gly Glu Val Val Glu Arg Val Glu Leu Ala Ser Gly Val Thr Arg 500 505 510 Val Trp Leu Arg Ala Ser Met Asp Ala Arg Pro Asp Gly Glu Arg Thr 515 520 525 Ala Arg Phe Gly Tyr Ser Val Asp Gly Gly Glu Thr Phe Ala Gly Leu 530 535 540 Gly Pro Ala Tyr Gln Leu Tyr Ala Gly Trp Pro Phe Phe Val Gly Tyr 545 550 555 560 Arg Phe Ala Val Phe Asn Tyr Ala Thr Lys Ala Leu Gly Gly Ser Val 565 570 575 Thr Val Leu Ser Leu Glu Thr Asp Ser Gly Glu Gly Glu Arg Asp Ala 580 585 590 Glu Gln Ala 595 56348DNAMyceliophthora thermophila 56atgctgaacc tatcccacac cgagcacact ctctttcgcc ctctccccct ttccctccct 60catcaccacc accaccacca cttcattgtc ggccgccgcc cgcccgaggc gctgcgcggc 120gccatcacgc gccacatccg cgccgtcgcc ggctactacc gcggccgctg ctacgcctgg 180gacgtggtca acgaggcgct cgacgaggac ggcacctacc gcaagagcct cttctacaac 240gtcctcggcg acgagtacat ccgcatcgtc aagaccttcg agaagctgat ccgcgagaag 300ccaaagccgg gcttcaagcg caagaggaaa accgtagcag caaactaa 34857115PRTMyceliophthora thermophila 57Met Leu Asn Leu Ser His Thr Glu His Thr Leu Phe Arg Pro Leu Pro 1 5 10 15 Leu Ser Leu Pro His His His His His His His Phe Ile Val Gly Arg 20 25 30 Arg Pro Pro Glu Ala Leu Arg Gly Ala Ile Thr Arg His Ile Arg Ala 35 40 45 Val Ala Gly Tyr Tyr Arg Gly Arg Cys Tyr Ala Trp Asp Val Val Asn 50 55 60 Glu Ala Leu Asp Glu Asp Gly Thr Tyr Arg Lys Ser Leu Phe Tyr Asn 65 70 75 80 Val Leu Gly Asp Glu Tyr Ile Arg Ile Val Lys Thr Phe Glu Lys Leu 85 90 95 Ile Arg Glu Lys Pro Lys Pro Gly Phe Lys Arg Lys Arg Lys Thr Val 100 105 110 Ala Ala Asn 115 582466DNAArtificial sequenceSynthetic polynucleotide 58atggaggagg aagcgactcc aagaccccaa tcgagtatcg tgcagatgca gaggcacatg 60ctcaactcgc gctggcatgc caggcgtttg gccaacaaac cccacggcgt cttcccaagc 120ttggatggac atctaaggac ctacaccaag gatatccgac cagccccgac ctggcgggtc 180ggacaatggc tcgtggccga gggcgtacaa gtccaatacg ccgaggaagt ataccgaatc 240actcccacgg cctcgggcaa gggaatcagc ctcttgtgcc cgacgcgcaa gatcttgaac 300cgtgggaaca ctctgaacct ggcaacgctc agcatcgaca tcgagccggc ttttgatggc 360gtcctctctg tcgagaccac ccactggcaa ggcgccgtcc gtcgcggacc cgacttcgac 420ctcttccccg ccggccggcc cgaggtggac gccaaggtga ccaagacgga gagcggcacc 480accctgtcgt ccgggacgct ctcggcgaca gtcagcggca agccgcacga gttcgagatc 540gccttccatc cgaccggggg caagaagccc ctgaccaccc tgctcaaccg gtcagtcggc 600ctggcctaca cgcccgcccc gagcacgccc atgcagctgg ccgacatgcg caacttccgc 660cactacatct tcacccagac caccctcgcc gtcggcgagt ccatccacgg gctcggcgag 720cgcttcgggc ccttcaacaa ggtcggccag agggtcgagc tgtggaacgc ggacgggggc 780acctcgtccg accaggcgta caagaacgtg ggcttctgga tgagctcgcg cggctacggt 840gtcttcgtcg acactcccgg gcgcgtcgag ctcgagatcg ggagcgagcg gtgctgccgg 900ctccagacga gcgtcgaggg gcagcggctc cgctggttca tcatctacgg gccctccccg 960cgcgacatcc tgcgccggta ctcggtcctc accggagccc ccggcagcgt gcccagctgg 1020tccttcggcc tgtggctcag cacgtccttc accacctcgt acgacgagga gacggtcaac 1080agcttcctgg ccggcatgag ggcgcgcgac atacccgtcg aggtcttcca cttcgactgc 1140ttctggctca aggcgttcca gtggtgcgac ttcgagttcg accgcgacat gttcccggac 1200ccgaggggcc agatcgggcg cctcaaggcc ggcggcctcg tcaagaaggt ctgcgtctgg 1260acgaacccgt acctgggcca ggcgtccccc gtcttcgccg aggccgcggc caggggctac 1320ctgctccggc gcaggaacgg cgacgtcttc cagtgggacc tgtggcagac gggcatgggc 1380atcgtcgact tcaccaaccc ggacgcccgc gcctggttcg ccgcctgtct cgaccgcctc 1440ttcgacacgg gcgtcgactg catcaagacc gactttggcg agcgcatccc ctccgaggat 1500gtgcagtggt tcgacccttc ggtcgacccg gagcggatgc acaactacta cgccttcatc 1560tacaacaagc tcgtctacga ggccctgcag aggcgttacg gcgccaacga ggccgtcctg 1620ttcgcccgcg ccgccaccgc cggctgccag cggttccccc tcacctgggg cggcgactgc 1680gagtcgaccc ccgaggccat ggccgagtcg ctacgcggtg gtttgtccct cggcctgtcc 1740gggttcgcct tctggagcgt cgacattggc ggcttcgagg ggtcgccgcc tccctggatc 1800tacaagcgct gggtcgcctt cggcctcctc tgctcccact cgcgcctgca cggctccaac 1860tcgtaccggg tcccctggac ggtcgacggc gacgaccagt ccgaggaggg atgctccgcc

1920acgctgcgca agtggaccca tctcaaggct cgcctgatgc cctacctctt ctcccaggcg 1980caggagagcg tccggggcgg gctcccgctc agcctgaggg ccatgtgcat cgagttcccc 2040gacgacccga ccgcctggac cctcgatcgc cagttcatgc tcggcgacgg cctcctcgtc 2100gcccccgtct tcgaggagga cggcaccgtc gagttctacc tgcccagggg caagtggacc 2160aacttcttca ccggcgaggt caaggagggc cccggctggt tcgccgagac ccacgggttc 2220ggcaccctgc cgctctacgt ccggcccaac acgctcctgg ttctgggcaa ggaaggagag 2280acgaggaccg tgtacgacta cacgagcgac gtcgaggtga gggcgtattt tgccagtgac 2340agcgccagcg ccgtgctggt cgacgccgag ggcaagactg taggtaccct gcgtgtcaag 2400gacggggaga ttatcggaaa ggaactgcta tctggcaact cggtcatcaa tgtcgtgagc 2460tcctga 246659821PRTArtificial sequenceSynthetic polypeptide 59Met Glu Glu Glu Ala Thr Pro Arg Pro Gln Ser Ser Ile Val Gln Met 1 5 10 15 Gln Arg His Met Leu Asn Ser Arg Trp His Ala Arg Arg Leu Ala Asn 20 25 30 Lys Pro His Gly Val Phe Pro Ser Leu Asp Gly His Leu Arg Thr Tyr 35 40 45 Thr Lys Asp Ile Arg Pro Ala Pro Thr Trp Arg Val Gly Gln Trp Leu 50 55 60 Val Ala Glu Gly Val Gln Val Gln Tyr Ala Glu Glu Val Tyr Arg Ile 65 70 75 80 Thr Pro Thr Ala Ser Gly Lys Gly Ile Ser Leu Leu Cys Pro Thr Arg 85 90 95 Lys Ile Leu Asn Arg Gly Asn Thr Leu Asn Leu Ala Thr Leu Ser Ile 100 105 110 Asp Ile Glu Pro Ala Phe Asp Gly Val Leu Ser Val Glu Thr Thr His 115 120 125 Trp Gln Gly Ala Val Arg Arg Gly Pro Asp Phe Asp Leu Phe Pro Ala 130 135 140 Gly Arg Pro Glu Val Asp Ala Lys Val Thr Lys Thr Glu Ser Gly Thr 145 150 155 160 Thr Leu Ser Ser Gly Thr Leu Ser Ala Thr Val Ser Gly Lys Pro His 165 170 175 Glu Phe Glu Ile Ala Phe His Pro Thr Gly Gly Lys Lys Pro Leu Thr 180 185 190 Thr Leu Leu Asn Arg Ser Val Gly Leu Ala Tyr Thr Pro Ala Pro Ser 195 200 205 Thr Pro Met Gln Leu Ala Asp Met Arg Asn Phe Arg His Tyr Ile Phe 210 215 220 Thr Gln Thr Thr Leu Ala Val Gly Glu Ser Ile His Gly Leu Gly Glu 225 230 235 240 Arg Phe Gly Pro Phe Asn Lys Val Gly Gln Arg Val Glu Leu Trp Asn 245 250 255 Ala Asp Gly Gly Thr Ser Ser Asp Gln Ala Tyr Lys Asn Val Gly Phe 260 265 270 Trp Met Ser Ser Arg Gly Tyr Gly Val Phe Val Asp Thr Pro Gly Arg 275 280 285 Val Glu Leu Glu Ile Gly Ser Glu Arg Cys Cys Arg Leu Gln Thr Ser 290 295 300 Val Glu Gly Gln Arg Leu Arg Trp Phe Ile Ile Tyr Gly Pro Ser Pro 305 310 315 320 Arg Asp Ile Leu Arg Arg Tyr Ser Val Leu Thr Gly Ala Pro Gly Ser 325 330 335 Val Pro Ser Trp Ser Phe Gly Leu Trp Leu Ser Thr Ser Phe Thr Thr 340 345 350 Ser Tyr Asp Glu Glu Thr Val Asn Ser Phe Leu Ala Gly Met Arg Ala 355 360 365 Arg Asp Ile Pro Val Glu Val Phe His Phe Asp Cys Phe Trp Leu Lys 370 375 380 Ala Phe Gln Trp Cys Asp Phe Glu Phe Asp Arg Asp Met Phe Pro Asp 385 390 395 400 Pro Arg Gly Gln Ile Gly Arg Leu Lys Ala Gly Gly Leu Val Lys Lys 405 410 415 Val Cys Val Trp Thr Asn Pro Tyr Leu Gly Gln Ala Ser Pro Val Phe 420 425 430 Ala Glu Ala Ala Ala Arg Gly Tyr Leu Leu Arg Arg Arg Asn Gly Asp 435 440 445 Val Phe Gln Trp Asp Leu Trp Gln Thr Gly Met Gly Ile Val Asp Phe 450 455 460 Thr Asn Pro Asp Ala Arg Ala Trp Phe Ala Ala Cys Leu Asp Arg Leu 465 470 475 480 Phe Asp Thr Gly Val Asp Cys Ile Lys Thr Asp Phe Gly Glu Arg Ile 485 490 495 Pro Ser Glu Asp Val Gln Trp Phe Asp Pro Ser Val Asp Pro Glu Arg 500 505 510 Met His Asn Tyr Tyr Ala Phe Ile Tyr Asn Lys Leu Val Tyr Glu Ala 515 520 525 Leu Gln Arg Arg Tyr Gly Ala Asn Glu Ala Val Leu Phe Ala Arg Ala 530 535 540 Ala Thr Ala Gly Cys Gln Arg Phe Pro Leu Thr Trp Gly Gly Asp Cys 545 550 555 560 Glu Ser Thr Pro Glu Ala Met Ala Glu Ser Leu Arg Gly Gly Leu Ser 565 570 575 Leu Gly Leu Ser Gly Phe Ala Phe Trp Ser Val Asp Ile Gly Gly Phe 580 585 590 Glu Gly Ser Pro Pro Pro Trp Ile Tyr Lys Arg Trp Val Ala Phe Gly 595 600 605 Leu Leu Cys Ser His Ser Arg Leu His Gly Ser Asn Ser Tyr Arg Val 610 615 620 Pro Trp Thr Val Asp Gly Asp Asp Gln Ser Glu Glu Gly Cys Ser Ala 625 630 635 640 Thr Leu Arg Lys Trp Thr His Leu Lys Ala Arg Leu Met Pro Tyr Leu 645 650 655 Phe Ser Gln Ala Gln Glu Ser Val Arg Gly Gly Leu Pro Leu Ser Leu 660 665 670 Arg Ala Met Cys Ile Glu Phe Pro Asp Asp Pro Thr Ala Trp Thr Leu 675 680 685 Asp Arg Gln Phe Met Leu Gly Asp Gly Leu Leu Val Ala Pro Val Phe 690 695 700 Glu Glu Asp Gly Thr Val Glu Phe Tyr Leu Pro Arg Gly Lys Trp Thr 705 710 715 720 Asn Phe Phe Thr Gly Glu Val Lys Glu Gly Pro Gly Trp Phe Ala Glu 725 730 735 Thr His Gly Phe Gly Thr Leu Pro Leu Tyr Val Arg Pro Asn Thr Leu 740 745 750 Leu Val Leu Gly Lys Glu Gly Glu Thr Arg Thr Val Tyr Asp Tyr Thr 755 760 765 Ser Asp Val Glu Val Arg Ala Tyr Phe Ala Ser Asp Ser Ala Ser Ala 770 775 780 Val Leu Val Asp Ala Glu Gly Lys Thr Val Gly Thr Leu Arg Val Lys 785 790 795 800 Asp Gly Glu Ile Ile Gly Lys Glu Leu Leu Ser Gly Asn Ser Val Ile 805 810 815 Asn Val Val Ser Ser 820 602553DNAArtificial sequenceSynthetic polynucleotide 60atggccagca gccggtaccg gtacacgttc ccgaggaatc cgaaggccaa tccgaaggcc 60gtcgtgacag gcggcaaggg atcctcttac tatcgcttca ccctcctcac cgaacggttg 120atccgttacg agtggtccga ggacggaggc ttcgaggatc gcgcgtccac gttcgcggta 180ttcagatact ttgatgcccc gcagtaccgc gttgtcgaga caaacgacag tctcgagatc 240atcacggact actttcacct cacctatgac aagaagaagt tctcatcgga aggactttcc 300gtcagagtcg gctccgacct ctggaattac gacggcaaga gttatggaga cctgggcggc 360accgcccgga ccctagacgg cgcctatggc cgcgtggacc tggaaccggg tgtgctctcg 420cgcaaagctt atgcggttct cgacgacagc aagtctatgc tctttgacga cgacgggtgg 480attgccattc gcgagccggg ccgcattgac ggttacgtgt ttgcctacag cggcgagcac 540aaggccgcca tcagggactt ctaccgcctc tccgggcgtc agccggtgct cccccgctgg 600gtgctgggga actggtggtc caggtaccac gcatactcgg ccgacgaata catcgagctt 660atggaccact tcaaacgcga aggaatcccg ctcacgacga gcatcgtgga tatggactgg 720caccgggttg acgacgtccc gcccaagtac ggctcaggat ggacgggcta cagctggaac 780cgcaagctgt tcccggaccc cgaggggttc ctgcaggagc tgcgtaatcg gaacctgaaa 840gtggccctca acgaccaccc ggcggacggc atccgggcgt atgaggatct gtacccggcg 900gtggccaagg ccctgaatca cgacacgtcg cgagaggaac cgatcaagtt tgactgcacc 960gatcgcaagt tcatggacgc ctacttcgac gttctgaagc tcagccttga gaagcagggc 1020gtcatgttct ggtggatcga ctggcagcaa ggcaccggca gcaagctccc cagcgtagac 1080ccgctgtggg tgctcaatca ctaccactac ctcaccagta agcgcaacgc gaaagacatc 1140caacgtccca tcacattctc ccgctacgcc ggcgccggtg cccatcggta cccgatcggc 1200ttctcgggcg acacgcagac gacttgggaa ggtctcgagt tccagcccga gtttaccgca 1260acggcatcca acatcggcta tggctggtgg agccacgaca tcggcgggca ttggggcggc 1320gtccgctcca accagctgac ggtccgctgg gtccagctgg gctgcttctc cccgatcctg 1380cggctgcact cgaacaagag cccgtggaac tcgagagagc cgtggaacta cgaggacgag 1440gcgcacagga tcatgaagga cttcctcatc ctgcgccacc gcctcatccc cttcctctac 1500accatgaaca tccgggccag ctacgagagc gagccgctca tccagcccat gtactggaat 1560cacccgaagg acgaagaggc ctacacggtg ccgacgcagt actacttcgg gccggacctc 1620ctcgtggccc ccatcacgtc tcccaacagc accgtcaccc tgatgggccg cgtgcgcgcc 1680tggctgccgc cgggccggta cgtcgacctg ttctacccgc acctggtcta cgacggcggc 1740cggtacatgc acctgcaccg cgacctgtcg cagatccccg tgctcgcgcg ggagggcacc 1800atcgtgccgc tggacacgac gcccaggacg ggccacggcg ccgcgcggcc gaccgagatc 1860accctcctcc tcgtcgtcgg ccgggacgcg cactttgagc tggtcgagga gccggagcag 1920caggaccacc atcgccacgg cggcggcgac gacggcgatg accaaccccc gctcagcgcg 1980ttcgcccgga cccccatctc gtggtcgcag gcggacggcg tgctcaccat cgggccggag 2040tggaacggcg ccggggcccg ccgctggcgg cagtggaacg tcaagctggt cgggcacacc 2100aacacggacg tgcaggcgca ggtgcccggg ttccgggtca cgcgcgacgt cgagggcggg 2160tgcacgacgg tggcgctcgg caacgtgcac cggtggcagc agccgcacca gcgggacggc 2220ggcgggttcg agatctcgct ggggcgcgac ctgcagctgg acgtggtgga cgtgcgcgcg 2280cgcgccttcg aggtcctgca ccgggccgag atggggtacg aggccaagga ccccgtctgg 2340gacgtcttca cgtccggcga cgcggtgcag acgcgggtgc agcggctggc ggcgctcgac 2400gtcgacgccg cgctcaagaa cgccctcatg gaggtctggg cggccgacgg gcgggccgag 2460ggcagcgcgg cgggctacga gacctgggtg gacgtgaagg cgtgcgcggg agacgcggtc 2520gaggaggcgc tcaaggagta cgttatcgtg tga 255361850PRTArtificial sequenceSynthetic polypeptide 61Met Ala Ser Ser Arg Tyr Arg Tyr Thr Phe Pro Arg Asn Pro Lys Ala 1 5 10 15 Asn Pro Lys Ala Val Val Thr Gly Gly Lys Gly Ser Ser Tyr Tyr Arg 20 25 30 Phe Thr Leu Leu Thr Glu Arg Leu Ile Arg Tyr Glu Trp Ser Glu Asp 35 40 45 Gly Gly Phe Glu Asp Arg Ala Ser Thr Phe Ala Val Phe Arg Tyr Phe 50 55 60 Asp Ala Pro Gln Tyr Arg Val Val Glu Thr Asn Asp Ser Leu Glu Ile 65 70 75 80 Ile Thr Asp Tyr Phe His Leu Thr Tyr Asp Lys Lys Lys Phe Ser Ser 85 90 95 Glu Gly Leu Ser Val Arg Val Gly Ser Asp Leu Trp Asn Tyr Asp Gly 100 105 110 Lys Ser Tyr Gly Asp Leu Gly Gly Thr Ala Arg Thr Leu Asp Gly Ala 115 120 125 Tyr Gly Arg Val Asp Leu Glu Pro Gly Val Leu Ser Arg Lys Ala Tyr 130 135 140 Ala Val Leu Asp Asp Ser Lys Ser Met Leu Phe Asp Asp Asp Gly Trp 145 150 155 160 Ile Ala Ile Arg Glu Pro Gly Arg Ile Asp Gly Tyr Val Phe Ala Tyr 165 170 175 Ser Gly Glu His Lys Ala Ala Ile Arg Asp Phe Tyr Arg Leu Ser Gly 180 185 190 Arg Gln Pro Val Leu Pro Arg Trp Val Leu Gly Asn Trp Trp Ser Arg 195 200 205 Tyr His Ala Tyr Ser Ala Asp Glu Tyr Ile Glu Leu Met Asp His Phe 210 215 220 Lys Arg Glu Gly Ile Pro Leu Thr Thr Ser Ile Val Asp Met Asp Trp 225 230 235 240 His Arg Val Asp Asp Val Pro Pro Lys Tyr Gly Ser Gly Trp Thr Gly 245 250 255 Tyr Ser Trp Asn Arg Lys Leu Phe Pro Asp Pro Glu Gly Phe Leu Gln 260 265 270 Glu Leu Arg Asn Arg Asn Leu Lys Val Ala Leu Asn Asp His Pro Ala 275 280 285 Asp Gly Ile Arg Ala Tyr Glu Asp Leu Tyr Pro Ala Val Ala Lys Ala 290 295 300 Leu Asn His Asp Thr Ser Arg Glu Glu Pro Ile Lys Phe Asp Cys Thr 305 310 315 320 Asp Arg Lys Phe Met Asp Ala Tyr Phe Asp Val Leu Lys Leu Ser Leu 325 330 335 Glu Lys Gln Gly Val Met Phe Trp Trp Ile Asp Trp Gln Gln Gly Thr 340 345 350 Gly Ser Lys Leu Pro Ser Val Asp Pro Leu Trp Val Leu Asn His Tyr 355 360 365 His Tyr Leu Thr Ser Lys Arg Asn Ala Lys Asp Ile Gln Arg Pro Ile 370 375 380 Thr Phe Ser Arg Tyr Ala Gly Ala Gly Ala His Arg Tyr Pro Ile Gly 385 390 395 400 Phe Ser Gly Asp Thr Gln Thr Thr Trp Glu Gly Leu Glu Phe Gln Pro 405 410 415 Glu Phe Thr Ala Thr Ala Ser Asn Ile Gly Tyr Gly Trp Trp Ser His 420 425 430 Asp Ile Gly Gly His Trp Gly Gly Val Arg Ser Asn Gln Leu Thr Val 435 440 445 Arg Trp Val Gln Leu Gly Cys Phe Ser Pro Ile Leu Arg Leu His Ser 450 455 460 Asn Lys Ser Pro Trp Asn Ser Arg Glu Pro Trp Asn Tyr Glu Asp Glu 465 470 475 480 Ala His Arg Ile Met Lys Asp Phe Leu Ile Leu Arg His Arg Leu Ile 485 490 495 Pro Phe Leu Tyr Thr Met Asn Ile Arg Ala Ser Tyr Glu Ser Glu Pro 500 505 510 Leu Ile Gln Pro Met Tyr Trp Asn His Pro Lys Asp Glu Glu Ala Tyr 515 520 525 Thr Val Pro Thr Gln Tyr Tyr Phe Gly Pro Asp Leu Leu Val Ala Pro 530 535 540 Ile Thr Ser Pro Asn Ser Thr Val Thr Leu Met Gly Arg Val Arg Ala 545 550 555 560 Trp Leu Pro Pro Gly Arg Tyr Val Asp Leu Phe Tyr Pro His Leu Val 565 570 575 Tyr Asp Gly Gly Arg Tyr Met His Leu His Arg Asp Leu Ser Gln Ile 580 585 590 Pro Val Leu Ala Arg Glu Gly Thr Ile Val Pro Leu Asp Thr Thr Pro 595 600 605 Arg Thr Gly His Gly Ala Ala Arg Pro Thr Glu Ile Thr Leu Leu Leu 610 615 620 Val Val Gly Arg Asp Ala His Phe Glu Leu Val Glu Glu Pro Glu Gln 625 630 635 640 Gln Asp His His Arg His Gly Gly Gly Asp Asp Gly Asp Asp Gln Pro 645 650 655 Pro Leu Ser Ala Phe Ala Arg Thr Pro Ile Ser Trp Ser Gln Ala Asp 660 665 670 Gly Val Leu Thr Ile Gly Pro Glu Trp Asn Gly Ala Gly Ala Arg Arg 675 680 685 Trp Arg Gln Trp Asn Val Lys Leu Val Gly His Thr Asn Thr Asp Val 690 695 700 Gln Ala Gln Val Pro Gly Phe Arg Val Thr Arg Asp Val Glu Gly Gly 705 710 715 720 Cys Thr Thr Val Ala Leu Gly Asn Val His Arg Trp Gln Gln Pro His 725 730 735 Gln Arg Asp Gly Gly Gly Phe Glu Ile Ser Leu Gly Arg Asp Leu Gln 740 745 750 Leu Asp Val Val Asp Val Arg Ala Arg Ala Phe Glu Val Leu His Arg 755 760 765 Ala Glu Met Gly Tyr Glu Ala Lys Asp Pro Val Trp Asp Val Phe Thr 770 775 780 Ser Gly Asp Ala Val Gln Thr Arg Val Gln Arg Leu Ala Ala Leu Asp 785 790 795 800 Val Asp Ala Ala Leu Lys Asn Ala Leu Met Glu Val Trp Ala Ala Asp 805 810 815 Gly Arg Ala Glu Gly Ser Ala Ala Gly Tyr Glu Thr Trp Val Asp Val 820 825 830 Lys Ala Cys Ala Gly Asp Ala Val Glu Glu Ala Leu Lys Glu Tyr Val 835 840 845 Ile Val 850 621614DNAMyceliophthora thermophila 62atgccgcagg ttcgaaaccc catcctcccc ggcttcaacc ccgacccttc catcctccgg 60gttggggatg actactacat cgccacttca acctttgagt ggtacccggg tgttcagatc 120caccactcca tggacctcgc aaactgggaa cttgtcaccc gtcccctaaa ccgcaagagc 180caactggata tgcgaggaga tccggacagc tgcggcatct gggctccctg cctgacgcat 240gacggcgaca ggttctggct ggtatacacg gacgtcaaac gcaaggacgg ctcgttcaag 300gacgcacaca actacatcgt cagtgcgccc gccatcgagg gtccctggtc ggaccccttc 360tatgtcaact cgtccgggtt cgacccctcg ctcttccatg acgacgacgg ccggaagtgg 420ttcgtcaaca tgatgtggga ccaccgcagc cgcccgcgaa cctttgccgg catcgcgctg 480caagagttcg accccaaggc cgggaagctg gttgggccgc gcaagaacat ttaccaaggc 540accgacctgg gcctcgtcga gggcccgcac ttgtacaagc gcaacgggtg gtactatctc 600ctgacagcag agggcgggac tggctatgag catgcctgca ccctcgcccg gtctcggaac 660atctggggcc cgtacgaaga tcacccgcag aagtacatct tgacgtctaa ggaccacccg 720cacgcagccc tgcagcgagc cggccacggc gacatcgtcg acacccccga cgggcgtacc 780tacgtcgttc

acctgaccgg ccggcccatc acgcagttcc gccgctgtgt cttggggcgc 840gagacggcca tccaggaggc ctactggggc gacgacgact ggctctacgt caagaacggc 900cctgtgccca gcctgttcgt ggacctcccg gccgcccgca acgacgacga ctactgggcc 960gagaagaggt acacgttcga ggcgggcctg cacaaggact tccagtggct gcgcacgccc 1020gagacggacc gcatcttcag gacggacaac gggaagttga cgctcatcgg ccgcgagtcc 1080atcggctcct ggttcgagca ggccctggtc gcccggcgcc agacgcactt ctcgtacgac 1140gccgagaccg tcatcgactt caagcctgcc gacgagcgcc agttcgccgg cctgacggcc 1200tattactgcc gctacaactt cttctacctg accgtcacgg cccactcgga cggccggcgg 1260gagctgctca tcatggcctc cgaggcctcc tggcccctcg gcgccctccg gtccccttat 1320ccgggacccg tccagatccc caacgagggc aaggtccggc tcgcgctcaa gatcaggggc 1380aaggagctgc agttctacta cgctctcgag ggcgaagagc taaaacagat tgggcccgta 1440ttcgacgcta gcatcgtttc tgacgagtgc ggcggccacc agaagcacgg cagcttcacg 1500ggcgccttcg tcggcgtggc tgcttccgac atcaacggta ctgctgccga ggcgaccttt 1560gactactttg tgtacaagcc cgtgcaccat gagagtgacc ggtacgagat ttaa 161463537PRTMyceliophthora thermophila 63Met Pro Gln Val Arg Asn Pro Ile Leu Pro Gly Phe Asn Pro Asp Pro 1 5 10 15 Ser Ile Leu Arg Val Gly Asp Asp Tyr Tyr Ile Ala Thr Ser Thr Phe 20 25 30 Glu Trp Tyr Pro Gly Val Gln Ile His His Ser Met Asp Leu Ala Asn 35 40 45 Trp Glu Leu Val Thr Arg Pro Leu Asn Arg Lys Ser Gln Leu Asp Met 50 55 60 Arg Gly Asp Pro Asp Ser Cys Gly Ile Trp Ala Pro Cys Leu Thr His 65 70 75 80 Asp Gly Asp Arg Phe Trp Leu Val Tyr Thr Asp Val Lys Arg Lys Asp 85 90 95 Gly Ser Phe Lys Asp Ala His Asn Tyr Ile Val Ser Ala Pro Ala Ile 100 105 110 Glu Gly Pro Trp Ser Asp Pro Phe Tyr Val Asn Ser Ser Gly Phe Asp 115 120 125 Pro Ser Leu Phe His Asp Asp Asp Gly Arg Lys Trp Phe Val Asn Met 130 135 140 Met Trp Asp His Arg Ser Arg Pro Arg Thr Phe Ala Gly Ile Ala Leu 145 150 155 160 Gln Glu Phe Asp Pro Lys Ala Gly Lys Leu Val Gly Pro Arg Lys Asn 165 170 175 Ile Tyr Gln Gly Thr Asp Leu Gly Leu Val Glu Gly Pro His Leu Tyr 180 185 190 Lys Arg Asn Gly Trp Tyr Tyr Leu Leu Thr Ala Glu Gly Gly Thr Gly 195 200 205 Tyr Glu His Ala Cys Thr Leu Ala Arg Ser Arg Asn Ile Trp Gly Pro 210 215 220 Tyr Glu Asp His Pro Gln Lys Tyr Ile Leu Thr Ser Lys Asp His Pro 225 230 235 240 His Ala Ala Leu Gln Arg Ala Gly His Gly Asp Ile Val Asp Thr Pro 245 250 255 Asp Gly Arg Thr Tyr Val Val His Leu Thr Gly Arg Pro Ile Thr Gln 260 265 270 Phe Arg Arg Cys Val Leu Gly Arg Glu Thr Ala Ile Gln Glu Ala Tyr 275 280 285 Trp Gly Asp Asp Asp Trp Leu Tyr Val Lys Asn Gly Pro Val Pro Ser 290 295 300 Leu Phe Val Asp Leu Pro Ala Ala Arg Asn Asp Asp Asp Tyr Trp Ala 305 310 315 320 Glu Lys Arg Tyr Thr Phe Glu Ala Gly Leu His Lys Asp Phe Gln Trp 325 330 335 Leu Arg Thr Pro Glu Thr Asp Arg Ile Phe Arg Thr Asp Asn Gly Lys 340 345 350 Leu Thr Leu Ile Gly Arg Glu Ser Ile Gly Ser Trp Phe Glu Gln Ala 355 360 365 Leu Val Ala Arg Arg Gln Thr His Phe Ser Tyr Asp Ala Glu Thr Val 370 375 380 Ile Asp Phe Lys Pro Ala Asp Glu Arg Gln Phe Ala Gly Leu Thr Ala 385 390 395 400 Tyr Tyr Cys Arg Tyr Asn Phe Phe Tyr Leu Thr Val Thr Ala His Ser 405 410 415 Asp Gly Arg Arg Glu Leu Leu Ile Met Ala Ser Glu Ala Ser Trp Pro 420 425 430 Leu Gly Ala Leu Arg Ser Pro Tyr Pro Gly Pro Val Gln Ile Pro Asn 435 440 445 Glu Gly Lys Val Arg Leu Ala Leu Lys Ile Arg Gly Lys Glu Leu Gln 450 455 460 Phe Tyr Tyr Ala Leu Glu Gly Glu Glu Leu Lys Gln Ile Gly Pro Val 465 470 475 480 Phe Asp Ala Ser Ile Val Ser Asp Glu Cys Gly Gly His Gln Lys His 485 490 495 Gly Ser Phe Thr Gly Ala Phe Val Gly Val Ala Ala Ser Asp Ile Asn 500 505 510 Gly Thr Ala Ala Glu Ala Thr Phe Asp Tyr Phe Val Tyr Lys Pro Val 515 520 525 His His Glu Ser Asp Arg Tyr Glu Ile 530 535 64984DNAMyceliophthora thermophila 64atggcgcccc tcatcaccaa catcttcacg gccgacccgt cggcccacgt cttcgagggc 60aagctcttca tatacccgtc gcacgatcgc gagacggaca tcaagttcaa cgacgacggc 120gaccagtacg acatggtcga ctaccacgta ttcagcaccg agtcgctgga cccggccgcc 180cccgtgaccg accacggcgt cgtgctccgg gccgaagacg tcccctgggt gtccaagcag 240ctctgggccc ccgacgccgc ctacaaggac ggcaggtact acctctactt ccccgcccgc 300gacaagcagg gcgtcttccg catcggcgtc gccgtcggcg accgccccga gggccccttc 360acccccgacc cggagcccat ccgggacagc tacagcatcg acccggccgt cttcgtcgac 420gacgacggcc gggcctacat gtactttggc gggctctggg gcggccagct gcagtgctac 480cagaagggca acggcatctt cgaccccgag tggctggggc ccagggagcc ctcgggcgag 540ggcgtccggg cgctggggcc gcgcgtcgcc cggctggcgg acgacatgcg ccagttcgcc 600agcgaggtga aggagatttc gatcctggcg cccgagacgg gcgagccgat cgcggccgac 660gaccacgacc gccgcttctt cgaggccgcc tggatgcaca agtacgacgg caagtactac 720ttcagctact ccaccggcga cacccactac ctcgtctacg ccgtcggcga cagcccctac 780gggcccttca cctacgccgg ccgcatcctc gagcccgtcc tcggctggac cacgcaccac 840tccatcgtcg agttccacgg ccgctggtgg ctcttccacc acgactgcga gctcagcggc 900ggagtcgacc acctgcgctc cgtcaaggtc aaggagatct tctacgacaa ggacggcaag 960attgtcactg aaaagcccga atag 98465327PRTMyceliophthora thermophila 65Met Ala Pro Leu Ile Thr Asn Ile Phe Thr Ala Asp Pro Ser Ala His 1 5 10 15 Val Phe Glu Gly Lys Leu Phe Ile Tyr Pro Ser His Asp Arg Glu Thr 20 25 30 Asp Ile Lys Phe Asn Asp Asp Gly Asp Gln Tyr Asp Met Val Asp Tyr 35 40 45 His Val Phe Ser Thr Glu Ser Leu Asp Pro Ala Ala Pro Val Thr Asp 50 55 60 His Gly Val Val Leu Arg Ala Glu Asp Val Pro Trp Val Ser Lys Gln 65 70 75 80 Leu Trp Ala Pro Asp Ala Ala Tyr Lys Asp Gly Arg Tyr Tyr Leu Tyr 85 90 95 Phe Pro Ala Arg Asp Lys Gln Gly Val Phe Arg Ile Gly Val Ala Val 100 105 110 Gly Asp Arg Pro Glu Gly Pro Phe Thr Pro Asp Pro Glu Pro Ile Arg 115 120 125 Asp Ser Tyr Ser Ile Asp Pro Ala Val Phe Val Asp Asp Asp Gly Arg 130 135 140 Ala Tyr Met Tyr Phe Gly Gly Leu Trp Gly Gly Gln Leu Gln Cys Tyr 145 150 155 160 Gln Lys Gly Asn Gly Ile Phe Asp Pro Glu Trp Leu Gly Pro Arg Glu 165 170 175 Pro Ser Gly Glu Gly Val Arg Ala Leu Gly Pro Arg Val Ala Arg Leu 180 185 190 Ala Asp Asp Met Arg Gln Phe Ala Ser Glu Val Lys Glu Ile Ser Ile 195 200 205 Leu Ala Pro Glu Thr Gly Glu Pro Ile Ala Ala Asp Asp His Asp Arg 210 215 220 Arg Phe Phe Glu Ala Ala Trp Met His Lys Tyr Asp Gly Lys Tyr Tyr 225 230 235 240 Phe Ser Tyr Ser Thr Gly Asp Thr His Tyr Leu Val Tyr Ala Val Gly 245 250 255 Asp Ser Pro Tyr Gly Pro Phe Thr Tyr Ala Gly Arg Ile Leu Glu Pro 260 265 270 Val Leu Gly Trp Thr Thr His His Ser Ile Val Glu Phe His Gly Arg 275 280 285 Trp Trp Leu Phe His His Asp Cys Glu Leu Ser Gly Gly Val Asp His 290 295 300 Leu Arg Ser Val Lys Val Lys Glu Ile Phe Tyr Asp Lys Asp Gly Lys 305 310 315 320 Ile Val Thr Glu Lys Pro Glu 325 6639DNAArtificial sequenceSynthetic polynucleotide 66tgatcctctt ccgtcatggt taccctcact cgcctggcg 396739DNAArtificial sequenceSynthetic polynucleotide 67tcgtttactt acttatcagc cgctgacggt gtactggga 396837DNAArtificial sequenceSynthetic polynucleotide 68tgatcctctt ccgtcatgtt cttcgcttct ctgctgc 376939DNAArtificial sequenceSynthetic polynucleotide 69tcgtttactt acttatcaat ccctaaactg ctccaatgg 397043DNAArtificial sequenceSynthetic polynucleotide 70tgtgctgatc ctcttccgtc atgaaggcct ctgtatcatg cct 437141DNAArtificial sequenceSynthetic polynucleotide 71gaggttcgtt tacttactta ttacctgtgc ctccccctgg c 417260DNAArtificial sequenceSynthetic polynucleotide 72tacaatcaac tatcaactat taactatatc gtaatacaca atgaaggcct ctgtatcatg 607340DNAArtificial sequenceSynthetic polynucleotide 73gcggcgcccc cggcgccttg ctgaccaggt tttgcagctt 407440DNAArtificial sequenceSynthetic polynucleotide 74aagctgcaaa acctggtcag caaggcgccg ggggcgccgc 407560DNAArtificial sequenceSynthetic polynucleotide 75tcagaacctc cttcagagag gttcgtttac ttacttatta cctgtgcctc cccctggcgg 60

Claims

1. A recombinant organism comprising a xylanase and/or xylosidase and/or biologically active xylanase and/or xylosidase fragment comprising (a) an amino acid sequence comprising at least about 70%, at least about 75%, at least about 80%, at least about 81%, at least 82%, at least about 83%, at least about 84%, at least about 85%, at least about 86%, at least about 87%, at least about 88%, at least about 89%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, or at least about 99% sequence identity to SEQ ID NO:8.

2. The recombinant organism of claim 1, wherein said isolated xylanase and/or xylosidase or biologically active xylanase and/or xylosidase fragment is a Myceliophthora thermophila xylanase, xylosidase and/or fragment.

3. A recombinant organism comprising at least one polynucleotide comprising at least one nucleic acid sequence encoding the xylanase and/or xylosidase of claim 1, wherein said polynucleotide comprises a sequence that has least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identity to SEQ ID NO:7.

4. An isolated xylanase and/or xylosidase and/or biologically active xylanase and/or xylosidase fragment comprising (a) an amino acid sequence comprising at least about 70%, at least about 75%, at least about 80%, at least about 81%, at least 82%, at least about 83%, at least about 84%, at least about 85%, at least about 86%, at least about 87%, at least about 88%, at least about 89%, at least about 90%, at least about 91%, at least about 92%, at least about 93%, at least about 94%, at least about 95%, at least about 96%, at least about 97%, at least about 98%, or at least about 99% sequence identity to SEQ ID NO:8.

5. An enzyme composition comprising the xylanase and/or xylosidase of claim 4.

6. The enzyme composition of claim 5, further comprising at least one additional enzyme, selected from cellulases, hemicellulases, xylanases, amylases, glucoamylases, proteases, esterases, and lipases.

7. A recombinant nucleic acid construct comprising at least one polynucleotide sequence, wherein the polynucleotide is selected from: (a) a polynucleotide that encodes a polypeptide comprising an amino acid sequence comprising at least 70%, at least 75%, at least 80%, at least 85%, at least 90%, at least 91%, at least 92%, at least 93%, at least 94%, at least 95%, at least 96%, at least 97%, at least 98%, or at least 99% identity to SEQ ID NO:8; (b) a polynucleotide that hybridizes under stringent hybridization conditions to at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NO:8; and/or (c) a polynucleotide that hybridizes under stringent hybridization conditions to the complement of at least a fragment of a polynucleotide that encodes a polypeptide comprising the amino acid sequence of SEQ ID NO:8.

8. The nucleic acid construct of claim 7, wherein the polynucleotide sequence is operably linked to a promoter.

9. The nucleic acid construct of claim 7, wherein said nucleic acid sequence is operably linked to at least one additional regulatory sequence.

10. A recombinant host cell that expresses at least one polynucleotide sequence encoding at least one xylanase and/or xylosidase of claim 4.

11. A recombinant host cell comprising at least one nucleic acid construct as provided in claim 7.

12. The recombinant host cell of claim 11, wherein said host cell comprises the polynucleotide sequence set forth in SEQ ID NO:7.

13. The recombinant host cell of claim 11, wherein at least one xylanase and/or xylosidase is produced by said cell.

14. The recombinant host cell of claim 11, wherein said host cell further produces at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), Type 2 cellobiohydrolases (CBH2), and GH61 enzymes.

15. The recombinant cell of claim 11, wherein said cell is a prokaryotic or eukaryotic cell.

16. A method for producing at least one fermentable sugar from a feedstock, comprising contacting the feedstock with the enzyme composition of claim 5, under culture conditions whereby fermentable sugars are produced.

17. The method of claim 16, wherein the enzyme composition further comprises at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), Type 2 cellobiohydrolases (CBH2), and GH61 enzymes.

18. A method of producing an end product from a feedstock, comprising: a) acting the feedstock with at least one enzyme composition of claim 5, under conditions whereby at least one fermentable sugar is produced from the substrate; and b) contacting the fermentable sugar with a microorganism under conditions such that the microorganism uses the fermentable sugar to produce an end-product.

19. A method for producing at least one fermentable sugar from a feedstock, comprising contacting the feedstock with the recombinant host cell of claim 11, under culture conditions whereby fermentable sugars are produced.

20. The method of claim 19, wherein the recombinant host cell further comprises at least one enzyme selected from endoglucanases (EG), β-glucosidases (BGL), Type 1 cellobiohydrolases (CBH1), Type 2 cellobiohydrolases (CBH2), and/or GH61 enzymes.

Images