Plant cell wall derived sugars as substrates for fungi and industry

The Sugar Industry and Cotton Crops

Volumn , Issue , 2011, Pages 65-94

  Battaglia, Evy ^a   Benoit, Isabelle ^a   Gruben, Birgit S ^a   De Vries, Ronald P ^a,b  

^a UTRECHT UNIVERSITY   (Netherlands)

^b CBS KNAW FUNGAL BIODIVERSITY CENTRE   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84892054757     PISSN: None     EISSN: None     Source Type: Book    
DOI: None     Document Type: Chapter

References (192)

1. Sun, J. X., Sun, X. F., Sun, R. C. & Su, Y. Q. (2004). Fractional extraction and structural characterization of sugarcane bagasse hemicelluloses Carbohydrate Polymers, 56, 195-204.
2. Sun., R., Fang, J. M., Rowlands, P. & Bolton, J. (1998). Physicochemical and Thermal Characterization of Wheat Straw Hemicelluloses and Cellulose. J. Agric. Food Chem., 46, 2804-2809
3. Sjostrom, E. (1993). Wood chemistry. Fundamentals and Applications., Second ed., San diego Academic press.
4. de Vries, R. P. & Visser, J. (2001). Aspergillus enzymes involved in degradation of plant cell wall polysaccharides. Microbiol Mol Biol Rev., 65, 497-522, table of contents.
5. O'Sullivan, A. C. (1997). Cellulose: the structure slowly unravels. Cellulose, 4, 173-207
6. Hayashi, T. (1989). Xyloglucans in the Primary Cell Wall. Annual Review of Plant Physiology and Plant Molecular Biology, 40, 139-168
7. Timell, T. E. (1967). Recent progress in the chemistry of wood hemicelluloses. Wood Science and Technology, 1, 45-70
8. Dan, S., Marton, I., Dekel, M., Bravdo, B. A., He, S., Withers, S. G. & Shoseyov, O. (2000). Cloning, expression, characterization, and nucleophile identification of family 3, Aspergillus niger beta-glucosidase. J Biol Chem., 275, 4973-4980
9. Duerksen, J. D. & Halvorson, H. (1958). Purification and properties of an inducible beta-glucosidase of yeast. J Biol Chem., 233, 1113-1120
10. Freer, S. N. (1985). Purification and characterization of the extracellular betaglucosidase produced by Candida wickerhamii. Arch Biochem Biophys, 243, 515-522
11. Hong, J., Tamaki, H., Yamamoto, K. & Kumagai, H. (2003). Cloning of a gene encoding thermostable cellobiohydrolase from Thermoascus aurantiacus and its expression in yeast. Appl Microbiol Biotechnol, 63, 42-50
12. Hou, Y., Wang, T., Long, H. & Zhu, H. (2007). Cloning, sequencing and expression analysis of the first cellulase gene encoding cellobiohydrolase 1 from a cold-adaptive Penicillium chrysogenum FS010. Acta Biochim Biophys Sin (Shanghai). 39, 101-107
13. Jayus, McDougall, B. M. & Seviour, R. J. (2004). Purification and characterization of the (1-->3)-beta-glucanases from Acremonium s. IMI 383068. FEMS Microbiol Lett, 230, 259-264
14. Krogh, K. B. R. M., Kastberg, H., Jørgensen, C. I., Berlin, A., Harris, P. V. & Olsson, L. (2009). Cloning of a GH5 endoglucanase from genus Penicillium and its binding to different lignins. Enzyme and Microbial Technology, 44, 359-367
15. Li, X., Pei, J., Wu, G. & Shao, W. (2005). Expression, purification and characterization of a recombinant beta-glucosidase from Volvariella Volvacea. Biotechnol Lett, 27, 1369-1373
16. Pandey, M. & Mishra, S. (1995). Cloning and expression of β-glucosidase gene from the yeast Pichia etchellsii. Journal of Fermentation and Bioengineering, 80, 446-453
17. Tong, C. C., Cole, A. L. & Shepherd, M. G. (1980). Purification and properties of the cellulases from the thermophilic fungus Thermoascus aurantiacus. Biochem J, 191, 83-94
18. Tsukada, T., Igarashi, K., Yoshida, M. & Samejima, M. (2006). Molecular cloning and characterization of two intracellular beta-glucosidases belonging to glycoside hydrolase family 1 from the basidiomycete Phanerochaete chrysosporium. Appl Microbiol Biotechnol, 73, 807-814
19. Béguin, P. (1990). Molecular biology of cellulose degradation. Annu Rev Microbiol, 44, 219-248
20. Clifton, D., Walsh, R. B. & Fraenkel, D. G. (1993). Functional studies of yeast glucokinase. J Bacteriol, 175, 3289-3294
21. Gancedo, J. M., Clifton, D. & Fraenkel, D. G. (1977). Yeast hexokinase mutants. J Biol Chem., 252, 4443-4444
22. Collins, T., Gerday, C. & Feller, G. (2005). Xylanases, xylanase families and extremophilic xylanases. FEMS Microbiol Rev., 29, 3-23
23. Beg, Q. K., Kapoor, M., Mahajan, L. & Hoondal, G. S. (2001). Microbial xylanases and their industrial applications: a review. Appl Microbiol Biotechnol, 56, 326-338
24. Chavez, R., Bull, P. & Eyzaguirre, J. (2006). The xylanolytic enzyme system from the genus Penicillium. J Biotechnol, 123, 413-433
25. Polizeli, M. L., Rizzatti, A. C., Monti, R., Terenzi, H. F., Jorge, J. A. & Amorim, D. S. (2005). Xylanases from fungi: properties and industrial applications. Appl Microbiol Biotechnol, 67, 577-591
26. Subramaniyan, S. & Prema, P. (2002). Biotechnology of microbial xylanases: enzymology, molecular biology, and application. Crit Rev Biotechnol, 22, 33-64
27. Sunna, A. & Antranikian, G. (1997). Xylanolytic enzymes from fungi and bacteria. Crit Rev Biotechnol, 17, 39-67
28. Biely, P., Kratky, Z., Kockova-Kratochvilova, A. & Bauer, S. (1978). Xylan-degrading activity in yeasts: growth on xylose, xylan and hemicelluloses. Folia Microbiol (Praha). 23, 366-371
29. Biely, P., Vrsanska, M. & Kratky, Z. (1980). Xylan-degrading enzymes of the yeast Cryptococcus albidus. Identification and cellular localization. Eur J Biochem, 108, 313-321
30. Peciarova, A. & Biely, P. (1982). Beta-Xylosidases and a nonspecific wall-bound betaglucosidase of the yeast Cryptococcus albidus. Biochim Biophys Acta, 716, 391-399
31. Ahmed, S., Riaz, S. & Jamil, A. (2009). Molecular cloning of fungal xylanases: an overview. Appl Microbiol Biotechnol.
32. He, J., Yu, B., Zhang, K., Ding, X. & Chen, D. (2009). Expression of endo-1, 4-betaxylanase from Trichoderma reesei in Pichia pastoris and functional characterization of the produced enzyme. BMC Biotechnol, 9, 56.
33. Jeffries, T. W. (1983). Utilization of xylose by bacteria, yeasts, and fungi. Adv Biochem Eng Biotechnol, 27, 1-32
34. Verduyn, C., Van Kleef, R., Frank, J., Schreuder, H., Van Dijken, J. P. & Scheffers, W. A. (1985). Properties of the NAD(P)H-dependent xylose reductase from the xylosefermenting yeast Pichia stipitis. Biochem J, 226, 669-677
35. Wang, T., Merja, P. & Gao, P. (1999). [Expression of xylose-metabolic key genes of Trichoderma reesei on various carbon sources measured by a series of Northern hybridizations]. Wei Sheng Wu Xue Bao., 39, 503-509
36. Wang, T., Penttila, M., Gao, P., Wang, C. & Zhong, L. (1998). Isolation and identification of xylitol dehydrogenase gene from Trichoderma reesei. Chin J Biotechnol, 14, 179-185
37. Hasper, A. A., Visser, J. & de Graaff, L. H. (2000). The Aspergillus niger transcriptional activator XlnR, which is involved in the degradation of the polysaccharides xylan and cellulose, also regulates D-xylose reductase gene expression. Mol Microbiol, 36, 193-200
38. Woodyer, R., Simurdiak, M., van der Donk, W. A. & Zhao, H. (2005). Heterologous expression, purification, and characterization of a highly active xylose reductase from Neurospora crassa. Appl Environ Microbiol, 71, 1642-1647
39. de Groot, M. J. L. e. a. (2007). Regulation of pentose catabolic pathway genes of Aspergillus niger. Unpublished.
40. Metz, B., de Vries, R. P., Polak, S., Seidl, V. & Seiboth, B. (2009). The Hypocrea jecorina (syn. Trichoderma reesei) lxr1 gene encodes a D-mannitol dehydrogenase and is not involved in L-arabinose catabolism. FEBS Lett, 583, 1309-1313
41. vanKuyk, P. A., de Groot, M. J., Ruijter, G. J., de Vries, R. P. & Visser, J. (2001). The Aspergillus niger D-xylulose kinase gene is co-expressed with genes encoding arabinan degrading enzymes, and is essential for growth on D-xylose and L-arabinose. Eur J Biochem, 268, 5414-5423
42. Maas, R. H., Bakker, R. R., Eggink, G. & Weusthuis, R. A. (2006). Lactic acid production from xylose by the fungus Rhizopus oryzae. Appl Microbiol Biotechnol, 72, 861-868
43. Maas, R. H., Springer, J., Eggink, G. & Weusthuis, R. A. (2008). Xylose metabolism in the fungus Rhizopus oryzae: effect of growth and respiration on L+-lactic acid production. J Ind Microbiol Biotechnol, 35, 569-578
44. Freer, S. N., Skory, C. D. & Bothast, R. J. (1997). D-Xylose metabolism in Rhodosporidium toruloides. Biotechnology Letters, 19, 1119-1122
45. Mayr, P., Petschacher, B. & Nidetzky, B. (2003). Xylose reductase from the Basidiomycete fungus Cryptococcus flavus: purification, steady-state kinetic characterization, and detailed analysis of the substrate binding pocket using structureactivity relationships. J Biochem, 133, 553-562
46. Niederpruem, D. J., Hafiz, A. & Henry, L. (1965). Polyol Metabolism in the Basidiomycete Schizophyllum Commune. J Bacteriol, 89, 954-959
47. Chiang, C. & Knight, S. G. (1959). D-Xylose metabolism by cell-free extracts of Penicillium chrysogenum. Biochim Biophys Acta, 35, 454-463
48. Zhang, F., Qiao, D., Xu, H., Liao, C., Li, S. & Cao, Y. (2009). Cloning, expression, and characterization of xylose reductase with higher activity from Candida tropicalis. J Microbiol, 47, 351-357
49. Gurpilhares, D. B., Hasmann, F. A., Pessoa, A., Jr. & Roberto, I. C. (2009). The behavior of key enzymes of xylose metabolism on the xylitol production by Candida guilliermondii grown in hemicellulosic hydrolysate. J Ind Microbiol Biotechnol, 36, 87-93
50. Hacker, B., Habenicht, A., Kiess, M. & Mattes, R. (1999). Xylose utilisation: cloning and characterisation of the Xylose reductase from Candida tenuis. Biol Chem., 380, 1395-1403
51. Ho, N. W., Lin, F. P., Huang, S., Andrews, P. C. & Tsao, G. T. (1990). Purification, characterization, and amino terminal sequence of xylose reductase from Candida shehatae. Enzyme Microb Technol., 12, 33-39
52. Kang, M. H., Ni, H. & Jeffries, T. W. (2003). Molecular characterization of a gene for aldose reductase ( CbXYL1) from Candida boidinii and its expression in Saccharomyces cerevisiae. Appl Biochem Biotechnol, 105-108, 265-276.
53. Lee, J. K., Koo, B. S. & Kim, S. Y. (2003). Cloning and characterization of the xyl1 gene, encoding an NADH-preferring xylose reductase from Candida parapsilosis, and its functional expression in Candida tropicalis. Appl Environ Microbiol, 69, 6179-6188
54. Mayr, P., Bruggler, K., Kulbe, K. D. & Nidetzky, B. (2000). D-Xylose metabolism by Candida intermedia: isolation and characterisation of two forms of aldose reductase with different coenzyme specificities. J Chromatogr B Biomed Sci Appl., 737, 195-202
55. Neuhauser, W., Haltrich, D., Kulbe, K. D. & Nidetzky, B. (1997). NAD(P)H-dependent aldose reductase from the xylose-assimilating yeast Candida tenuis. Isolation, characterization and biochemical properties of the enzyme. Biochem J, 326( Pt 3), 683-692.
56. Habenicht, A., Motejadded, H., Kiess, M., Wegerer, A. & Mattes, R. (1999). Xylose utilisation: cloning and characterisation of the xylitol dehydrogenase from Galactocandida mastotermitis. Biol Chem., 380, 1405-1411
57. Lunzer, R., Mamnun, Y., Haltrich, D., Kulbe, K. D. & Nidetzky, B. (1998). Structural and functional properties of a yeast xylitol dehydrogenase, a Zn2+-containing metalloenzyme similar to medium-chain sorbitol dehydrogenases. Biochem J, 336( Pt 1), 91-99.
58. Billard, P., Menart, S., Fleer, R. & Bolotin-Fukuhara, M. (1995). Isolation and characterization of the gene encoding xylose reductase from Kluyveromyces lactis. Gene, 162, 93-97
59. Kotter, P., Amore, R., Hollenberg, C. P. & Ciriacy, M. (1990). Isolation and characterization of the Pichia stipitis xylitol dehydrogenase gene, XYL2, and construction of a xylose-utilizing Saccharomyces cerevisiae transformant. Curr Genet, 18, 493-500
60. Takuma, S., Nakashima, N., Tantirungkij, M., Kinoshita, S., Okada, H., Seki, T. & Yoshida, T. (1991). Isolation of xylose reductase gene of Pichia stipitis and its expression in Saccharomyces cerevisiae. Appl Biochem Biotechnol, 28-29, 327-340.
61. Smiley, K. L. & Bolen, P. L. (1982). Demonstration of D-xylose reductase and Dxylitol dehydrogenase in Pachysolen tannophilus Biotechnology Letters, 4, 607-610.
62. Girio, F. M., Roseiro, J. C. Sa-Machado, P., Duarte-Reis, A. R. & Amaral-Collaco, M. T. (1994). Effect of oxygen transfer rate on levels of key enzymes of xylose metabolism in Debaryomyces hansenii. Enzyme and microbial technology, 16, 1074-1078
63. Harhangi, H. R., Akhmanova, A. S., Emmens, R., van der Drift, C., de Laat, W. T., van Dijken, J. P., Jetten, M. S., Pronk, J. T. & Op den Camp, H. J. (2003). Xylose metabolism in the anaerobic fungus Piromyces sp. strain E2 follows the bacterial pathway. Arch Microbiol, 180, 134-141
64. Madhavan, A., Tamalampudi, S., Ushida, K., Kanai, D., Katahira, S., Srivastava, A., Fukuda, H., Bisaria, V. S. & Kondo, A. (2009). Xylose isomerase from polycentric fungus Orpinomyces: gene sequencing, cloning, and expression in Saccharomyces cerevisiae for bioconversion of xylose to ethanol. Appl Microbiol Biotechnol, 82, 1067-1078
65. Madhavan, A., Tamalampudi, S., Srivastava, A., Fukuda, H., Bisaria, V. S. & Kondo, A. (2009). Alcoholic fermentation of xylose and mixed sugars using recombinant Saccharomyces cerevisiae engineered for xylose utilization. Appl Microbiol Biotechnol, 82, 1037-1047
66. Banerjee, S., Archana, A. & Satyanarayana, T. (1994). Xylose Metabolism in a Thermophilic Mould Malbranchea pulchella var. sulfurea TMD-8. Current Microbiology, 29, 349-352
67. Rawat, U., Phadtare, S., Deshpande, V. & Rao, M. (1996). A novel xylose isomerase from Neurospora crassa. Biotechnology Letters, 18, 1267-1270
68. Jeffries, T. W. (2006). Engineering yeasts for xylose metabolism. Curr Opin Biotechnol, 17, 320-326
69. Nguyen, N. H., Suh, S. O., Marshall, C. J. & Blackwell, M. (2006). Morphological and ecological similarities: wood-boring beetles associated with novel xylose-fermenting yeasts, Spathaspora passalidarum gen. sp. nov. and Candida jeffriesii sp. nov. Mycol Res., 110, 1232-1241
70. Suh, S. O., McHugh, J. V., Pollock, D. D. & Blackwell, M. (2005). The beetle gut: a hyperdiverse source of novel yeasts. Mycol Res., 109, 261-265
71. Suh, S. O., Marshall, C. J., McHugh, J. V. & Blackwell, M. (2003). Wood ingestion by passalid beetles in the presence of xylose-fermenting gut yeasts. Mol Ecol., 12, 3137-3145
72. Flipphi, M. J. A. (1995). A Molecular Analysis of L-Arabinan Degradation in Aspergillus niger and Aspergillus nidulans. Thesis.
73. Sakamoto, T., Ihara, H., Kozaki, S. & Kawasaki, H. (2003). A cold-adapted endoarabinanase from Penicillium chrysogenum. Biochim Biophys Acta, 1624, 70-75
74. Sakamoto, T. & Kawasaki, H. (2003). Purification and properties of two type-B alpha-L-arabinofuranosidases produced by Penicillium chrysogenum. Biochim Biophys Acta, 1621, 204-210
75. Flipphi, M. J., Visser, J., van der Veen, P. & de Graaff, L. H. (1994). Arabinase gene expression in Aspergillus niger: indications for coordinated regulation. Microbiology, 140( Pt 10), 2673-2682.
76. Ramon, D., vd Veen, P. & Visser, J. (1993). Arabinan degrading enzymes from Aspergillus nidulans: induction and purification. FEMS Microbiol Lett, 113, 15-22
77. Sakamoto, T. & Thibault, J. F. (2001). Exo-arabinanase of Penicillium chrysogenum able to release arabinobiose from alpha-1,5-L-arabinan. Appl Environ Microbiol, 67, 3319-3321
78. Carapito, R., Imberty, A., Jeltsch, J. M., Byrns, S. C., Tam, P. H., Lowary, T. L., Varrot, A. & Phalip, V. (2009). Molecular basis of arabinobio-hydrolase activity in phytopathogenic fungi: crystal structure and catalytic mechanism of Fusarium graminearum GH93 exo-alpha-L-arabinanase. J Biol Chem., 284, 12285-12296
79. Suzuki, T., Tran, L. H., Yogo, M., Idota, O., Kitamoto, N., Kawai, K. & Takamizawa, K. (2005). Cloning and expression of NAD+-dependent L-arabinitol 4-dehydrogenase gene (ladA) of Aspergillus oryzae. J Biosci Bioeng, 100, 472-474
80. de Groot, M. J., Prathumpai, W., Visser, J. & Ruijter, G. J. (2005). Metabolic control analysis of Aspergillus niger L-arabinose catabolism. Biotechnol Prog., 21, 1610-1616
81. Richard, P., Londesborough, J., Putkonen, M., Kalkkinen, N. & Penttila, M. (2001). Cloning and expression of a fungal L-arabinitol 4-dehydrogenase gene. J Biol Chem., 276, 40631-40637
82. Sullivan, R. & Zhao, H. (2007). Cloning, characterization, and mutational analysis of a highly active and stable L-arabinitol 4-dehydrogenase from Neurospora crassa. Appl Microbiol Biotechnol, 77, 845-852
83. de Vries, R. P., Flipphi, M. J., Witteveen, C. F. & Visser, J. (1994). Characterization of an Aspergillus nidulans L-arabitol dehydrogenase mutant. FEMS Microbiol Lett, 123, 83-90
84. Fonseca, C., Romao, R., Rodrigues de Sousa, H., Hahn-Hagerdal, B. & Spencer-Martins, I. (2007). L-Arabinose transport and catabolism in yeast. Febs, J, 274, 3589-3600
85. Verho, R., Putkonen, M., Londesborough, J., Penttila, M. & Richard, P. (2004). A novel NADH-linked l-xylulose reductase in the l-arabinose catabolic pathway of yeast. J Biol Chem., 279, 14746-14751
86. Richard, P., Putkonen, M., Vaananen, R., Londesborough, J. & Penttila, M. (2002). The missing link in the fungal L-arabinose catabolic pathway, identification of the Lxylulose reductase gene. Biochemistry, 41, 6432-6437
87. Nair, N. & Zhao, H. (2007). Biochemical characterization of an L-Xylulose reductase from Neurospora crassa. Appl Environ Microbiol, 73, 2001-2004
88. Northcote, D. H. (1972). Chemistry of the Plant Cell Wall. Annual Review of Plant Physiology, 23, 113-132
89. Araujo, A. & Ward, O. P. (1990). Extracellular mannanases and galactanases from selected fungi. Journal of Industrial Microbiology, 6, 171-178
90. Bonnin, E., Vigouroux, J. & Thibault, J. F. (1997). Kinetic parameters of hydrolysis and transglycosylation catalyzed by an exo-beta-(1,4)-galactanase Enzyme and Microbial Technology, 20, 516-522.
91. Brillouet, J. M., Williams, P. & Moutounet, M. (1991). Purification and Some Properties of a Novel Endo-β-(1→6)-D-galactanase from Aspergillus niger. Agricultural and biological chemistry, 55, 1565-1571
92. Cho, Y. J., Shin, H. J. & Bucke, C. (2003). Purification and biochemical properties of a galactooligosaccharide producing beta-galactosidase from Bullera singularis. Biotechnol Lett, 25, 2107-2111
93. Church, F. C., Jr. & Meyers, S. P. (1980). Alpha-galactosidase from Pichia guilliermondii. Mycologia, 72, 279-287
94. Dickson, R. C., Dickson, L. R. & Markin, J. S. (1979). Purification and properties of an inducible beta-galactosidase isolated from the yeast Kluyveromyces lactis. J Bacteriol, 137, 51-61
95. Dey, P. M., Patel, S. & Brownleader, M. D. (1993). Induction of alpha-galactosidase in Penicillium ochrochloron by guar (Cyamopsis tetragonobola) gum. Biotechnol Appl Biochem, 17( Pt 3), 361-371.
96. Gamauf, C., Marchetti, M., Kallio, J., Puranen, T., Vehmaanpera, J., Allmaier, G., Kubicek, C. P. & Seiboth, B. (2007). Characterization of the bga1-encoded glycoside hydrolase family 35 beta-galactosidase of Hypocrea jecorina with galacto-beta-Dgalactanase activity. Febs J, 274, 1691-1700
97. Ichinose, H., Yoshida, M., Kotake, T., Kuno, A., Igarashi, K., Tsumuraya, Y., Samejima, M., Hirabayashi, J., Kobayashi, H. & Kaneko, S. (2005). An exo-beta-1,3-galactanase having a novel beta-1,3-galactan-binding module from Phanerochaete chrysosporium. J Biol Chem., 280, 25820-25829
98. Kimura, I., Yoshioka, N. & Tajima, S. (1998). Purification and characterization of an endo-1,4-β-Image-galactanase from Aspergillus sojae. Journal of Fermentation and Bioengineering, 85, 48-52
99. Knee, M. & Friend, J. (1970). Some properties of the galactanase secreted by Phytophthora infestans (Mont.) De Bary. J Gen Microbiol, 60, 23-30
100. Kotake, T., Kaneko, S., Kubomoto, A., Haque, M. A., Kobayashi, H. & Tsumuraya, Y. (2004). Molecular cloning and expression in Escherichia coli of a Trichoderma viride endo-beta-(1-->6)-galactanase gene. Biochem J, 377, 749-755
101. Vigouroux, M. J. & Thibault, J. F. (1991). Endo-β-1,4-D-galactanase from Aspergillus niger var. aculeatus: purification and some properties. Carbohydrate Polymers, 15, 431-444
102. Margolles-Clark, E., Tenkanen, M., Luonteri, E. & Penttila, M. (1996). Three alphagalactosidase genes of Trichoderma reesei cloned by expression in yeast. Eur J Biochem, 240, 104-111
103. Nagy, Z., Kiss, T., Szentirmai, A. & Biro, S. (2001). Beta-galactosidase of Penicillium chrysogenum: production, purification, and characterization of the enzyme. Protein Expr Purif, 21, 24-29
104. Nakano, H., Takenishi, S. & Watanabe, Y. (1985). Purification and properties of two galactanases from Penicillium citrinum. Agric. Biol. Chem., 49, 3445-3454
105. Okemoto, K., Uekita, T., Tsumuraya, Y., Hashimoto, Y. & Kasama, T. (2003). Purification and characterization of an endo-beta-(1-->6)-galactanase from Trichoderma viride. Carbohydr Res., 338, 219-230
106. Pellerin, P. & Brillouet, J. M. (1994). Purification and properties of an exo-(1-->3)-beta-D-galactanase from Aspergillus niger. Carbohydr Res., 264, 281-291
107. Reyes, F., Alfonso, C., Martinez, M. J., Prieto, A., Santamaria, F. & Leal, J. A. (1992). Purification of a new galactanase from Penicillium oxalicum catalysing the hydrolysis of beta-(1----5)-galactofuran linkages. Biochem J, 281( Pt 3), 657-660.
108. Ryttersgaard, C., Lo Leggio, L., Coutinho, P. M., Henrissat, B. & Larsen, S. (2002). Aspergillus aculeatus beta-1,4-galactanase: substrate recognition and relations to other glycoside hydrolases in clan GH-A. Biochemistry, 41, 15135-15143
109. Ryttersgaard, C., Poulsen, J., Christgau, S., Sandal, T., Dalboge, H. & Larsen, S. (1999). Crystallization and preliminary X-ray studies of beta-1, 4-galactanase from Aspergillus aculeatus. Acta Crystallogr D Biol Crystallogr, 55, 929-930
110. Sakamoto, T., Taniguchi, Y., Suzuki, S., Ihara, H. & Kawasaki, H. (2007). Characterization of Fusarium oxysporum beta-1,6-galactanase, an enzyme that hydrolyzes larch wood arabinogalactan. Appl Environ Microbiol, 73, 3109-3112
111. Shibuya, H., Kobayashi, H., Park, G. G., Komatsu, Y., Sato, T., Kaneko, R., Nagasaki, H., Yoshida, S., Kasamo, K. & Kusakabe, I. (1995). Purification and some properties of alpha-galactosidase from Penicillium purpurogenum. Biosci Biotechnol Biochem, 59, 2333-2335
112. Tsumuraya, Y., Mochizuki, N., Hashimoto, Y. & Kovac, P. (1990). Purification of an exo-beta-(1----3)-D-galactanase of Irpex lacteus (Polyporus tulipiferae) and its action on arabinogalactan-proteins. J Biol Chem., 265, 7207-7215
113. Yamaguchi, F., Inoue, S. & Hatanaka, C. (1995). Purification and properties of endobeta-1,4-D-galactanase from Aspergillus niger. Biosci Biotechnol Biochem., 59, 1742-1744
114. Rogalski, J. & Lobarzewski, J. (1994). The purification and immobilization of Penicillium notatum β-galactosidase. Acta Biotechnologica, 15, 211-222
115. Kresge, N., Simoni, R. D. & Hill, R. L. (2005). Luis F. Leloir and the Biosynthesis of Saccharides. J. Biol. Chem., 280.
116. Trucco, R. E., Caputto, R. & et al. (1948). Galactokinase. Arch Biochem, 18, 137-146
117. Majumdar, S., Ghatak, J., Mukherji, S., Bhattacharjee, H. & Bhaduri, A. (2004). UDPgalactose 4-epimerase from Saccharomyces cerevisia. A bifunctional enzyme with aldose 1-epimerase activity. Eur J Biochem, 271, 753-759
118. Caputto, R. & Leloir, L. R. et al. (1949). The enzymatic transformation of galactose into glucose derivatives. J Biol Chem., 179, 497.
119. Cardini, C. E., Paladini, A. C., Caputto, R. & Leloir, L. F. (1950). Uridine Diphosphate Glucose: the Coenzyme of the Galactose-Glucose Phosphate Isomerization. Nature, 165, 191-192
120. Frey, P. A. (1996). The Leloir pathway: a mechanistic imperative for three enzymes to change the stereochemical configuration of a single carbon in galactose. Faseb J, 10, 461-470
121. Cori, G. T., Colowick, S. P. & Cori, C. F. (1938). The enzymatic conversion of glucose-1-phosphoric ester to 6-ester in tissue extracts. J. Biol.Chem., 124, 543-555
122. Fekete, E., Karaffa, L., Sandor, E., Banyai, I., Seiboth, B., Gyemant, G., Sepsi, A., Szentirmai, A. & Kubicek, C. P. (2004). The alternative D-galactose degrading pathway of Aspergillus nidulans proceeds via L-sorbose. Arch Microbiol, 181, 35-44
123. Moreira, L. R. & Filho, E. X. (2008). An overview of mannan structure and mannandegrading enzyme systems. Appl Microbiol Biotechnol, 79, 165-178
124. Herman, R. H. (1971). Mannose metabolism. I. Am J Clin Nutr., 24, 488-498
125. Glaser, L., Kornfeld, S., & Brown, D. H. (1959). Preparation and properties of phosphomannomutase from baker's yeast. Biochim Biophys Acta, 33, 522-526
126. Herscovics, A. & Orlean, P. (1993). Glycoprotein biosynthesis in yeast. Faseb J, 7, 540-550
127. Nakajima, T. & Ballou, C. E. (1975). Yeast manno-protein biosynthesis: solubilization and selective assay of four mannosyltransferases. Proc Natl Acad Sci U S A, 72, 3912-3916
128. Cabib, E. & Leloir, L. F. (1954). Guanosine diphosphate mannose. J Biol Chem., 206, 779-790
129. Pontis, H. G., James, A. L. & Baddiley, J. (1960). Guanosine diphosphate glucose and guanosine diphosphate fructose from Eremothecium ashbyii. Biochem J, 75, 428-434
130. Wills, E. A., Roberts, I. S., Del Poeta, M., Rivera, J., Casadevall, A., Cox, G. M. & Perfect, J. R. (2001). Identification and characterization of the Cryptococcus neoformans phosphomannose isomerase-encoding gene, MAN1, and its impact on pathogenicity. Mol Microbiol, 40, 610-620
131. Ginsburg, V. (1960). Formation of guanosine diphosphate L-fucose from guanosine diphosphate D-mannose. J Biol Chem., 235, 2196-2201
132. Jördening, I. E. B. a. H. J. (2003). Kinetics of galacturonic acid release from sugar-beet pulp. Enzyme and Microbial Technology, 34, 505-512
133. Manzanares, P., de Graaff, L. H. & Visser, J. (1997). Purification and characterization of an alpha-L-rhamnosidase from Aspergillus niger. FEMS Microbiol Lett, 157, 279-283
134. Mutter, M., Beldman, G., Schols, H. A. & Voragen, A. G. (1994). Rhamnogalacturonan alpha-L-rhamnopyranohydrolase. A novel enzyme specific for the terminal nonreducing rhamnosyl unit in rhamnogalacturonan regions of pectin. Plant Physiol, 106, 241-250
135. Gallego, M. V., Piñaga, F., Ramón, D. & Vallés, S. . (1996). Production and characterization of an Aspergillus terreus α-L-rhamnosidase of oenological interest. Z. Lebensm. Unters. Forsch., 203, 522-527
136. Young, N. M., Johnston, R. A. Z. & Richards, J. C. (1989). Purification of the α-Lrhamnosidase of Penicillium decumbens and characterisation of two glycopeptide components. Carbohydr. Res., 191, 53-62
137. de Vries, R. P., Jansen, J., Aguilar, G., Parenicova, L., Joosten, V., Wulfert, F., Benen, J. A. & Visser, J. (2002). Expression profiling of pectinolytic genes from Aspergillus niger. FEBS Lett, 530, 41-47
138. Bauer, S., Vasu, P., Persson, S., Mort, A. J. & Somerville, C. R. (2006). Development and application of a suite of polysaccharide-degrading enzymes for analyzing plant cell walls. Proc Natl Acad Sci U S A, 103, 11417-11422
139. Kofod, L. V., Kauppinen, S., Christgau, S., Andersen, L. N., Heldt-Hansen, H. P., Dorreich, K. & Dalboge, H. (1994). Cloning and characterization of two structurally and functionally divergent rhamnogalacturonases from Aspergillus aculeatus. J Biol Chem., 269, 29182-29189
140. Kars, I., Krooshof, G. H., Wagemakers, L., Joosten, R., Benen, J. A. & van Kan, J. A. (2005). Necrotizing activity of five Botrytis cinerea endopolygalacturonases produced in Pichia pastoris. Plant J, 43, 213-225
141. Kauppinen, S., Christgau, S., Kofod, L. V., Halkier, T., Dorreich, K. & Dalboge, H. (1995). Molecular cloning and characterization of a rhamnogalacturonan acetylesterase from Aspergillus aculeatus. Synergism between rhamnogalacturonan degrading enzymes. J Biol Chem., 270, 27172-27178
142. Dean, R. A., Talbot, N. J., Ebbole, D. J., Farman, M. L., Mitchell, T. K., Orbach, M. J., Thon, M., Kulkarni, R., Xu, J. R., Pan, H., Read, N. D., Lee, Y. H., Carbone, I., Brown, D., Oh, Y. Y., Donofrio, N., Jeong, J. S., Soanes, D. M., Djonovic, S., Kolomiets, E., Rehmeyer, C., Li, W., Harding, M., Kim, S., Lebrun, M. H., Bohnert, H., Coughlan, S., Butler, J., Calvo, S., Ma, L. J., Nicol, R., Purcell, S., Nusbaum, C., Galagan, J. E. & Birren, B. W. (2005). The genome sequence of the rice blast fungus Magnaporthe grisea. Nature, 434, 980-986
143. Machida, M., Asai, K., Sano, M., Tanaka, T., Kumagai, T., Terai, G., Kusumoto, K., Arima, T., Akita, O., Kashiwagi, Y., Abe, K., Gomi, K., Horiuchi, H., Kitamoto, K., Kobayashi, T., Takeuchi, M., Denning, D. W., Galagan, J. E., Nierman, W. C., Yu, J., Archer, D. B., Bennett, J. W., Bhatnagar, D., Cleveland, T. E., Fedorova, N. D., Gotoh, O., Horikawa, H., Hosoyama, A., Ichinomiya, M., Igarashi, R., Iwashita, K., Juvvadi, P. R., Kato, M., Kato, Y., Kin, T., Kokubun, A., Maeda, H., Maeyama, N., Maruyama, J., Nagasaki, H., Nakajima, T., Oda, K., Okada, K., Paulsen, I., Sakamoto, K., Sawano, T., Takahashi, M., Takase, K., Terabayashi, Y., Wortman, J. R., Yamada, O., Yamagata, Y., Anazawa, H., Hata, Y., Koide, Y., Komori, T., Koyama, Y., Minetoki, T., Suharnan, S., Tanaka, A., Isono, K., Kuhara, S., Ogasawara, N. & Kikuchi, H. (2005). Genome sequencing and analysis of Aspergillus oryzae. Nature, 438, 1157-1161
144. Watanabe, S., Saimura, M. & Makino, K. (2008). Eukaryotic and bacterial gene clusters related to an alternative pathway of nonphosphorylated L-rhamnose metabolism. J Biol Chem., 283, 20372-20382
145. Rigo, L. U., Marechal, L. R., Vieira, M. M. & Veiga, L. A. . (1985). Oxidative pathway for L-rhamnose degradation in Pullularia pullulans. Can. J. Microbiol, 31, 817-822
146. Twerdochlib, A. L., Pedrosa, F. O., Funayama, S. & Rigo, L. U. (1994). L-rhamnose metabolism in Pichia stipitis and Debaryomyces polymorphus. Microbiology, 40, 896-902
147. Perez, S., Mazeau, K. & Herve du Penhoat, C. (2000). The three-dimensional structures of the pectic polysaccharides. Plant Physiology and Biochemistry, 38, 37-55
148. Khanh, N. Q., Ruttkowski, E., Leidinger, K., Albrecht, H. & Gottschalk, M. (1991). Characterization and expression of a genomic pectin methyl esterase-encoding gene in Aspergillus niger. Gene, 106, 71-77
149. Kuorelahti, S., Kalkkinen, N., Penttila, M., Londesborough, J. & Richard, P. (2005). Identification in the mold Hypocrea jecorina of the first fungal D-galacturonic acid reductase. Biochemistry, 44, 11234-11240
150. Kuorelahti, S., Jouhten, P., Maaheimo, H., Penttila, M. & Richard, P. (2006). Lgalactonate dehydratase is part of the fungal path for D-galacturonic acid catabolism. Mol Microbiol, 61, 1060-1068
151. Martens-Uzunova, E. S. & Schaap, P. J. (2008). An evolutionary conserved dgalacturonic acid metabolic pathway operates across filamentous fungi capable of pectin degradation. Fungal Genet Biol., 45, 1449-1457
152. Hilditch, S., Berghall, S., Kalkkinen, N., Penttila, M. & Richard, P. (2007). The missing link in the fungal D-galacturonate pathway: identification of the L-threo-3-deoxyhexulosonate aldolase. J Biol Chem., 282, 26195-26201
153. Liepins, J., Kuorelahti, S., Penttila, M. & Richard, P. (2006). Enzymes for the NADPHdependent reduction of dihydroxyacetone and D-glyceraldehyde and L-glyceraldehyde in the mould Hypocrea jecorina. Febs J, 273, 4229-4235
154. Richard, P. & Hilditch, S. (2009). D-galacturonic acid catabolism in microorganisms and its biotechnological relevance. Appl Microbiol Biotechnol, 82, 597-604
155. van Peij, N. N., Visser, J. & de Graaff, L. H. (1998). Isolation and analysis of xlnR, encoding a transcriptional activator co-ordinating xylanolytic expression in Aspergillus niger. Mol Microbiol, 27, 131-142
156. Brunner, K., Lichtenauer, A. M., Kratochwill, K., Delic, M. & Mach, R. L. (2007). Xyr1 regulates xylanase but not cellulase formation in the head blight fungus Fusarium graminearum. Curr Genet, 52, 213-220
157. Calero-Nieto, F., Di Pietro, A., Roncero, M. I. & Hera, C. (2007). Role of the transcriptional activator xlnR of Fusarium oxysporum in regulation of xylanase genes and virulence. Mol Plant Microbe Interact, 20, 977-985
158. Marui, J., Tanaka, A., Mimura, S., de Graaff, L. H., Visser, J., Kitamoto, N., Kato, M., Kobayashi, T. & Tsukagoshi, N. (2002). A transcriptional activator, AoXlnR, controls the expression of genes encoding xylanolytic enzymes in Aspergillus oryzae. Fungal Genet Biol., 35, 157-169
159. Stricker, A. R., Grosstessner-Hain, K., Wurleitner, E. & Mach, R. L. (2006). Xyr1 (xylanase regulator 1) regulates both the hydrolytic enzyme system and D-xylose metabolism in Hypocrea jecorina. Eukaryot Cell, 5, 2128-2137
160. Tamayo, E. N., Villanueva, A., Hasper, A. A., de Graaff, L. H., Ramon, D. & Orejas, M. (2008). CreA mediates repression of the regulatory gene xlnR which controls the production of xylanolytic enzymes in Aspergillus nidulans. Fungal Genet Biol., 45, 984-993
161. van Peij, N. N., Gielkens, M. M., de Vries, R. P., Visser, J. & de Graaff, L. H. (1998). The transcriptional activator XlnR regulates both xylanolytic and endoglucanase gene expression in Aspergillus niger. Appl Environ Microbiol, 64, 3615-3619
162. de Groot, M. J., van de Vondervoort, P. J., de Vries, R. P., vanKuyk, P. A., Ruijter, G. J. & Visser, J. (2003). Isolation and characterization of two specific regulatory Aspergillus niger mutants shows antagonistic regulation of arabinan and xylan metabolism. Microbiology, 149, 1183-1191
163. Hashimoto, H., Kikuchi, Y., Nogi, Y. & Fukasawa, T. (1983). Regulation of expression of the galactose gene cluster in Saccharomyces cerevisiae. Isolation and characterization of the regulatory gene GAL4. Mol Gen Genet, 191, 31-38
164. Todd, R. B. & Andrianopoulos, A. (1997). Evolution of a fungal regulatory gene family: the Zn(II)2Cys6 binuclear cluster DNA binding motif. Fungal Genet Biol., 21, 388-405
165. Johnston, S. A., Salmeron, J. M., Jr. & Dincher, S. S. (1987). Interaction of positive and negative regulatory proteins in the galactose regulon of yeast. Cell, 50, 143-146
166. Torchia, T. E., Hamilton, R. W., Cano, C. L. & Hopper, J. E. (1984). Disruption of regulatory gene GAL80 in Saccharomyces cerevisiae: effects on carbon-controlled regulation of the galactose/melibiose pathway genes. Mol Cell Biol., 4, 1521-1527
167. Timson, D. J., Ross, H. C. & Reece, R. J. (2002). Gal3p and Gal1p interact with the transcriptional repressor Gal80p to form a complex of 1:1 stoichiometry. Biochem J, 363, 515-520
168. Platt, A. & Reece, R. J. (1998). The yeast galactose genetic switch is mediated by the formation of a Gal4p-Gal80p-Gal3p complex. Embo J, 17, 4086-4091
169. Bhat, P. J. & Murthy, T. V. (2001). Transcriptional control of the GAL/MEL regulon of yeast Saccharomyces cerevisiae: mechanism of galactose-mediated signal transduction. Mol Microbiol, 40, 1059-1066
170. Leuther, K. K. & Johnston, S. A. (1992). Nondissociation of GAL4 and GAL80 in vivo after galactose induction. Science, 256, 1333-1335
171. Sil, A. K., Alam, S., Xin, P., Ma, L., Morgan, M., Lebo, C. M., Woods, M. P. & Hopper, J. E. (1999). The Gal3p-Gal80p-Gal4p transcription switch of yeast: Gal3p destabilizes the Gal80p-Gal4p complex in response to galactose and ATP. Mol Cell Biol., 19, 7828-7840
172. Peng, G. & Hopper, J. E. (2000). Evidence for Gal3p's cytoplasmic location and Gal80p's dual cytoplasmic-nuclear location implicates new mechanisms for controlling Gal4p activity in Saccharomyces cerevisiae. Mol Cell Biol., 20, 5140-5148
173. Sadowski, I., Costa, C. & Dhanawansa, R. (1996). Phosphorylation of Gal4p at a single C-terminal residue is necessary for galactose-inducible transcription. Mol Cell Biol., 16, 4879-4887
174. Rohde, J. R., Trinh, J. & Sadowski, I. (2000). Multiple signals regulate GAL transcription in yeast. Mol Cell Biol., 20, 3880-3886
175. Wray, L. V., Jr., Witte, M. M., Dickson, R. C. & Riley, M. I. (1987). Characterization of a positive regulatory gene, LAC9, that controls induction of the lactose-galactose regulon of Kluyveromyces lactis: structural and functional relationships to GAL4 of Saccharomyces cerevisiae. Mol Cell Biol., 7, 1111-1121
176. Zenke, F. T., Zachariae, W., Lunkes, A. & Breunig, K. D. (1993). Gal80 proteins of Kluyveromyces lactis and Saccharomyces cerevisiae are highly conserved but contribute differently to glucose repression of the galactose regulon. Mol Cell Biol., 13, 7566-7576
177. Meyer, J., Walker-Jonah, A. & Hollenberg, C. P. (1991). Galactokinase encoded by GAL1 is a bifunctional protein required for induction of the GAL genes in Kluyveromyces lactis and is able to suppress the gal3 phenotype in Saccharomyces cerevisiae. Mol Cell Biol., 11, 5454-5461
178. de Vries, R. P. (2003). Regulation of Aspergillus genes encoding plant cell wall polysaccharide-degrading enzymes; relevance for industrial production. Appl Microbiol Biotechnol, 61, 10-20
179. Kern, A., Tilley, E., Hunter, I. S., Legisa, M. & Glieder, A. (2007). Engineering primary metabolic pathways of industrial micro-organisms. J Biotechnol, 129, 6-29
180. Eliasson, A., Christensson, C., Wahlbom, C. F. & Hahn-Hagerdal, B. (2000). Anaerobic xylose fermentation by recombinant Saccharomyces cerevisiae carrying XYL1, XYL2, and XKS1 in mineral medium chemostat cultures. Appl Environ Microbiol, 66, 3381-3386
181. Toivari, M. H., Aristidou, A., Ruohonen, L. & Penttila, M. (2001). Conversion of xylose to ethanol by recombinant Saccharomyces cerevisiae: importance of xylulokinase (XKS1) and oxygen availability. Metab Eng., 3, 236-249
182. Wisselink, H. W., Toirkens, M. J., del Rosario Franco Berriel, M., Winkler, A. A., van Dijken, J. P., Pronk, J. T. & van Maris, A. J. (2007). Engineering of Saccharomyces cerevisiae for efficient anaerobic alcoholic fermentation of L-arabinose. Appl Environ Microbiol, 73, 4881-4891
183. Wisselink, H. W., Toirkens, M. J., Wu, Q., Pronk, J. T. & van Maris, A. J. (2009). Novel evolutionary engineering approach for accelerated utilization of glucose, xylose, and arabinose mixtures by engineered Saccharomyces cerevisiae strains. Appl Environ Microbiol, 75, 907-914
184. Parajo, J. C., Dominguez, H. & Dominguez, J. M. (1998). Biotechnological production of xylito. Part 1: Interest of xylitol and fundamentals of its biosynthesis. Bioresource Technology, 55, 191-201
185. Prakasham, R. S., Sreenivas Rao, R. & Hobbs, P. J. (2009). Current trends in biotechnological production of xylitol and future prospects. Current Trends in Biotechnology and Pharmacy, 3, 8-36
186. Hallborn, J., Walfridsson, M., Airaksinen, U., Ojamo, H., Hahn-Hagerdal, B., Penttila, M. & Kerasnen, S. (1991). Xylitol production by recombinant Saccharomyces cerevisiae. Biotechnology(N Y), 9, 1090-1095
187. Mandal, S. K., Chatterjee, S. P., Nandi, B. & Mandal, S. K. (1985). Gluconic acid production by Penicillium janthinellum. Folia Microbiologica, 30, 414-419
188. Katouli, M. & Marchant, R. (1981). Effect of phytotoxic metabolites of Fusarium culmorum on barley root and root-hair development Plant and Soil, 60, 385-397.
189. Ruijter, G. J. G., Kubicek, C. P. & Visser, J. Production of Organic Acids by Fungi. In H. D. Osiewacz, (Eds.), The Mycota, vol X. Industrial applications, Berlin, Germany, Springer. 213-230.
190. Lopez-Garcia, R. Citric acid. In Kirk-Othmer, (Eds.), Kirk-Othmer Encyclopedia of Chemical Technology, New York, USA, John Wiley & Sons, Inc.
191. Singh, O. V., Sharma, A. & Singh, R. P. (2001). Gluconic acid production by Aspergillus niger mutant ORS-4.410 in submerged and solid state surface fermentation. Indian J Exp Biol., 39, 691-696
192. Alani, F., Moo-Young, M., Anderson, W. & Bataine, Z. (2007). Optimization of Citric Acid Production from a New Strain and Mutant of Aspergillus niger Using Solid State Fermentation Food Biotechnology, 21, 169-180.