Exploiting the inter-strain divergence of Fusarium oxysporum for microbial bioprocessing of lignocellulose to bioethanol

AMB Express - Tập 2 - Trang 1-9 - 2012
Shahin S Ali1, Mojibur Khan1,2, Brian Fagan1, Ewen Mullins3, Fiona M Doohan1
1Molecular Plant-Microbe Interactions Laboratory, School of Biology and Environmental Science, University College Dublin, Dublin, Ireland
2Institute of Advanced Study in Science and Technology, Guwahati, India
3Dept. of Crop Science, Teagasc Crop Research Centre, Oak Park, Ireland

Tóm tắt

Microbial bioprocessing of lignocellulose to bioethanol still poses challenges in terms of substrate catabolism. A targeted evolution-based study was undertaken to determine if inter-strain microbial variability could be exploited for bioprocessing of lignocellulose to bioethanol. The microorganism studied was Fusarium oxysporum because of its capacity to both saccharify and ferment lignocellulose. Strains of F. oxysporum were isolated and assessed for their genetic variability. Using optimised solid-state straw culture conditions, experiments were conducted that compared fungal strains in terms of their growth, enzyme activities (cellulases, xylanase and alcohol dehydrogenase) and yield of bioethanol and the undesirable by-products acetic acid and xylitol. Significant inter-strain divergence was recorded in regards to the capacity of studied F. oxysporum strains to produce alcohol from untreated straw. No correlation was observed between bioethanol synthesis and either the biomass production or microbial enzyme activity. A strong correlation was observed between both acetic acid and xylitol production and bioethanol yield. The level of diversity recorded in the alcohol production capacity among closely-related microorganism means that a targeted screening of populations of selected microbial species could greatly improve bioprocessing yields, in terms of providing both new host strains and candidate genes for the bioethanol industry.

Tài liệu tham khảo

Albers E, Larsson C, Liden G, Niklasson C, Gustafsson L: Influence of the nitrogen source on Saccharomyces cerevisiae anaerobic growth and product formation. Appl Environ Microbiol 1996, 62: 3187–3195. Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein databases search programs. Nucleic Acids Res 1997, 25: 3389–3402. 10.1093/nar/25.17.3389 Bailey MJ, Buchert J, Viikari L: Effect of pH on production of xylanase by Trichoderma reesei on xylan- and cellulose-based media. Appl Microbiol Biotechnol 1993, 40: 224–229. Bradford MM: Rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 1976, 72: 248–254. 10.1016/0003-2697(76)90527-3 Brennan JM, Leonard G, Cooke BM, Doohan FM: Effect of temperature on head blight of wheat caused by Fusarium culmorum and F. graminearum . Plant Pathol 2005, 54: 156–160. 10.1111/j.1365-3059.2005.01157.x Bollok M, Reczey K: Cellulase enzyme production by various fungal strains on different carbon sources. Acta Alimentaria 2000, 29: 154–168. 10.1556/AAlim.29.2000.2.6 Ca M, Pj L, Wadforth C, Sj D, Ca B: Strain-dependent variation in the NADH-dependent diacetyl reductase activities of larger- and alebrewing yeasts. Biotechnol Appl Biochem 1996, 23: 19–22. Christakopoulos P, Macris BJ, Kekos D: Direct fermentation of cellulose to ethanol by Fusarium oxysporum . Enzyme Microb Technol 1989, 11: 236–239. 10.1016/0141-0229(89)90098-7 Christakopoulos PF, Koullas DP, Kekos D, Koukios EG, Macris BJ: Direct ethanol conversion of pretreated straw by Fusarium oxysporum . Bioresour Technol 1991a, 35: 297–300. 10.1016/0960-8524(91)90128-7 Christakopoulos P, Koullas D, Kekos D, Koukios E, Macris B: Direct conversion of straw to ethanol by Fusarium oxysporum: effect of cellulose crystallinity. Enzyme Microb Technol 1991b, 13: 272–274. 10.1016/0141-0229(91)90141-V Crawford D: Lignocellulose decomposition by selected Streptomyces strains . Appl Environ Microbiol 1987, 35: 1041–1045. Deshpande V, Keskar S, Mishra C, Rao M: Direct conversion of cellulose/hemicellulose to ethanol by Neurospora crassa . Enzyme Microb Technol 1986, 8: 149–152. 10.1016/0141-0229(86)90103-1 Dogaris I, Vakontios G, Kalogeris E, Mamma D, Kekos D: Induction of cellulases and hemicellulases from Neurospora crassa under solid-state cultivation for bioconversion of sorghum bagasse into ethanol. Ind Crops Prod 2009, 29: 404–411. 10.1016/j.indcrop.2008.07.008 Domingues FC, Queiroz JA, Cabral JMS, Fonseca LP: The influence of culture conditions on mycelial structure and cellulase production by Trichoderma reesei Rut C-30. Enzyme Microb Technol 2000, 26: 394–401. 10.1016/S0141-0229(99)00166-0 Edel V, Steinberg C, Gautheron N, Alabouvette C: Ribosomal DNA-targeted oligonucleotide probe and PCR assay specific for Fusarium oxysporum . Mycol Res 2000, 104: 518–526. 10.1017/S0953756299001896 Garcia-Martinez DV, Shinmyo A, Madia A, Demain AL: Studies on cellulase production by Clostridium thermocellum . Appl Microbiol Biotechnol 1980, 9: 189–197. 10.1007/BF00504485 Goshadrou A, Karimi K, Taherzadeh MJ: Bioethanol production from sweet sorghum bagasse by Mucor hiemalis. Ind Crops Prod 2011, 34: 1219–1225. 10.1016/j.indcrop.2011.04.018 Karimi K, Emtiazi G, Taherzadeh MJ: Ethanol production from dilute-acid pretreated rice straw by simultaneous saccharification and fermentation with Mucor indicus, Rhizopus oryzae, and Saccharomyces cerevisiae. Enzyme Microb Technol 2006, 40: 138–144. 10.1016/j.enzmictec.2005.10.046 Kayali HA, Tarhan L, Soran H: Variations of alcohol dehydrogenase activity and fermentative pyruvate, ethanol production of F. equiseti and F. acuminatum depend on the yeast extract and urea concentrations. Enzyme Microb Technol 2005, 36: 706–711. 10.1016/j.enzmictec.2004.12.015 Ke D, Yahia E, Hess B, Zhou L, Kader AA: Regulation of fermentative metabolism in avocado fruit under oxygen and carbon dioxide stresses. J Amer Soc Hort Sci 1995, 120: 481–490. Khilare V, Gangawane L: Molecular characterization of formae speciales of Fusarium oxysporum : a review. In Molecular biology of plant pathogens. Edited by: Gangawane LV, Khilare VC. New Delhi: Daya Publishing House; 2010:159–177. Komada H: Development of a selective medium for quantitative isolation of Fusarium oxysporum (infecting vegetables, ornamental crops in Japan) from natural soil. Rev Plant Prot Res 1975, 8: 114–125. Larkin MA, Blackshields G, Brown NP, Chenna R, McGettigan PA, McWilliam H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG: ClustalW and ClustalX version 2. Bioinformatics 2007, 23: 2947–2948. 10.1093/bioinformatics/btm404 Linfield CA: A Comparison of the effects of temperature on the growth of Fusarium oxysporum f. sp. narcissi in solid and liquid media. J Phytopathol 1986, 116: 278–281. 10.1111/j.1439-0434.1986.tb00921.x Lynd LR, Zyl WH, McBride JE, Laser M: Consolidated bioprocessing of cellulosic biomass: an update. Curr Opin Biotechnol 2005, 16: 577–583. 10.1016/j.copbio.2005.08.009 Mishra C, Keskar S, Rao M: Production and properties of extracellular endoxylanase from Neurospora crassa . Appl Environ Microbiol 1984, 48: 224–228. Mizuno R, Ichinose H, Honda M, Takabatake K, Sotome I, Takai T, Maehara T, Okadome H, Isobe S, Gau M: Use of whole crop sorghums as a raw material in consolidated bioprocessing bioethanol production using Flammulina velutipes. Biosci Biotechnol Biochem 2009, 73: 1671–1673. 10.1271/bbb.90099 O'Donnell K, Kistler HC, Cigelnik E, Ploetz RC: Multiple evolutionary origins of the fungus causing Panama disease of banana: concordant evidence from nuclear and mitochondrial gene genealogies. Proc Natl Acad Sci USA 1998, 95: 2044–2049. 10.1073/pnas.95.5.2044 Okamoto K, Nitta Y, Maekawa N, Yanase H: Direct ethanol production from starch, wheat bran and rice straw by the white rot fungus Trametes hirsuta. Enzyme Microb Technol 2011, 48: 273–277. 10.1016/j.enzmictec.2010.12.001 Panagiotou G, Kekos D, Macris BJ, Christakopoulos P: Production of cellulolytic and xylanolytic enzymes by Fusarium oxysporum grown on corn stover in solid state fermentation. Ind Crops Prod 2003, 18: 37–45. 10.1016/S0926-6690(03)00018-9 Panagiotou G, Christakopoulos P, Olsson L: Simultaneous saccharification and fermentation of cellulose by Fusarium oxysporum F3-growth characteristics and metabolite profiling. Enzyme Microb Technol 2005a, 36: 693–699. 10.1016/j.enzmictec.2004.12.029 Panagiotou G, Villas-Bôas SG, Christakopoulos P, Nielsen J, Olsson L: Intracellular metabolite profiling of Fusarium oxysporum converting glucose to ethanol. J Biotechnol 2005b, 115: 425–434. 10.1016/j.jbiotec.2004.09.011 Panagiotou G, Christakopoulos P, Villas-Boas SG, Olsson L: Fermentation performance and intracellular metabolite profiling of Fusarium oxysporum cultivated on a glucose-xylose mixture. Enzyme Microb Technol 2005c, 36: 100–106. 10.1016/j.enzmictec.2004.07.009 Radler F, Schutz H: Glycerol production of various strains of Saccharomyces . Am J Enol Vitic 1982, 33: 36–40. Rasmussen ML, Shrestha P, Khanal SK, Pometto Iii AL, van Leeuwen J: Sequential saccharification of corn fiber and ethanol production by the brown rot fungus Gloeophyllum trabeum. Bioresour Technol 2010, 10: 3526–3533. Ride JP, Drysdale RB: A rapid method for the chemical estimation of filamentous fungi in plant tissue. Physiol Plant Pathol 1972, 2: 7–15. 10.1016/0048-4059(72)90043-4 Saitou N, Nei M: The Neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987, 4: 406–425. Scotti CT, Vergoignan C, Feron G, Durand A: Glucosamine measurement as indirect method for biomass estimation of Cunninghamella elegans grown in solid state cultivation conditions. Biochem Eng J 2001, 7: 1–5. 10.1016/S1369-703X(00)00090-5 Shrestha P, Khanal SK, Pometto Iii AL, van Leeuwen J: Ethanol production via in situ fungal saccharification and fermentation of mild alkali and steam pretreated corn fiber. Bioresour Technol 2010, 101: 8698–8705. 10.1016/j.biortech.2010.06.089 Singh A, Kumar P: Fusarium oxysporum : status in bioethanol production. Crit Rev Biotechnol 1991, 11: 129–147. 10.3109/07388559109040619 Singh A, Kumar P, Schügerl K: Bioconversion of cellulosic materials to ethanol by filamentous fungi. Enzymes and products from bacteria fungi and plant cells, Springer Berlin/Heidelberg 1992, 45: 29–55. 10.1007/BFb0008755 Tabka MG, Herpoël-Gimbert I, Monod F, Asther M, Sigoillot JC: Enzymatic saccharification of wheat straw for bioethanol production by a combined cellulase xylanase and feruloyl esterase treatment. Enzyme Microb Technol 2006, 39: 897–902. 10.1016/j.enzmictec.2006.01.021 Tanabe Y, Saikawa M, Watanabe MM, Sugiyama J: Molecular phylogeny of Zygomycota based on EF-1[alpha] and RPB1 sequences: limitations and utility of alternative markers to rDNA. Mol Phylogenet Evol 2004, 30: 438–449. 10.1016/S1055-7903(03)00185-4 Thygesen A, Thomsen AB, Schmidt AS, Jørgensen H, Ahring BK, Olsson L: Production of cellulose and hemicellulose-degrading enzymes by filamentous fungi cultivated on wet-oxidised wheat straw. Enzyme Microb Technol 2003, 32: 606–615. 10.1016/S0141-0229(03)00018-8 Tian S, Luo XL, Yang XS, Zhu JY: Robust cellulosic ethanol production from SPORL-pretreated lodgepole pine using an adapted strain Saccharomyces cerevisiae without detoxification. Bioresour Technol 2010, 101: 8678–8685. 10.1016/j.biortech.2010.06.069 Uchida H, Kurakata Y, Sawamura H, Inamura N, Kotani T, Uwajima T: Purification and properties of an esterase from Aspergillus nomius HS-1 degrading ethylene glycol dibenzoate. FEMS Microbiol Lett 2003, 223: 123–127. 10.1016/S0378-1097(03)00353-7 White TJ, Bruns T, Lee SB, Taylor JW: Amplification and direct sequencing of fungal ribosomal DNA genes for phylogenetics. In PCR Protocols a Guide to Methods and Applications. Edited by: Innis MA, Gelfand DH, Sninsky JJ, White TJ. New York: Academic; 1990:315–322. Wood TM, Bhat KM: Methods for measuring cellullase activities. In Methods in Enzymology. Edited by: Wood WA, Kellogg ST. London: Academic Press, Inc; 1988:87–112.