Exploring the natural fungal biodiversity of tropical and temperate forests toward improvement of biomass conversion

Applied and Environmental Microbiology

Volumn 78, Issue 18, 2012, Pages 6483-6490

  Berrin, Jean Guy ^a,b   Navarro, David ^a,b,c   Couturier, Marie ^a,b   Olivé, Caroline ^a,b   Grisel, Sacha ^a,b   Haon, Mireille ^a,b,c   Taussac, Sabine ^a,b,c   Lechat, Christian ^d   Courtecuisse, Régis ^e   Favel, Anne ^a,b,c   Coutinho, Pedro M ^b,f   Lesage Meessen, Laurence ^a,b,c  

^a Centre International de Ressources Microbiennes Champignons Filamenteux   (France)

^b AIX MARSEILLE UNIVERSITY   (France)

^c INRA   (France)

^d Laboratoire des Sciences Végétales et Fongiques ^*  (France)

^e UNIV LILLE   (France)

^f Centre National de la Recherche Scientifique   (France)

Author keywords

[No Author keywords available]

Indexed keywords

BIOMASS CONVERSION; CRYSTALLINE CELLULOSE; ENZYMATIC CONVERSIONS; FRENCH GUIANA; FUNGAL BIODIVERSITY; FUNGAL DIVERSITY; FUNGAL ISOLATES; FUNGAL STRAINS; HIGH ACTIVITY; HIGH-THROUGHPUT; LIGNOCELLULOSIC BIOMASS; MOLECULAR IDENTIFICATION; SECRETOME; SOLUBLE SUGARS; T. REESEI; TEMPERATE FORESTS; TRICHODERMA REESEI; TROPICAL FOREST;

BIOCONVERSION; BIODIVERSITY; BIOMASS; FORESTRY;

FUNGI;

CELLULASE; FUNGAL DNA; GLUCOSE;

BIOMASS; BIOTECHNOLOGY; FUNGUS; SPATIOTEMPORAL ANALYSIS; SPECIES DIVERSITY; TEMPERATE FOREST; TROPICAL FOREST;

ARTICLE; BIODIVERSITY; BIOMASS; CHEMISTRY; CLASSIFICATION; DNA SEQUENCE; ENZYMOLOGY; FRANCE; FRENCH GUIANA; FUNGUS; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; TREE; TROPIC CLIMATE; WOOD;

BIODIVERSITY; BIOMASS; CELLULASES; DNA, FUNGAL; FRANCE; FRENCH GUIANA; FUNGI; GLUCOSE; MOLECULAR SEQUENCE DATA; SEQUENCE ANALYSIS, DNA; TREES; TROPICAL CLIMATE; WOOD;

BIODIVERSITY; BIOMASS; FORESTRY; FUNGI;

FRENCH GUIANA;

HYPOCREA JECORINA; TRAMETES; TRAMETES GIBBOSA;

EID: 84866149120     PISSN: 00992240     EISSN: 10985336     Source Type: Journal    
DOI: 10.1128/AEM.01651-12     Document Type: Article

References (44)

1. Alberto F, Navarro D, de Vries RP, Asther M, Record E. 2009. Technical advance in fungal biotechnology: development of a miniaturized culture method and an automated high-throughput screening. Lett. Appl. Microbiol. 49:278-282.
2. Arnold AE, Maynard Z, Gilbert GS, Coley PD, Kursar TA. 2000. Are tropical fungal endophytes hyperdiverse. Ecol. Lett. 3:267-274.
3. Arnold AE. 2001. Fungal endophytes in neotropical trees: abundance, diversity, and ecological implications, p 739-743. In Ganeshaiah KN, Shaanker RU, Bawa KS (ed), Tropical ecosystems: structure, diversity and human welfare. Proceedings of the International Conference on Tropical Ecosystems. Oxford, New Delhi, India.
4. Bey M, Berrin JG, Poidevin L, Sigoillot JC. 2011. Heterologous expression of Pycnoporus cinnabarinus cellobiose dehydrogenase in Pichia pastoris and involvement in saccharification processes. Microb. Cell Fact. 10:113.
5. Blackwell M. 2011. The fungi: 1, 2, 3... 5.1 million species? Am. J. Bot. 98:426-438.
6. Bonnin E, et al. 2001. Aspergillus niger I-1472 and Pycnoporus cinnabarinus MUCL39533, selected for the biotransformation of ferulic acid to vanillin, are also able to produce cell wall polysaccharide-degrading enzymes and feruloyl esterases. Enzyme Microb. Technol. 28:70-80.
7. Cantarel BL, et al. 2009. The Carbohydrate-Active EnZymes database (CAZy): an expert resource for glycogenomics. Nucleic Acids Res. 37: D233-D238. doi:10.1093/nar/gkn663.
8. Couturier M, et al. 2011. Podospora anserina hemicellulases potentiate the Trichoderma reesei secretome for saccharification of lignocellulosic biomass. Appl. Environ. Microbiol. 77:237-246.
9. Couturier M, et al. 2012. Post-genomic analyses of fungal lignocellulosic biomass degradation reveal the unexpected potential of the plant pathogen Ustilago maydis. BMC Genomics 13:57. doi:10.1186/1471-2164-13-57.
10. De Boer W, Folman LB, Summerbell RC, Boddy L. 2005. Living in a fungal world: impact of fungi on soil bacterial niche development. FEMS Microbiol. Lett. 29:795-811.
11. Falkoski DL, et al. 2012. Characterization of cellulolytic extract from Pycnoporus sanguineus PF-2 and its application in biomass saccharification. Appl. Biochem. Biotechnol. 166:1586-1603.
12. Gibson DM, King BC, Hayes ML, Bergstrom GC. 2011. Plant pathogens as a source of diverse enzymes for lignocellulose digestion. Curr. Opin. Microbiol. 14:264-270.
13. Gilbertson RL, Ryvarden L. 1987. North American polypores, p 451. Fungiflora, Oslo, Norway.
14. Hawksworth DL. 1991. The fungal dimension of biodiversity: magnitude, significance, and conservation. Mycol. Res. 95:641-655.
15. Hawksworth DL. 2001. The magnitude of fungal diversity: the 1.5 million species estimate revisited. Mycol. Res. 105:1422-1432.
16. Hirooka Y, Rossman A, Samuels G, Lechat C, Chaverri P. 2012. A monograph of Allantonectria, Nectria, and Pleonectria (Nectriaceae, Hypocreales, Ascomycota) and their pycnidial, sporodochial, and synnematous anamorphs. Stud. Mycol. 71:1-210.
17. King BC, et al. 2011. Arsenal of plant cell wall degrading enzymes reflects host preference among plant pathogenic fungi. Biotechnol. Biofuels 16:4.
18. Langston JA, et al. 2011. Oxidoreductive cellulose depolymerization by the enzymes cellobiose dehydrogenase and glycoside hydrolase 61. Appl. Environ. Microbiol. 77:7007-7015.
19. Le Crom S, et al. 2009. Tracking the roots of cellulase hyperproduction by the fungus Trichoderma reesei using massively parallel DNA sequencing. Proc. Natl. Acad. Sci. U. S. A. 106:16151-16156.
20. Lesage-Meessen L, et al. A biotechnological process involving filamentous fungi to produce natural crystalline vanillin from maize bran. Appl. Biochem. Biotechnol. 102-103:141-153.
21. Lomascolo A, et al. 2002. Molecular clustering of Pycnoporus strains from various geographic origins and isolation of monokaryotic strains for laccase hyperproduction. Mycol. Res. 106:1193-1203.
22. Lomascolo A, Uzan-Boukhris E, Herpoël-Gimbert I, Sigoillot JC, Lesage-Meessen L. 2011. Peculiarities of Pycnoporus species for applications in biotechnology. Appl. Microbiol. Biotechnol. 92:1129-1149.
23. Margeot A, Hahn-Hagerdal B, Edlund M, Slade R, Monot F. 2009. New improvements for lignocellulosic ethanol. Curr. Opin. Biotechnol. 20:372-380.
24. Martinez D, et al. 2008. Genome sequencing and analysis of the biomassdegrading fungus Trichoderma reesei (syn. Hypocrea jecorina). Nat. Biotechnol. 26:553-560.
25. Moilanen U, Kellock M, Galkin S, Viikari L. 2011. The laccase-catalyzed modification of lignin for enzymatic hydrolysis. Enzyme Microb. Technol. 49:492-498.
26. Moncalvo J-M, Ryvarden L. 1997. A nomenclatural study of the Ganodermataceae Donk, p 114. Fungiflora, Oslo, Norway.
27. Navarro D, et al. 2010. Automated assay for screening the enzymatic release of reducing sugars from micronized biomass. Microb. Cell Fact. 9:58.
28. Peterson R, Nevalainen H. 2012. Trichoderma reesei RUT-C30-thirty years of strain improvement. Microbiology 158:58-68.
29. Ravalason H, et al. 2012. Fusarium verticillioides secretome as a source of auxiliary enzymes to enhance saccharification of wheat straw. Bioresour. Technol. 114:589-596.
30. Rossman AY, Samuels GJ, Rogerson CT, Lowen R. 1999. Genera of Bionectriaceae, Hypocreaceae and Nectriaceae (Hypocreales, Ascomycetes). Stud. Mycol. 42:1-248.
31. Russell JR, et al. 2011. Biodegradation of polyester polyurethane by endophytic fungi. Appl. Environ. Microbiol. 77:6076-6084.
32. Ryvarden L, Gilbertson RL. 1993. European polypores part 1, p 1-387. Fungiflora, Oslo, Norway.
33. Ryvarden L, Gilbertson RL. 1994. European polypores part 2, p 394-743. Fungiflora, Oslo, Norway.
34. Ryvarden L. 1987. New and noteworthy polypores from tropical America. Mycotaxon 28:525-541.
35. 1991. Genera of polypores. Nomenclature and Taxonomy, p 363. Fungiflora, Oslo, Norway.
36. Ryvarden L. 2004. Neotropical polypores, p 229. Fungiflora, Oslo, Norway.
37. Shrestha P, Szaro TM, Bruns TD, Taylor JW. 2011. Systematic search for cultivatable fungi that best deconstruct cell walls of Miscanthus and sugarcane in the field. Appl. Environ. Microbiol. 77:5490-5504.
38. Sigoillot JC, et al. 2012. Fungal strategies for lignin degradation. In Jouanin L, Lapierre C (ed). Lignins: biosynthesis, biodegradation and bioengineering, vol 61. Elsevier, Amsterdam, The Netherlands.
39. Silva GG, Couturier M, Berrin JG, Buléon A, Rouau X. 2012. Effects of grinding processes on enzymatic degradation of wheat straw. Bioresour. Technol. 103:192-200.
40. Tabka MG, Herpoël-Gimbert I, Monod F, Asther M, Sigoillot JC. 2006. Enzymatic saccharification of wheat straw for bioethanol production by a combined cellulase xylanase and feruloyl esterase treatment. Enzyme Microb. Technol. 39:897-902.
41. Tamura K, et al. 2011. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 28:2731-2739.
42. Welti S, et al. 2012. Molecular phylogeny of Trametes and related genera, and description of a new genus Leiotrametes. Fungal Diversity 55:47-64.
43. White TJ, Bruns T, Lee S, Taylor J. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics, p 315-322. In Innis MA, Gelfrand DH, Sninsky JJ, White TJ (ed), PCR protocols: a guide to methods and applications. Academic Press, San Diego, CA.
44. Zaldivar J, Nielsen J, Olsson L. 2001. Fuel ethanol production from lignocelluloses: a challenge for metabolic engineering and process integration. Appl. Microbiol. Biotechnol. l. 56:17-34.