Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi

Robert Riley; Asaf A. Salamov; Daren W. BrownLaszlo G. NagyDimitrios FloudasBenjamin W. HeldAnthony LevasseurVincent LombardEmmanuelle MorinRobert OtillarErika A. LindquistHui SunKurt M. LaButtiJeremy SchmutzDina JabbourHong LuoScott E. BakerAntonio G. PisabarroJonathan D. WaltonRobert A. BlanchetteBernard HenrissatFrancis MartinDan CullenDavid S. HibbettIgor V. Grigoriev

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Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi

机译：Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi

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Basidiomycota (basidiomycetes) make up 32 of the described fungi and include most wood-decaying species, as well as pathogens and mutualistic symbionts. Wood-decaying basidiomycetes have typically been classified as either white rot or brown rot, based on the ability (in white rot only) to degrade lignin along with cellulose and hemicellulose. Prior genomic comparisons suggested that the two decay modes can be distinguished based on the presence or absence of ligninolytic class II peroxidases (PODs), as well as the abundance of enzymes acting directly on crystalline cellulose (reduced in brown rot). To assess the generality of the white-rot/brown-rot classification paradigm, we compared the genomes of 33 basidiomycetes, including four newly sequenced wood decayers, and performed phylogenetically informed principal-components analysis (PCA) of a broad range of gene families encoding plant biomass-degrading enzymes. The newly sequenced Botryobasidium botryosum and Jaapia argillacea genomes lack PODs but possess diverse enzymes acting on crystalline cellulose, and they group close to the model white-rot species Phanerochaete chrysosporium in the PCA. Furthermore, laboratory assays showed that both B. botryosum and J. argillacea can degrade all polymeric components of woody plant cell walls, a characteristic of white rot. We also found expansions in reducing polyketide synthase genes specific to the brown-rot fungi. Our results suggest a continuum rather than a dichotomy between the white-rot and brown-rot modes of wood decay. A more nuanced categorization of rot types is needed, based on an improved understanding of the genomics and biochemistry of wood decay.

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《Proceedings of the National Academy of Sciences of the United States of America》 |2014年第27期|9923-9928|共6页
作者
Robert Riley; Asaf A. Salamov; Daren W. BrownLaszlo G. NagyDimitrios FloudasBenjamin W. HeldAnthony LevasseurVincent LombardEmmanuelle MorinRobert OtillarErika A. LindquistHui SunKurt M. LaButtiJeremy SchmutzDina JabbourHong LuoScott E. BakerAntonio G. PisabarroJonathan D. WaltonRobert A. BlanchetteBernard HenrissatFrancis MartinDan CullenDavid S. HibbettIgor V. Grigoriev;
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作者单位

US Department of Energy (DOE) Joint Genome Institute, Walnut Creek, CA 94598;

US Department of Agriculture (USDA), Peoria, IL 61604;

Department of Biology, Clark University, Worcester, MA 01610University of Minnesota, St. Paul, MN 55108Institut National de la Recherche Agronomique, Unité Mixte de Recherche 1163, Aix-Marseille Université, 13288 Marseille, FranceCentre National de la Recherche Scientifique, Unité Mixte de Recherche 7257, Aix-Marseille Université, 13288 Marseille, FranceInstitut National de la Recherche Agronomique, Unité Mixte de Recherche 1136, Institut National de la Recherche Agronomique-Université de Lorraine, Interactions Arbres/Micro-organismes, 54280 Champenoux, FranceDOE Great Lakes Bioenergy Research Center, Michigan State University, East Lansing, MI 48824Environmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, WA 99354Departamento de Producción Agraria, Universidad Pública de Navarra, 31006 Pamplona, SpainUSDA Forest Products Laboratory, Madison, WI 53726;

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收录信息美国《科学引文索引》(SCI);美国《生物学医学文摘》(MEDLINE);美国《化学文摘》(CA);
原文格式 PDF
正文语种英语
中图分类自然科学总论;
关键词
lignocellulose; phylogenomics; bioenergy;

Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi

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