The Paleozoic Origin of Enzymatic Lignin Decomposition Reconstructed from 31 Fungal Genomes
Dimitrios FloudasBiology Department, Clark University, Worcester, MA 01610, USAManfred BinderBiology Department, Clark University, Worcester, MA 01610, USARobert RileyU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USAKerrie BarryU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USARobert A. BlanchetteDepartment of Plant Pathology, University of Minnesota, St. Paul, MN 55108, USABernard HenrissatArchitecture et Fonction des Macromolécules Biologiques, Aix-Marseille Université, CNRS UMR 6098, 13288 Marseille Cedex 9, FranceÁngel T. Martı́nezCentro de Investigaciones Biológicas, CSIC, Ramiro de Maeztu 9, E-28040 Madrid, SpainRobert OtillarU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USAJoseph W. SpataforaDepartment of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331, USAJagjit S. YadavEnvironmental Genetics and Molecular Toxicology Division, Department of Environmental Health, University of Cincinnati College of Medicine, Cincinnati, OH 45267, USAAndrea AertsU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USAIsabelle BenoitCBS-KNAW Fungal Biodiversity Centre, Uppsalalaan 8, 3584 CT Utrecht, NetherlandsAlex BoydDepartment of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331, USAAlexis CarlsonBiology Department, Clark University, Worcester, MA 01610, USAAlex CopelandU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USAPedro M. CoutinhoArchitecture et Fonction des Macromolécules Biologiques, Aix-Marseille Université, CNRS UMR 6098, 13288 Marseille Cedex 9, FranceRonald P. de VriesCBS-KNAW Fungal Biodiversity Centre, Uppsalalaan 8, 3584 CT Utrecht, NetherlandsPatrícia FerreiraDepartment of Biochemistry and Molecular and Cellular Biology and Institute of Biocomputation and Physics of Complex Systems, Zaragoza University, 50009, Zaragoza, SpainKeisha FindleyDepartment of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, NC 27710, USABrian FosterU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USAJill GaskellUSDA Forest Products Laboratory, Madison, WI 53726, USADylan GlotzerBiology Department, Clark University, Worcester, MA 01610, USAPaweł GóreckiInstitute of Informatics, Warsaw University, Warsaw, 02-097, PolandJoseph HeitmanDepartment of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, NC 27710, USACedar HesseDepartment of Botany and Plant Pathology, Oregon State University, Corvallis, OR 97331, USAChiaki HoriDepartment of Biomaterial Sciences, Graduate School of Agricultural and Life Sciences, University of Tokyo, 1-1-1, Yayoi, Bunkyo-ku, Tokyo 113-8657, JapanKiyohiko IgarashiDepartment of Biomaterial Sciences, Graduate School of Agricultural and Life Sciences, University of Tokyo, 1-1-1, Yayoi, Bunkyo-ku, Tokyo 113-8657, JapanJoel A. JurgensDepartment of Plant Pathology, University of Minnesota, St. Paul, MN 55108, USANathan KallenBiology Department, Clark University, Worcester, MA 01610, USAPhil KerstenUSDA Forest Products Laboratory, Madison, WI 53726, USAAnnegret KohlerINRA, UMR 1136, INRA-Nancy Université, Interactions Arbres/Microorganismes, 54280 Champenoux, FranceUrsula KüesMolecular Wood Biotechnology and Technical Mycology, Büsgen-Institute, Georg-August-University Göttingen, Büsgenweg 2, D-37077 Göttingen, GermanyT. K. Arun KumarDepartment of Plant Biology, University of Minnesota, St. Paul, MN 55108, USAAlan KuoU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USAKurt LaButtiU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USALuis LarrondoDepartamento de Genética Molecular y Microbiología, Facultad de Ciencias Biológicas, Pontifica Universidad Católica de Chile, Casilla 114-D, Santiago 833-1010, ChileErika LindquistU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USAAlbee Y. LingBiology Department, Clark University, Worcester, MA 01610, USAVincent LombardArchitecture et Fonction des Macromolécules Biologiques, Aix-Marseille Université, CNRS UMR 6098, 13288 Marseille Cedex 9, FranceSusan LucasU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USATaina LundellDepartment of Applied Chemistry and Microbiology, Viikki Biocenter, P.O. Box 56, Biocenter 1, University of Helsinki, FIN-00014 Helsinki, FinlandRachael MartinBiology Department, Clark University, Worcester, MA 01610, USADavid J. McLaughlinDepartment of Plant Biology, University of Minnesota, St. Paul, MN 55108, USAIngo MorgensternCentre for Structural and Functional Genomics, Concordia University, 7141 Sherbrooke Street West, Montreal, Quebec H4B 1R6, CanadaEmanuelle MorinINRA, UMR 1136, INRA-Nancy Université, Interactions Arbres/Microorganismes, 54280 Champenoux, FranceClaude MuratINRA, UMR 1136, INRA-Nancy Université, Interactions Arbres/Microorganismes, 54280 Champenoux, FranceLászló G. NagyBiology Department, Clark University, Worcester, MA 01610, USAMatt NolanU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USARobin A. OhmU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USAAleksandrina PatyshakuliyevaCBS-KNAW Fungal Biodiversity Centre, Uppsalalaan 8, 3584 CT Utrecht, NetherlandsAntonis RokasDepartment of Biological Sciences, Vanderbilt University, Nashville, TN 37235, USAFrancisco J. Ruiz‐DueñasCentro de Investigaciones Biológicas, CSIC, Ramiro de Maeztu 9, E-28040 Madrid, SpainGrzegorz SabatUniversity of Wisconsin Biotechnology Center, Madison, WI 53726, USAAsaf SalamovU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USAMasahiro SamejimaDepartment of Biomaterial Sciences, Graduate School of Agricultural and Life Sciences, University of Tokyo, 1-1-1, Yayoi, Bunkyo-ku, Tokyo 113-8657, JapanJeremy SchmutzHudsonAlpha Institute for Biotechnology, Huntsville, AL 35806, USAJason C. SlotDepartment of Biological Sciences, Vanderbilt University, Nashville, TN 37235, USAFranz J. St JohnUSDA Forest Products Laboratory, Madison, WI 53726, USAJan StenlidDepartment of Forest Mycology and Pathology, Swedish University of Agricultural Sciences, Box 7026, Ulls v 26A, 750 07 Uppsala, SwedenHui SunU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USASheng SunDepartment of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, NC 27710, USAKhajamohiddin SyedUniversity of Cincinnati Medical CenterAdrian TsangCentre for Structural and Functional Genomics, Concordia University, 7141 Sherbrooke Street West, Montreal, Quebec H4B 1R6, CanadaAd WiebengaCBS-KNAW Fungal Biodiversity Centre, Uppsalalaan 8, 3584 CT Utrecht, NetherlandsDarcy F. YoungBiology Department, Clark University, Worcester, MA 01610, USAAntonio G. PisabarroGenetics and Microbiology Research Group, Public University of Navarre, 31006 Pamplona, SpainDaniel C. EastwoodCollege of Science, University of Swansea, Singleton Park, Swansea SA2 8PP, UKFrancis MartinINRA, UMR 1136, INRA-Nancy Université, Interactions Arbres/Microorganismes, 54280 Champenoux, FranceDan CullenUSDA Forest Products Laboratory, Madison, WI 53726, USAIgor V. GrigorievU.S. Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USADavid S. HibbettBiology Department, Clark University, Worcester, MA 01610, USA
2012en
ABI
Аннотация
Wood is a major pool of organic carbon that is highly resistant to decay, owing largely to the presence of lignin. The only organisms capable of substantial lignin decay are white rot fungi in the Agaricomycetes, which also contains non-lignin-degrading brown rot and ectomycorrhizal species. Comparative analyses of 31 fungal genomes (12 generated for this study) suggest that lignin-degrading peroxidases expanded in the lineage leading to the ancestor of the Agaricomycetes, which is reconstructed as a white rot species, and then contracted in parallel lineages leading to brown rot and mycorrhizal species. Molecular clock analyses suggest that the origin of lignin degradation might have coincided with the sharp decrease in the rate of organic carbon burial around the end of the Carboniferous period.
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