Conserved white-rot enzymatic mechanism for wood decay in the Basidiomycota genus Pycnoporus

Miyauchi, Shingo; Hage, Hayat; Drula, Elodie; Lesage-Meessen, Laurence; Berrin, Jean-Guy; Navarro, David; Favel, Anne; Chaduli, Delphine; Grisel, Sacha; Haon, Mireille; Piumi, François; Levasseur, Anthony; Lomascolo, Anne; Ahrendt, Steven; Barry, Kerrie; LaButti, Kurt M.; Chevret, Didier; Daum, Chris; Mariette, Jérôme; Klopp, Christophe; Cullen, Daniel; de Vries, Ronald P.; Gathman, Allen C.; Hainaut, Matthieu; Henrissat, Bernard; Hildén, Kristiina S.; Kües, Ursula; Lilly, Walt; Lipzen, Anna; Mäkelä, Miia R.; Martinez, Angel T.; Morel-Rouhier, Mélanie; Morin, Emmanuelle; Pangilinan, Jasmyn; Ram, Arthur F. J.; Wösten, Han A. B.; Ruiz-Dueñas, Francisco J.; Riley, Robert; Record, Eric; Grigoriev, Igor V.; Rosso, Marie-Noëlle

doi:10.1093/dnares/dsaa011

Title: Conserved white-rot enzymatic mechanism for wood decay in the Basidiomycota genus Pycnoporus

Journal Article · Wed Apr 01 00:00:00 EDT 2020 · DNA Research

DOI:https://doi.org/10.1093/dnares/dsaa011· OSTI ID:1816251

Miyauchi, Shingo ^[1]; Hage, Hayat ^[2]; Drula, Elodie ^[2]; Lesage-Meessen, Laurence ^[3]; Berrin, Jean-Guy ^[2]; Navarro, David ^[3]; Favel, Anne ^[3]; Chaduli, Delphine ^[3]; Grisel, Sacha ^[2]; Haon, Mireille ^[2]; Piumi, François ^[4]; Levasseur, Anthony ^[4]; Lomascolo, Anne ^[4]; Ahrendt, Steven ^[5]; Barry, Kerrie ^[5]; LaButti, Kurt M. ^[5]; Chevret, Didier ^[6]; Daum, Chris ^[5]; Mariette, Jérôme ^[7]; Klopp, Christophe ^[7] more »

Aix Marseille Univ. (France). Biodiversity and Biotechnology of Fungi. INRAE; Université de Lorraine, Nancy (France). Interactions Arbres/Microorganismes. INRAE
Aix Marseille Univ. (France). Biodiversity and Biotechnology of Fungi. INRAE
Aix Marseille Univ. (France). Biodiversity and Biotechnology of Fungi. INRAE; Aix Marseille Univ. (France). INRAE. CIRM-CF
INRAE, UMR1163, Biodiversity and Biotechnology of Fungi, Aix Marseille University, 13009 Marseille, France
US Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA
INRAE, UMR1319, Micalis, Plateforme d’Analyse Protéomique de Paris Sud-Ouest, Jouy-en-Josas, France
INRAE, Genotoul Bioinfo, UR875, Mathématiques et Informatique Appliquées de Toulouse, Castanet-Tolosan, France
USDA Forest Products Laboratory, Madison, WI, USA
Fungal Physiology, Westerdijk Fungal Biodiversity Institute and Fungal Molecular Physiology, Utrecht University, Utrecht, The Netherlands; Department of Microbiology, University of Helsinki, Helsinki, Finland
Department of Biology, Southeast Missouri State University, Cape Girardeau, MI, USA
CNRS, UMR7257, AFMB, Aix Marseille University, Marseille, France; INRAE, USC1408, AFMB, Marseille, France
Department of Microbiology, University of Helsinki, Helsinki, Finland
Department of Molecular Wood Biotechnology and Technical Mycology, Büsgen-Institute, Georg-August-University Göttingen, Göttingen, Germany; Center for Molecular Biosciences (GZMB), Georg-August-University Göttingen, Göttingen, Germany
Centro de Investigaciones Biológicas, CSIC, Madrid, Spain
INRAE, UMR1136, Interactions Arbres/Microorganismes, Université de Lorraine, Nancy, France
Molecular Microbiology and Biotechnology, Institute of Biology Leiden, Leiden University, Leiden, The Netherlands
Microbiology, Utrecht University, Utrecht, The Netherlands
US Department of Energy, Joint Genome Institute, Walnut Creek, CA, USA; Department of Plant and Microbial Biology, University of California Berkeley, Berkeley, CA, USA

White-rot (WR) fungi are pivotal decomposers of dead organic matter in forest ecosystems and typically use a large array of hydrolytic and oxidative enzymes to deconstruct lignocellulose. However, the extent of lignin and cellulose degradation may vary between species and wood type. Here, we combined comparative genomics, transcriptomics and secretome proteomics to identify conserved enzymatic signatures at the onset of wood-decaying activity within the Basidiomycota genus Pycnoporus. We observed a strong conservation in the genome structures and the repertoires of protein-coding genes across the four Pycnoporus species described to date, despite the species having distinct geographic distributions. We further analysed the early response of P. cinnabarinus, P. coccineus and P. sanguineus to diverse (ligno)-cellulosic substrates. We identified a conserved set of enzymes mobilized by the three species for breaking down cellulose, hemicellulose and pectin. The co-occurrence in the exo-proteomes of H₂O₂-producing enzymes with H₂O₂-consuming enzymes was a common feature of the three species, although each enzymatic partner displayed independent transcriptional regulation. Finally, cellobiose dehydrogenase-coding genes were systematically co-regulated with at least one AA9 lytic polysaccharide monooxygenase gene, indicative of enzymatic synergy in vivo. This study highlights a conserved core white-rot fungal enzymatic mechanism behind the wood-decaying process.

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Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC)

Contributing Organization:: UMR INRAE Research Collaboration

Grant/Contract Number:: AC02-05CH11231

OSTI ID:: 1816251

Journal Information:: DNA Research, Vol. 27, Issue 2; ISSN 1340-2838

Publisher:: Oxford University PressCopyright Statement

Country of Publication:: United States

Language:: English

References (78)

The InterPro protein families database: the classification resource after 15 years Mitchell, Alex; Chang, Hsin-Yu; Daugherty, Louise Nucleic Acids Research, Vol. 43, Issue D1 https://doi.org/10.1093/nar/gku1243	journal	November 2014
Systematic Identification and Evolutionary Analysis of Catalytically Versatile Cytochrome P450 Monooxygenase Families Enriched in Model Basidiomycete Fungi Syed, Khajamohiddin; Shale, Karabo; Pagadala, Nataraj Sekhar PLoS ONE, Vol. 9, Issue 1 https://doi.org/10.1371/journal.pone.0086683	journal	January 2014
The sva package for removing batch effects and other unwanted variation in high-throughput experiments Leek, Jeffrey T.; Johnson, W. Evan; Parker, Hilary S. Bioinformatics, Vol. 28, Issue 6 https://doi.org/10.1093/bioinformatics/bts034	journal	January 2012
Comparative analysis of secretomes in basidiomycete fungi Alfaro, Manuel; Oguiza, José A.; Ramírez, Lucía Journal of Proteomics, Vol. 102 https://doi.org/10.1016/j.jprot.2014.03.001	journal	May 2014
A critical review of cellobiose dehydrogenases Henriksson, Gunnar; Johansson, Gunnar; Pettersson, Göran Journal of Biotechnology, Vol. 78, Issue 2 https://doi.org/10.1016/S0168-1656(00)00206-6	journal	March 2000
ggplot2 Wickham, Hadley Springer New York, NY https://doi.org/10.1007/978-0-387-98141-3	book	January 2009
Time-scale dynamics of proteome and transcriptome of the white-rot fungus Phlebia radiata: growth on spruce wood and decay effect on lignocellulose Kuuskeri, Jaana; Häkkinen, Mari; Laine, Pia Biotechnology for Biofuels, Vol. 9, Issue 1 https://doi.org/10.1186/s13068-016-0608-9	journal	September 2016
Multiplicity of enzymatic functions in the CAZy AA3 family Sützl, Leander; Laurent, Christophe V. F. P.; Abrera, Annabelle T. Applied Microbiology and Biotechnology, Vol. 102, Issue 6 https://doi.org/10.1007/s00253-018-8784-0	journal	February 2018
Selection of Conserved Blocks from Multiple Alignments for Their Use in Phylogenetic Analysis Castresana, J. Molecular Biology and Evolution, Vol. 17, Issue 4 https://doi.org/10.1093/oxfordjournals.molbev.a026334	journal	April 2000
Phylogeographic relationships in the polypore fungus Pycnoporus inferred from molecular data Lesage-Meessen, Laurence; Haon, Mireille; Uzan, Eva FEMS Microbiology Letters, Vol. 325, Issue 1 https://doi.org/10.1111/j.1574-6968.2011.02412.x	journal	October 2011
Fast solubilization of recalcitrant cellulosic biomass by the basidiomycete fungus Laetisaria arvalisinvolves successive secretion of oxidative and hydrolytic enzymes Navarro, David; Rosso, Marie-Noëlle; Haon, Mireille Biotechnology for Biofuels, Vol. 7, Issue 1 https://doi.org/10.1186/s13068-014-0143-5	journal	October 2014
Oxidoreductases and Reactive Oxygen Species in Conversion of Lignocellulosic Biomass Bissaro, Bastien; Várnai, Anikó; Røhr, Åsmund K. Microbiology and Molecular Biology Reviews, Vol. 82, Issue 4 https://doi.org/10.1128/MMBR.00029-18	journal	September 2018
Genetic Bases of Fungal White Rot Wood Decay Predicted by Phylogenomic Analysis of Correlated Gene-Phenotype Evolution Nagy, László G.; Riley, Robert; Bergmann, Philip J. Molecular Biology and Evolution, Vol. 34, Issue 1 https://doi.org/10.1093/molbev/msw238	journal	November 2016
TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions Kim, Daehwan; Pertea, Geo; Trapnell, Cole Genome Biology, Vol. 14, Issue 4 https://doi.org/10.1186/gb-2013-14-4-r36	journal	January 2013
Transcriptomic Responses of Phanerochaete chrysosporium to Oak Acetonic Extracts: Focus on a New Glutathione Transferase Thuillier, Anne; Chibani, Kamel; Belli, Gemma Applied and Environmental Microbiology, Vol. 80, Issue 20 https://doi.org/10.1128/AEM.02103-14	journal	August 2014
High-quality draft assemblies of mammalian genomes from massively parallel sequence data Gnerre, S.; MacCallum, I.; Przybylski, D. Proceedings of the National Academy of Sciences, Vol. 108, Issue 4 https://doi.org/10.1073/pnas.1017351108	journal	December 2010
Glyoxal oxidases: their nature and properties Daou, Marianne; Faulds, Craig B. World Journal of Microbiology and Biotechnology, Vol. 33, Issue 5 https://doi.org/10.1007/s11274-017-2254-1	journal	April 2017
Single-domain flavoenzymes trigger lytic polysaccharide monooxygenases for oxidative degradation of cellulose Garajova, Sona; Mathieu, Yann; Beccia, Maria Rosa Scientific Reports, Vol. 6, Issue 1 https://doi.org/10.1038/srep28276	journal	June 2016
Self- and Super-organizing Maps in R : The kohonen Package Wehrens, Ron; Buydens, Lutgarde M. C. Journal of Statistical Software, Vol. 21, Issue 5 https://doi.org/10.18637/jss.v021.i05	journal	January 2007
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs Simão, Felipe A.; Waterhouse, Robert M.; Ioannidis, Panagiotis Bioinformatics, Vol. 31, Issue 19 https://doi.org/10.1093/bioinformatics/btv351	journal	June 2015
Structural basis for cellobiose dehydrogenase action during oxidative cellulose degradation Tan, Tien-Chye; Kracher, Daniel; Gandini, Rosaria Nature Communications, Vol. 6, Issue 1 https://doi.org/10.1038/ncomms8542	journal	July 2015
Oxidative cleavage of polysaccharides by monocopper enzymes depends on H2O2 Bissaro, Bastien; Røhr, Åsmund K.; Müller, Gerdt Nature Chemical Biology, Vol. 13, Issue 10 https://doi.org/10.1038/nchembio.2470	journal	August 2017
Recent insights into lytic polysaccharide monooxygenases (LPMOs) Tandrup, Tobias; Frandsen, Kristian E. H.; Johansen, Katja S. Biochemical Society Transactions, Vol. 46, Issue 6 https://doi.org/10.1042/BST20170549	journal	October 2018
Differential proteomic analysis of the secretome of Irpex lacteus and other white-rot fungi during wheat straw pretreatment Salvachúa, Davinia; Martínez, Angel T.; Tien, Ming Biotechnology for Biofuels, Vol. 6, Issue 1 https://doi.org/10.1186/1754-6834-6-115	journal	January 2013
Lytic xylan oxidases from wood-decay fungi unlock biomass degradation Couturier, Marie; Ladevèze, Simon; Sulzenbacher, Gerlind Nature Chemical Biology, Vol. 14, Issue 3 https://doi.org/10.1038/nchembio.2558	journal	January 2018
Temporal Alterations in the Secretome of the Selective Ligninolytic Fungus Ceriporiopsis subvermispora during Growth on Aspen Wood Reveal This Organism's Strategy for Degrading Lignocellulose Hori, Chiaki; Gaskell, Jill; Igarashi, Kiyohiko Applied and Environmental Microbiology, Vol. 80, Issue 7 https://doi.org/10.1128/AEM.03652-13	journal	January 2014
Aggressive assembly of pyrosequencing reads with mates Miller, Jason R.; Delcher, Arthur L.; Koren, Sergey Bioinformatics, Vol. 24, Issue 24 https://doi.org/10.1093/bioinformatics/btn548	journal	October 2008
Twenty years of the MEROPS database of proteolytic enzymes, their substrates and inhibitors Rawlings, Neil D.; Barrett, Alan J.; Finn, Robert Nucleic Acids Research, Vol. 44, Issue D1 https://doi.org/10.1093/nar/gkv1118	journal	November 2015
Extracellular electron transfer systems fuel cellulose oxidative degradation Kracher, D.; Scheiblbrandner, S.; Felice, A. K. G. Science, Vol. 352, Issue 6289 https://doi.org/10.1126/science.aaf3165	journal	April 2016
Differences in crystalline cellulose modification due to degradation by brown and white rot fungi Hastrup, Anne Christine Steenkjær; Howell, Caitlin; Larsen, Flemming Hofmann Fungal Biology, Vol. 116, Issue 10 https://doi.org/10.1016/j.funbio.2012.07.009	journal	October 2012
How nutritional status signalling coordinates metabolism and lignocellulolytic enzyme secretion Brown, Neil Andrew; Ries, Laure Nicolas Annick; Goldman, Gustavo Henrique Fungal Genetics and Biology, Vol. 72 https://doi.org/10.1016/j.fgb.2014.06.012	journal	November 2014
Microarray-based global differential expression profiling of P450 monooxygenases and regulatory proteins for signal transduction pathways in the white rot fungus Phanerochaete chrysosporium Doddapaneni, H.; Yadav, J. S. Molecular Genetics and Genomics, Vol. 274, Issue 5 https://doi.org/10.1007/s00438-005-0051-2	journal	October 2005
Visual Comparative Omics of Fungi for Plant Biomass Deconstruction Miyauchi, Shingo; Navarro, David; Grigoriev, Igor V. Frontiers in Microbiology, Vol. 7 https://doi.org/10.3389/fmicb.2016.01335	journal	August 2016
Delignification by Wood-Decay Fungi Blanchette, R. A. Annual Review of Phytopathology, Vol. 29, Issue 1 https://doi.org/10.1146/annurev.py.29.090191.002121	journal	September 1991
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability Katoh, K.; Standley, D. M. Molecular Biology and Evolution, Vol. 30, Issue 4 https://doi.org/10.1093/molbev/mst010	journal	January 2013
OrthoFinder: phylogenetic orthology inference for comparative genomics Emms, David M.; Kelly, Steven Genome Biology, Vol. 20, Issue 1 https://doi.org/10.1186/s13059-019-1832-y	journal	November 2019
Copper radical oxidases and related extracellular oxidoreductases of wood-decay Agaricomycetes Kersten, Phil; Cullen, Dan Fungal Genetics and Biology, Vol. 72 https://doi.org/10.1016/j.fgb.2014.05.011	journal	November 2014
A secretomic view of woody and nonwoody lignocellulose degradation by Pleurotus ostreatus Fernández-Fueyo, Elena; Ruiz-Dueñas, Francisco J.; López-Lucendo, María F. Biotechnology for Biofuels, Vol. 9, Issue 1 https://doi.org/10.1186/s13068-016-0462-9	journal	February 2016
Phylogenetic classification of Trametes (Basidiomycota, Polyporales) based on a five-marker dataset Justo, Alfredo; Hibbett, David S. TAXON, Vol. 60, Issue 6 https://doi.org/10.1002/tax.606003	journal	December 2011
RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies Stamatakis, Alexandros Bioinformatics, Vol. 30, Issue 9 https://doi.org/10.1093/bioinformatics/btu033	journal	January 2014
Genome analysis of medicinal Ganoderma spp. with plant-pathogenic and saprotrophic life-styles Kües, Ursula; Nelson, David R.; Liu, Chang Phytochemistry, Vol. 114 https://doi.org/10.1016/j.phytochem.2014.11.019	journal	June 2015
Transposable Elements versus the Fungal Genome: Impact on Whole-Genome Architecture and Transcriptional Profiles Castanera, Raúl; López-Varas, Leticia; Borgognone, Alessandra PLOS Genetics, Vol. 12, Issue 6 https://doi.org/10.1371/journal.pgen.1006108	journal	June 2016
A Mechanism for Production of Hydroxyl Radicals by the Brown-Rot Fungus Coniophora Puteana: Fe(III) Reduction by Cellobiose Dehydrogenase and Fe(II) Oxidation at a Distance from the Hyphae Hyde, S. M.; Wood, P. M. Microbiology, Vol. 143, Issue 1 https://doi.org/10.1099/00221287-143-1-259	journal	January 1997
Glyoxal oxidase of Phanerochaete chrysosporium: its characterization and activation by lignin peroxidase. Kersten, P. J. Proceedings of the National Academy of Sciences, Vol. 87, Issue 8 https://doi.org/10.1073/pnas.87.8.2936	journal	April 1990
Studies in Wood-Inhabiting Hymenomycetes: v. the Genus Pycnoporus Karst. Nobles, Mildred K.; Frew, Barbara P. Canadian Journal of Botany, Vol. 40, Issue 7 https://doi.org/10.1139/b62-092	journal	July 1962
Comparative genomics of Rhizophagus irregularis , R. cerebriforme , R. diaphanus and Gigaspora rosea highlights specific genetic features in Glomeromycotina Morin, Emmanuelle; Miyauchi, Shingo; San Clemente, Hélène New Phytologist, Vol. 222, Issue 3 https://doi.org/10.1111/nph.15687	journal	February 2019
Xenomic networks variability and adaptation traits in wood decaying fungi: Fungal xenomic networks Morel, Mélanie; Meux, Edgar; Mathieu, Yann Microbial Biotechnology, Vol. 6, Issue 3 https://doi.org/10.1111/1751-7915.12015	journal	January 2013
Lignocellulose-converting enzyme activity profiles correlate with molecular systematics and phylogeny grouping in the incoherent genus Phlebia (Polyporales, Basidiomycota) Kuuskeri, Jaana; Mäkelä, Miia R.; Isotalo, Jarkko BMC Microbiology, Vol. 15, Issue 1 https://doi.org/10.1186/s12866-015-0538-x	journal	October 2015
Molecular clustering of Pycnoporus strains from various geographic origins and isolation of monokaryotic strains for laccase hyperproduction Lomascolo, Anne; Cayol, Jean-Luc; Roche, Marjolaine Mycological Research, Vol. 106, Issue 10 https://doi.org/10.1017/S0953756202006494	journal	October 2002
The carbohydrate-active enzymes database (CAZy) in 2013 Lombard, Vincent; Golaconda Ramulu, Hemalatha; Drula, Elodie Nucleic Acids Research, Vol. 42, Issue D1 https://doi.org/10.1093/nar/gkt1178	journal	November 2013
Comparative Analysis of Secretomes from Ectomycorrhizal Fungi with an Emphasis on Small-Secreted Proteins Pellegrin, Clement; Morin, Emmanuelle; Martin, Francis M. Frontiers in Microbiology, Vol. 6 https://doi.org/10.3389/fmicb.2015.01278	journal	November 2015
PATRIC, the bacterial bioinformatics database and analysis resource Wattam, Alice R.; Abraham, David; Dalay, Oral Nucleic Acids Research, Vol. 42, Issue D1 https://doi.org/10.1093/nar/gkt1099	journal	November 2013
Comparative genomics of the white-rot fungi, Phanerochaete carnosa and P. chrysosporium, to elucidate the genetic basis of the distinct wood types they colonize Suzuki, Hitoshi; MacDonald, Jacqueline; Syed, Khajamohiddin BMC Genomics, Vol. 13, Issue 1 https://doi.org/10.1186/1471-2164-13-444	journal	January 2012
Genomic Analyses Provide Insights Into the Evolutionary History and Genetic Diversity of Auricularia Species Dai, Yueting; Li, Xiao; Song, Bing Frontiers in Microbiology, Vol. 10 https://doi.org/10.3389/fmicb.2019.02255	journal	October 2019
Systematic and searchable classification of cytochrome P450 proteins encoded by fungal and oomycete genomes Moktali, Venkatesh; Park, Jongsun; Fedorova-Abrams, Natalie D. BMC Genomics, Vol. 13, Issue 1 https://doi.org/10.1186/1471-2164-13-525	journal	January 2012
Genomics of wood-degrading fungi Ohm, Robin A.; Riley, Robert; Salamov, Asaf Fungal Genetics and Biology, Vol. 72 https://doi.org/10.1016/j.fgb.2014.05.001	journal	November 2014
New substrates and activity of Phanerochaete chrysosporium Omega glutathione transferases Meux, Edgar; Morel, Mélanie; Lamant, Tiphaine Biochimie, Vol. 95, Issue 2 https://doi.org/10.1016/j.biochi.2012.10.003	journal	February 2013
FinisherSC: a repeat-aware tool for upgrading de novo assembly using long reads Lam, Ka-Kit; LaButti, Kurt; Khalak, Asif Bioinformatics, Vol. 31, Issue 19 https://doi.org/10.1093/bioinformatics/btv280	journal	June 2015
Selection of Pycnoporus cinnabarinus strains for laccase production Herpoël, I. FEMS Microbiology Letters, Vol. 183, Issue 2 https://doi.org/10.1016/S0378-1097(99)00616-3	journal	February 2000
Genome-Wide Annotation and Comparative Analysis of Cytochrome P450 Monooxygenases in Basidiomycete Biotrophic Plant Pathogens Qhanya, Lehlohonolo Benedict; Matowane, Godfrey; Chen, Wanping PLOS ONE, Vol. 10, Issue 11 https://doi.org/10.1371/journal.pone.0142100	journal	November 2015
Oak extractive-induced stress reveals the involvement of new enzymes in the early detoxification response of Phanerochaete chrysosporium: Early fungal responses to oak extractives Fernández-González, Antonio José; Valette, Nicolas; Kohler, Annegret Environmental Microbiology, Vol. 20, Issue 10 https://doi.org/10.1111/1462-2920.14409	journal	October 2018
Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis Fernandez-Fueyo, E.; Ruiz-Duenas, F. J.; Ferreira, P. Proceedings of the National Academy of Sciences, Vol. 109, Issue 14, p. 5458-5463 https://doi.org/10.1073/pnas.1119912109	journal	March 2012
Diversification of Fungal Specific Class A Glutathione Transferases in Saprotrophic Fungi Mathieu, Yann; Prosper, Pascalita; Favier, Frédérique PLoS ONE, Vol. 8, Issue 11 https://doi.org/10.1371/journal.pone.0080298	journal	November 2013
Phylogeny, divergence time and historical biogeography of Laetiporus (Basidiomycota, Polyporales) Song, Jie; Cui, Bao-Kai BMC Evolutionary Biology, Vol. 17, Issue 1 https://doi.org/10.1186/s12862-017-0948-5	journal	April 2017
Evolutionary divergence of Ure2pA glutathione transferases in wood degrading fungi Roret, Thomas; Thuillier, Anne; Favier, Frédérique Fungal Genetics and Biology, Vol. 83 https://doi.org/10.1016/j.fgb.2015.09.002	journal	October 2015
The integrative omics of white-rot fungus Pycnoporus coccineus reveals co-regulated CAZymes for orchestrated lignocellulose breakdown Miyauchi, Shingo; Navarro, David; Grisel, Sacha PLOS ONE, Vol. 12, Issue 4 https://doi.org/10.1371/journal.pone.0175528	journal	April 2017
Characterization of a Phanerochaete chrysosporium Glutathione Transferase Reveals a Novel Structural and Functional Class with Ligandin Properties Mathieu, Yann; Prosper, Pascalita; Buée, Marc Journal of Biological Chemistry, Vol. 287, Issue 46 https://doi.org/10.1074/jbc.M112.402776	journal	September 2012
Fungal community dynamics in relation to substrate quality of decaying Norway spruce (Picea abies [L.] Karst.) logs in boreal forests Rajala, Tiina; Peltoniemi, Mikko; Pennanen, Taina FEMS Microbiology Ecology, Vol. 81, Issue 2 https://doi.org/10.1111/j.1574-6941.2012.01376.x	journal	April 2012
Cytochrome P450 of wood-rotting basidiomycetes and biotechnological applications: Cytochrome P450s of Basidiomycetes Ichinose, Hirofumi Biotechnology and Applied Biochemistry, Vol. 60, Issue 1 https://doi.org/10.1002/bab.1061	journal	January 2013
ggtree : an r package for visualization and annotation of phylogenetic trees with their covariates and other associated data Yu, Guangchuang; Smith, David K.; Zhu, Huachen Methods in Ecology and Evolution, Vol. 8, Issue 1 https://doi.org/10.1111/2041-210X.12628	journal	September 2016
Genome, transcriptome, and secretome analysis of wood decay fungus Postia placenta supports unique mechanisms of lignocellulose conversion Martinez, Diego; Challacombe, Jean; Morgenstern, Ingo Proceedings of the National Academy of Sciences, Vol. 106, Issue 6 https://doi.org/10.1073/pnas.0809575106	journal	February 2009
Integrative visual omics of the white-rot fungus Polyporus brumalis exposes the biotechnological potential of its oxidative enzymes for delignifying raw plant biomass Miyauchi, Shingo; Rancon, Anaïs; Drula, Elodie Biotechnology for Biofuels, Vol. 11, Issue 1 https://doi.org/10.1186/s13068-018-1198-5	journal	July 2018
Lignin-degrading Peroxidases from Genome of Selective Ligninolytic Fungus Ceriporiopsis subvermispora Fernández-Fueyo, Elena; Ruiz-Dueñas, Francisco J.; Miki, Yuta Journal of Biological Chemistry, Vol. 287, Issue 20 https://doi.org/10.1074/jbc.M112.356378	journal	March 2012
MycoCosm portal: gearing up for 1000 fungal genomes Grigoriev, Igor V.; Nikitin, Roman; Haridas, Sajeet Nucleic Acids Research, Vol. 42, Issue D1 https://doi.org/10.1093/nar/gkt1183	journal	December 2013
The genome of the white-rot fungus Pycnoporus cinnabarinus: a basidiomycete model with a versatile arsenal for lignocellulosic biomass breakdown Levasseur, Anthony; Lomascolo, Anne; Chabrol, Olivier BMC Genomics, Vol. 15, Issue 1 https://doi.org/10.1186/1471-2164-15-486	journal	January 2014
Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi Riley, Robert; Salamov, Asaf A.; Brown, Daren W. Proceedings of the National Academy of Sciences, Vol. 111, Issue 27 https://doi.org/10.1073/pnas.1400592111	journal	June 2014
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 Love, Michael I.; Huber, Wolfgang; Anders, Simon Genome Biology, Vol. 15, Issue 12 https://doi.org/10.1186/s13059-014-0550-8	journal	December 2014
Fungal secretomics to probe the biological functions of lytic polysaccharide monooxygenases Berrin, Jean-Guy; Rosso, Marie-Noëlle; Abou Hachem, Maher Carbohydrate Research, Vol. 448 https://doi.org/10.1016/j.carres.2017.05.010	journal	August 2017

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