Running Title: Cross-species multi-omics and conserved gene regulations
| Autor: | 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, Molecular Microbiology, Sub Molecular Plant Physiology, Sub Molecular Microbiology, Molecular Plant Physiology |
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| Přispěvatelé: | Department of Microbiology, Department of Food and Nutrition, Fungal Genetics and Biotechnology, Helsinki Institute of Sustainability Science (HELSUS), Westerdijk Fungal Biodiversity Institute - Fungal Physiology, Westerdijk Fungal Biodiversity Institute, Biodiversité et Biotechnologie Fongiques (BBF), Aix Marseille Université (AMU)-École Centrale de Marseille (ECM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Interactions Arbres-Microorganismes (IAM), Université de Lorraine (UL)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Imagine - Institut des maladies génétiques (IHU) (Imagine - U1163), Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Paris Cité (UPCité), Microbes évolution phylogénie et infections (MEPHI), Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS), Institut Hospitalier Universitaire Méditerranée Infection (IHU Marseille), U.S. Department of Energy [Washington] (DOE), MICrobiologie de l'ALImentation au Service de la Santé (MICALIS), AgroParisTech-Université Paris-Saclay-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Unité de Mathématiques et Informatique Appliquées de Toulouse (MIAT INRAE), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), USDA Forest Service Rocky Mountain Forest and Range Experiment Station, United States Department of Agriculture (USDA), Westerdijk Fungal Biodiversity Institute [Utrecht] (WI), Royal Netherlands Academy of Arts and Sciences (KNAW), Helsingin yliopisto = Helsingfors universitet = University of Helsinki, Missouri Southern State University (MSSU), Architecture et fonction des macromolécules biologiques (AFMB), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Department of Molecular Cell Biology [Göttingen], Max Planck Institute for Biophysical Chemistry (MPI-BPC), Max-Planck-Gesellschaft-Max-Planck-Gesellschaft, Department of Energy / Joint Genome Institute (DOE), Los Alamos National Laboratory (LANL), Centro de Investigaciones Biológicas (CSIC), Consejo Superior de Investigaciones Científicas [Madrid] (CSIC), DOE Joint Genome Institute [Walnut Creek], Department of Molecular Microbiology and Biotechnology, Tel Aviv University (TAU), Utrecht University [Utrecht], Department of Plant Pathology & Microbiology [Riverside], University of California [Riverside] (UC Riverside), University of California (UC)-University of California (UC), Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231Ministerio de Ciencias, Innovación y Universidades de España (BIO2017-86559-R), ANR-14-CE06-0020,FUNTUNE,Cocktails enzymatiques inspirés de modèles fongiques pour la déconstruction contrôlée de la biomasse végétale(2014), Molecular Microbiology, Sub Molecular Plant Physiology, Sub Molecular Microbiology, Molecular Plant Physiology, Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Paris (UP), Unité de Mathématiques et Informatique Appliquées de Toulouse (MIAT INRA), Westerdijk Fungal Biodiversity Insitute [Utrecht] (WI), University of Helsinki, Tel Aviv University [Tel Aviv], University of California [Riverside] (UCR), University of California-University of California, COMBE, Isabelle, Appel à projets générique - Cocktails enzymatiques inspirés de modèles fongiques pour la déconstruction contrôlée de la biomasse végétale - - FUNTUNE2014 - ANR-14-CE06-0020 - Appel à projets générique - VALID, Agence Nationale de la Recherche (France), Department of Energy (US), Ministerio de Ciencia, Innovación y Universidades (España), Miyauchi, Shingo [0000-0002-0620-5547], Hage, Hayat [0000-0003-4118-1816], Drula, Elodie [0000-0002-9168-5214], Lesage-Meessen, Laurence [0000-0003-2275-2978], Berrin, Jean-Guy [0000-0001-7570-3745], Navarro, David [0000-0002-3266-8270], Favel, Anne [0000-0003-2255-3637], Haon, Mireille [0000-0002-5669-5177], Levasseur, Anthony [0000-0003-2989-7539], Lomascolo, Anne [0000-0003-3829-8503], Ahrendt, Steven [0000-0002-3029-2126], LaButti, Kurt M. [0000-0002-5838-1972], Chevret, Didier [0000-0001-9531-7657], Daum, Chris [0000-0003-3895-5892], Klopp, Christophe [0000-0001-7126-5477], Vries, Ronald P. de [0000-0002-4363-1123], Hainaut, Matthieu [0000-0002-7567-657X], Henrissat, Bernard [0000-0002-3434-8588], Hildén, Kristiina S. [0000-0002-0126-8186], Kües, Ursula [0000-0001-9180-4079], Lipzen, Anna [0000-0003-2293-9329], Mäkelä, Miia [0000-0003-0771-2329], Martínez, Ángel T. [0000-0002-1584-2863], Morel-Rouhier, Mélanie [0000-0001-5149-0474], Morin, Emmanuelle [0000-0002-7268-972X], Ram, Arthur [0000-0002-2487-8016], Wösten, Han [0000-0002-0399-3648], Ruiz-Dueñas, F. J. [0000-0002-9837-5665], Record, Éric [0000-0002-7545-9997], Grigoriev, Igor V. [0000-0002-3136-8903], Rosso, Marie-Noëlle [0000-0001-8317-7220], Miyauchi, Shingo, Hage, Hayat, Drula, Elodie, Lesage-Meessen, Laurence, Berrin, Jean-Guy, Navarro, David, Favel, Anne, Haon, Mireille, Levasseur, Anthony, Lomascolo, Anne, Ahrendt, Steven, LaButti, Kurt M., Chevret, Didier, Daum, Chris, Klopp, Christophe, Vries, Ronald P. de, Hainaut, Matthieu, Henrissat, Bernard, Hildén, Kristiina S., Kües, Ursula, Lipzen, Anna, Mäkelä, Miia, Martínez, Ángel T., Morel-Rouhier, Mélanie, Morin, Emmanuelle, Ram, Arthur, Wösten, Han, Ruiz-Dueñas, F. J., Record, Éric, Grigoriev, Igor V., Rosso, Marie-Noëlle |
| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
AcademicSubjects/SCI01140
SELECTION Cellobiose Lignin ANNOTATION chemistry.chemical_compound lignocellulose [SDV.MHEP.MI]Life Sciences [q-bio]/Human health and pathology/Infectious diseases Phylogeny [SDV.MP.VIR] Life Sciences [q-bio]/Microbiology and Parasitology/Virology [SDV.MHEP.ME] Life Sciences [q-bio]/Human health and pathology/Emerging diseases 11832 Microbiology and virology 0303 health sciences [SDV.MHEP.ME]Life Sciences [q-bio]/Human health and pathology/Emerging diseases Genome Full Paper Basidiomycota General Medicine PHANEROCHAETE-CHRYSOSPORIUM Wood Pycnoporus [SDV.MHEP.CSC] Life Sciences [q-bio]/Human health and pathology/Cardiology and cardiovascular system GENOME Fungal Biochemistry CAZyme [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology [SDV.MHEP.MI] Life Sciences [q-bio]/Human health and pathology/Infectious diseases lytic polysaccharide monooxygenase Genome Fungal ENZYMES CAZymes [SDV.MP.PAR] Life Sciences [q-bio]/Microbiology and Parasitology/Parasitology Biotechnology DATABASE 1.1 Normal biological development and functioning Plant Biology & Botany AcademicSubjects/MED00774 Biology CLASSIFICATION Fungal Proteins CERIPORIOPSIS-SUBVERMISPORA 03 medical and health sciences [SDV.MHEP.CSC]Life Sciences [q-bio]/Human health and pathology/Cardiology and cardiovascular system Underpinning research Oxidative enzyme Genetics [SDV.MP.PAR]Life Sciences [q-bio]/Microbiology and Parasitology/Parasitology Cellulose Molecular Biology Gene 030304 developmental biology Lytic Polysaccharide Monooxygenase (LPMO) Comparative genomics Lytic Polysaccharide Monooxygenase 030306 microbiology 15. Life on land DEGRADATION biology.organism_classification [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology chemistry Class II Peroxidase wood decay Carbohydrate Dehydrogenases SECRETOME [SDV.MP.BAC] Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology |
| Zdroj: | DNA Research, 27(2), 1. Oxford University Press DNA RESEARCH, 27(2) DNA Research DNA Research, 2020, ⟨10.1093/dnares/dsaa011⟩ DNA Research, Oxford University Press (OUP), 2020, ⟨10.1093/dnares/dsaa011⟩ DNA Research, 27(2), dsaa011 DNA Research: An International Journal for Rapid Publication of Reports on Genes and Genomes DNA research : an international journal for rapid publication of reports on genes and genomes, vol 27, iss 2 Digital.CSIC. Repositorio Institucional del CSIC instname |
| ISSN: | 1340-2838 |
| Popis: | 14 p.-8 fig.-1 tab. 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 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 analyzed 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 LPMO gene, indicative of enzymatic synergy in vivo. This study highlights a conserved core white-rot fungal enzymatic mechanism behind the wood decaying process. This work was supported by The French National Agency for Research (ANR-14-CE06-0020). The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231. The work by CSIC was supported by the Ministerio de Ciencias, Innovación y Universidades de España (BIO2017-86559-R). |
| Databáze: | OpenAIRE |
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