Expression atlas and comparative coexpression network analyses reveal important genes involved in the formation of lignified cell wall in Brachypodium distachyon
Autor: | Sebastian Proost, Staffan Persson, David Roujol, Philippe Le Bris, Laurent Cézart, Richard Sibout, Asher Pasha, Herman Höfte, Frédéric Legée, Federico M. Giorgi, Catherine Lapierre, Bjoern Oest Hansen, Neha Vaid, Oumaya Bouchabke-Coussa, Marek Mutwil, Camille Soulhat, Elisabeth Jamet, Séverine Ho-Yue-Kuang, Nicholas J. Provart |
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Přispěvatelé: | Institut Jean-Pierre Bourgin (IJPB), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Université Paris-Saclay, Max Planck Institute of Molecular Plant Physiology (MPI-MP), Max-Planck-Gesellschaft, Centre for Cancer Genetic Epidemiology [Cambridge], Department of Oncology-University of Cambridge [UK] (CAM), University of Toronto, Laboratoire de Recherche en Sciences Végétales (LRSV), Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, University of Melbourne, University of Cambridge [UK] (CAM)-Department of Oncology, Dynamique et Evolution des Parois cellulaires végétales, Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), Sibout, Richard, Proost, Sebastian, Hansen, Bjoern Oest, Vaid, Neha, Giorgi, Federico M., Ho-Yue-Kuang, Severine, Legée, Frédéric, Cézart, Laurent, Bouchabké-Coussa, Oumaya, Soulhat, Camille, Provart, Nichola, Pasha, Asher, Le Bris, Philippe, Roujol, David, Hofte, Herman, Jamet, Elisabeth, Lapierre, Catherine, Persson, Staffan, Mutwil, Marek |
Jazyk: | angličtina |
Rok vydání: | 2017 |
Předmět: |
0106 biological sciences
0301 basic medicine Physiology [SDV]Life Sciences [q-bio] Arabidopsis Gene regulatory network functional module lignin Plant Science Computational biology Genes Plant 01 natural sciences Genome Plant Stem Transcriptome 03 medical and health sciences Cell Wall Gene Expression Regulation Plant comparative coexpression Databases Genetic Botany Gene Regulatory Networks Gene 2. Zero hunger Regulation of gene expression Brachypodium distachyon Gene Regulatory Network Plant Stems biology coexpression food and beverages Oryza 15. Life on land Plants Genetically Modified biology.organism_classification 030104 developmental biology gene function expression atla Brachypodium expression atlas Arabidopsi functional modules 010606 plant biology & botany |
Zdroj: | New Phytologist New Phytologist, Wiley, 2017, 215 (3), pp.1009-1025. ⟨10.1111/nph.14635⟩ |
ISSN: | 0028-646X 1469-8137 |
Popis: | While Brachypodium distachyon (Brachypodium) is an emerging model for grasses, no expression atlas or gene coexpression network is available. Such tools are of high importance to provide insights into the function of Brachypodium genes. We present a detailed Brachypodium expression atlas, capturing gene expression in its major organs at different developmental stages. The data were integrated into a large-scale coexpression database ( www.gene2function.de), enabling identification of duplicated pathways and conserved processes across 10 plant species, thus allowing genome-wide inference of gene function. We highlight the importance of the atlas and the platform through the identification of duplicated cell wall modules, and show that a lignin biosynthesis module is conserved across angiosperms. We identified and functionally characterised a putative ferulate 5-hydroxylase gene through overexpression of it in Brachypodium, which resulted in an increase in lignin syringyl units and reduced lignin content of mature stems, and led to improved saccharification of the stem biomass. Our Brachypodium expression atlas thus provides a powerful resource to reveal functionally related genes, which may advance our understanding of important biological processes in grasses. |
Databáze: | OpenAIRE |
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