Linhdavanh Couvelard, Christophe Bruel, Elise Loisel, Mathias Choquer, Jean Roudet, Benoît Poinssot, Guillaume Morgant, Jean-Marc Pradier, Agnès Cimerman, Victor Flors, Sophie Trouvelot, Christine Rascle, Adeline Simon, Sylvain Baulande, Alberto Ferrarini, Pascal Le Pêcheur, Bérengère Dalmais, Marc Fermaud, Lucie Trdá, Muriel Viaud, Nathalie Poussereau, Patrick Frettinger, Mathilde Duthieuw, Jani Kelloniemi, Marie-Claire Héloir, Unité Mixte de Recherche en Santé Végétale (INRA/ENITA) (UMRSV), Institut National de la Recherche Agronomique (INRA)-École Nationale d'Ingénieurs des Travaux Agricoles - Bordeaux (ENITAB)-Institut des Sciences de la Vigne et du Vin (ISVV), Génomique fonctionnelle des champignons pathogènes des plantes (FungiPath), Microbiologie, adaptation et pathogénie (MAP), Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut National des Sciences Appliquées de Lyon (INSA Lyon), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Centre National de la Recherche Scientifique (CNRS), Istituto di Enologia e Ingegneria agro-alimentare, Università Cattolica del Sacro Cuore, Via E. Parmense 84, 29100 Piacenza, inconnu, Inconnu, LVMH Recherche, LVMH Moët Hennessy Louis Vuitton, Unité Mixte de Recherche en Santé Végétale (INRA/ENITA) (UMR SAVE), Natural Resources Institute Finland (LUKE), Agroécologie [Dijon], Institut National de la Recherche Agronomique (INRA)-Université de Bourgogne (UB)-AgroSup Dijon - Institut National Supérieur des Sciences Agronomiques, de l'Alimentation et de l'Environnement, BIOlogie et GEstion des Risques en agriculture (BIOGER), Institut National de la Recherche Agronomique (INRA)-AgroParisTech, Santé et agroécologie du vignoble (UMR SAVE), Institut National de la Recherche Agronomique (INRA)-Université de Bordeaux (UB)-Institut des Sciences de la Vigne et du Vin (ISVV)-Ecole Nationale Supérieure des Sciences Agronomiques de Bordeaux-Aquitaine (Bordeaux Sciences Agro), Génopole, Université de Lyon (COMUE), Nautilus Biotech, Partenaires INRAE, University of Verona (UNIVR), and Universitat Jaume I
Mature grapevine berries at the harvesting stage (MB) are very susceptible to the gray mold fungus Botrytis cinerea, while veraison berries (VB) are not. We conducted simultaneous microscopic and transcriptomic analyses of the pathogen and the host to investigate the infection process developed by B. cinerea on MB versus VB, and the plant defense mechanisms deployed to stop the fungus spreading. On the pathogen side, our genome-wide transcriptomic data revealed that B. cinerea genes upregulated during infection of MB are enriched in functional categories related to necrotrophy, such as degradation of the plant cell wall, proteolysis, membrane transport, reactive oxygen species (ROS) generation, and detoxification. Quantitative-polymerase chain reaction on a set of representative genes related to virulence and microscopic observations further demonstrated that the infection is also initiated on VB but is stopped at the penetration stage. On the plant side, genome-wide transcriptomic analysis and metabolic data revealed a defense pathway switch during berry ripening. In response to B. cinerea inoculation, VB activated a burst of ROS, the salicylate-dependent defense pathway, the synthesis of the resveratrol phytoalexin, and cell-wall strengthening. On the contrary, in infected MB, the jasmonate-dependent pathway was activated, which did not stop the fungal necrotrophic process.