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Mining belowground and aboveground microbiome data to identify microbial biomarkers of grapevine health and yield

hal.structure.identifierSanté et agroécologie du vignoble [UMR SAVE]
dc.contributor.authorVACHER, Corinne
hal.structure.identifierSanté et agroécologie du vignoble [UMR SAVE]
dc.contributor.authorFOURNIER, Paola
hal.structure.identifierSanté et agroécologie du vignoble [UMR SAVE]
hal.structure.identifierEcophysiologie et Génomique Fonctionnelle de la Vigne [UMR EGFV]
dc.contributor.authorPELLAN, Lucile
hal.structure.identifierSanté et agroécologie du vignoble [UMR SAVE]
dc.contributor.authorJASWA, Aarti
hal.structure.identifierUtah State University [USU]
dc.contributor.authorMARTIN, Valérie
hal.structure.identifierUniversity of Birmingham [Birmingham]
dc.contributor.authorCAMBON, Marine
hal.structure.identifierSanté et agroécologie du vignoble [UMR SAVE]
dc.contributor.authorCHARGY, Manon
hal.structure.identifierSanté et agroécologie du vignoble [UMR SAVE]
dc.contributor.authorDUFOUR, Marie-Cecile
hal.structure.identifierSanté et agroécologie du vignoble [UMR SAVE]
dc.contributor.authorVALLANCE, Jessica
hal.structure.identifierUnité de Recherche Œnologie [Villenave d'Ornon] [OENO]
dc.contributor.authorMARTINS, Guilherme
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
dc.contributor.authorCHANCEREL, Emilie
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
dc.contributor.authorBONNARD, Olivier
hal.structure.identifierInstitut Français de la Vigne et du Vin [Siège] [IFV]
dc.contributor.authorRAYNAL, Marc
hal.structure.identifierInstitut Français de la Vigne et du Vin [Siège] [IFV]
dc.contributor.authorDEBORD, Christian
hal.structure.identifierSanté et agroécologie du vignoble [UMR SAVE]
dc.contributor.authorDELIERE, Laurent
hal.structure.identifierBiodiversité, Gènes & Communautés [BioGeCo]
hal.structure.identifierPleiade, from patterns to models in computational biodiversity and biotechnology [PLEIADE]
dc.contributor.authorLABARTHE, Simon
hal.structure.identifierLVMH Moët Hennessy Louis Vuitton
dc.contributor.authorBRÉVOT, Marc
hal.structure.identifierLVMH Moët Hennessy Louis Vuitton
dc.contributor.authorMERCIER, Laurence
hal.structure.identifierSanté et agroécologie du vignoble [UMR SAVE]
dc.contributor.authorDELMOTTE, François
hal.structure.identifierAmélioration génétique et adaptation des plantes méditerranéennes et tropicales [UMR AGAP]
dc.contributor.authorTHIS, Patrice
dc.date.conference2025-09-24
dc.description.abstractEnVineyards host a wide diversity of microorganisms that interact both with plants and among themselves. Some are pathogens, such as the oomycete Plasmopara viticola, which causes grapevine downy mildew (DM). Others contribute positively to vine health by protecting against pathogens, enhancing resistance to abiotic stress, and improving nutrient uptake. In recent years, beneficial plant-microbe and microbe-microbe interactions, as well as the conservation of microbial diversity, have attracted increasing attention as potential alternatives to fungicide and fertilizer use in viticulture, and as a means to improve vineyard resilience to multiple stresses, including those related to climate change. In this study, we aimed to (i) identify microbial candidates for the biocontrol of DM and (ii) identify microbial biomarkers associated with high and stable yields over time. We analyzed the microbiota in (i) leaves and topsoil from seven pairs of vineyard plots with contrasting susceptibility to DM, based on long-term epidemiological records from the Bordeaux region, and (ii) roots and soil from ten pairs of vineyard plots with contrasting yields, based on long-term yield data from the Champagne region. Using differential abundance analyses, the Random Forest algorithm, and Threshold Indicator Taxa Analysis (TITAN), we identified fungal and bacterial taxa that were significantly more abundant in plots with low DM susceptibility and in those with high and stable yields. Our results revealed that several basidiomycete yeast species were significantly more abundant in the grapevine phyllosphere of plots with low DM susceptibility, while taxa affiliated with arbuscular mycorrhizal fungi were significantly enriched in plots with high and stable yields. These findings highlight specific microbial taxa, living both above- and belowground, that act as biomarkers of grapevine health and yield. However, causal relationships between specific microbial taxa and vine performance remain to be demonstrated. To this end, I will present results from in vitro confrontation assays between basidiomycete yeast consortia and P. viticola, illustrating how mining microbiome data can guide the identification of microbial taxa beneficial to grapevine.
dc.description.sponsorshipCultivating the grapevine without pesticides : towards agroecological wine-producing socio-ecosystems - ANR-20-PCPA-0010
dc.language.isoen
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/
dc.subject.endowny mildew
dc.subject.enarbuscular mycorrhizal fungi
dc.subject.enphyllosphere
dc.subject.enroot
dc.subject.endisease management
dc.subject.ensustainable viticulture
dc.subject.engrape-associated microorganisms
dc.subject.enmicrobiota
dc.title.enMining belowground and aboveground microbiome data to identify microbial biomarkers of grapevine health and yield
dc.typeCommunication dans un congrès
dc.subject.halSciences de l'environnement/Biodiversité et Ecologie
dc.subject.halSciences du Vivant [q-bio]/Biologie végétale
dc.subject.halSciences du Vivant [q-bio]/Biologie végétale/Phytopathologie et phytopharmacie
dc.subject.halSciences du Vivant [q-bio]/Ecologie, Environnement
dc.subject.halSciences du Vivant [q-bio]/Ecologie, Environnement/Interactions entre organismes
dc.subject.halSciences du Vivant [q-bio]/Ecologie, Environnement/Santé
dc.subject.halSciences du Vivant [q-bio]/Microbiologie et Parasitologie/Mycologie
dc.subject.halSciences du Vivant [q-bio]/Sciences agricoles
bordeaux.conference.title20. Congrès national de la SFM : Microbes dans un monde de transition (MICROBES 2025)
bordeaux.countryFR
bordeaux.conference.cityBordeaux
bordeaux.peerReviewedoui
hal.identifierhal-05300289
hal.version1
hal.invitedoui
hal.proceedingsnon
hal.conference.organizerSociété Française de Microbiologie (SFM)
hal.conference.end2025-09-26
hal.popularnon
hal.audienceNationale
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-05300289v1
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.au=VACHER,%20Corinne&FOURNIER,%20Paola&PELLAN,%20Lucile&JASWA,%20Aarti&MARTIN,%20Val%C3%A9rie&rft.genre=unknown


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