Contributors: Agroécologie Dijon; Université de Bourgogne (UB)-Université Bourgogne Franche-Comté COMUE (UBFC)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Dijon; Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro); Santé et agroécologie du vignoble (UMR SAVE); 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)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE); Biodiversité, Gènes & Communautés (BioGeCo); Université de Bordeaux (UB)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE); Université de Bordeaux (UB); This work was supported by the Consortium Biocontrôle within the ‘BCMicrobiome’ projectThe Genome Transcriptome Facility of Bordeaux (PGTB) received grants from Investissements d’avenir and convention attributive d’aide EquipEx Xyloforest(ANR-10-EQPX-16-01); ANR-20-PCPA-0010,VITAE,Cultivating the grapevine without pesticides : towards agroecological wine-producing socio-ecosystems(2020); ANR-17-CE32-0011,NGB,Biosurveillance Next-Gen des changements dans la structure et le fonctionnement des écosystèmes(2017); ANR-10-LABX-0045,COTE,COntinental To coastal Ecosystems: evolution, adaptability and governance(2010)
نبذة مختصرة : International audience ; Grapevine downy mildew (Plasmopara viticola) is a major disease of European cultivatedgrapevine (Vitis vinifera L.) against which a large amount of synthetic pesticides are used. Developing microbial biocontrol of P. viticola could reduce the use of pesticides in viticulture and preserve human and environmental health. To achieve this goal, the ecological interactions that develop during infection between P. viticola and the vine foliar microbiome need to be explored. Here, we present metabarcoding datasets describing the bacterial and fungal communities of pairs of symptomatic and asymptomatic leaf samples collected during downy mildew epidemics in three major wine-producing regions of France. Fungal and bacterial communities were sequenced on a MiSeq Illumina platform, and the abundance of the oomycete P. viticola was quantified using qPCR. We provide the raw metabarcoding datasets, the amplicon sequence variant tables obtained after bioinformatic processing, the metadatadescribing sampling sites and tissue health conditions, and the code used for bioinformatic analysis. These datasets will enable microbiome comparison within pairs of symptomatic and asymptomatic samples collected at the same time on the same leaf. Such a comparison could help describe the ecological interactions between P. viticola and the grapevine foliar microbiome.
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