Viral metagenomic and fungal ITS metabarcoding data from complex pools of plant samples from southwestern France and for pools of fungal cultures obtained from these plant pools

Using cross-disciplinary approaches to characterize the plant core microbiome, we assessed the diversity and composition of leaf-associated fungal and viral communities from composite samples of wild herbaceous plants in different ecological contexts. In total, 32 libraries were prepared from purified dsRNAs for virome analysis which were sequenced on an Illumina HiSeq 3000 system at the GenoToul platform (INRA Toulouse, France). In addition, 96 barcode libraries were prepared for ITS1 and ITS2 amplicons and sequenced on an Illumina MiSeq sequencer at the Bordeaux Genome Transcriptome Facility (INRA – Pierroton, France).