Oomycete-Plant Metagenome. uncultured prokaryote strain:Phytophothora parasitica (149) and Solanum lycopersicum (cv. Marmande)

The goal of the analyses was to investigate the structure of the bacterial rhizospheric microbiota able to colonize the tomato root-P. parasitica pathosystem. 16S rRNA gene sequencing was used to describe the composition of the rhizospheric sub-microbiota of Solanum lycopersicum able to colonize tomato roots either axenic or partly covered with P. parasitica biofilms. Sampling was performed the 31st of May 2014, on soil supporting tomato growth (Solanum lycopersicum cv. Marmande). The experimental site was an E-W-oriented greenhouse located at the INRA Pathologie Végétale research unit in Montfavet (43.9 N 4.8 E). Thirty rhizospheric samples were grouped by 10 into three biological replicates (R1, R2, R3) on the basis of the distribution of the three samples from each area in distinct replicates. Biosamples results from the incubation and then the adhesion of microbial suspensions from R1, R2 and R3 at the root surface of tomato seedlings. M1R1, M1R2 and M1R3 correspond to the sub-microbiota adhering to axenic roots. M2R1, M2R2 and M2R3 correspond to the sub-microbiota adhering to roots partly covered with P. parasitica biofilms. An amplicon library was constructed (V3-V5 primers) for the six biosamples and sequenced using Illumina MiSeq technology. Sequence data are cleaned according to the FastQC quality parameters.