Whole-genome sequencing of antibiotic-resistant bacteria collected at the Argenton hatchery, as part of the SpareSea project.
Bacteria were collected on TCBS at 20  C from oyster and water samples, then sequenced in Whole-Genome. The strains carrying a plasmid were sequenced either by Nanopore (Oxford Nanopore Technology, have, Eurofins, 2 strains), or by Illumina (25 strains).The assembly of long-feed data of the two genomes was carried out by Eurofins using the Bacterial Genome Sequencing Pipeline Pipeline V1.0 pipeline.Regarding the genomes sequenced by Illumina, the sequencing was carried out on the Perpignan platform in 2x150.Trimming and assembly were made with spades.