WGS of rhizobacteria
We used 50ng of the DNA sample to prepare the library with the Nextera DNA sample preparation kit (Illumina). The sample was fragmented with an ultrasonication approach (Covaris). The resulting DNA fragments were size selected (300 to 800bp) with AMPure XP beads. The fragments were then end repaired, and Illumina-specific adapter sequences were ligated to each fragment. The sample was indexed, and a second size selection step was performed. The sample was then quantified with a fluorometric method, diluted to a standard concentration (4nM), and then sequenced on Illuminas Nextseq 550 kit as described in the kit protocol.