Bacterial whole-genome sequencing
The bacterial genomic DNA was isolated using the DNeasy UltraClean Microbial Kit (Qiagen #12224-250) following the manufacturers instructions. Sequencing libraries were prepared using the Illumina Nextera XT library preparation kit (Illumina #FC-131-1024) and barcoded using the Nextera XT Index Kit V2 (Illumina #FC-131-2001).