Whole genome sequencing of bacterial isolates
Genomic DNA was extracted from fresh colony growth using DSP QIAamp DNA mini kits (Qiagen, Australia) on the QiaSymphony SP and quantified by fluorometry (Quant-iT dsDNA Assay High Sensitivity Kit; Life Technologies). Extracted DNA of a concentration greater than 1ng/L was acceptable for further processing. Paired-end DNA libraries were prepared using Nextera XT library prep kits (Illumina; Australia) and WGS was preformed using the Illumina NextSeq 500 (150 bp paired-end).