WGS Environment
Isolates were subjected to genotypic analysis by next-generation sequencing using the following protocol: Briefly, DNA extraction was conducted using QIAamp DNA minikit (Qiagen, Germany). Library preparation was performed and sequencing was carried out using HiSeq2500 sequencer (Illumina, United States), with 250-bp paired-end read-length. The raw reads were assembled using SPAdes version 3.11.0, with -careful, -k auto and cov-cutoff as off parameters (Bankevich et al., 2012). The genome data were analysed with reference to ResFinder 3.1 database to identify chromosomal or acquired antimicrobial genes and point mutations based on the following parameters: minimum length coverage of 60% and minimum identity of 90% (Centre for Genomic Epidemiology, Denmark)