EF49
Genomic DNA was extracted from Enterococcus faecalis isolates using a standardized DNA extraction protocol. The quality and quantity of the extracted DNA were assessed using a Qubit fluorometer. Sequencing libraries were prepared using the Nextera XT DNA Library Prep Kit (Illumina, USA) following the manufacturer's instructions. In brief, genomic DNA was enzymatically fragmented and tagged with adapter sequences. The tagged DNA fragments were then amplified by limited-cycle PCR to add unique dual indices and Illumina sequencing adapters.The prepared libraries were quantified, pooled equimolarly, and assessed for quality using an Agilent 2100 Bioanalyzer. The pooled libraries were sequenced on an Illumina MiSeq platform using paired-end sequencing with a read length of 2  150 bp. The sequencing run generated high-quality paired-end reads, which were utilized for downstream analyses.