Whole-genome sequencing of Escherichia coli
The whole genome sequencing library was prepared using QIAseq FX DNA Library Kit for Illumina (Catalog:180479, QIAGEN). In brief, 150ng of intact DNA was enzymatically fragmented by targeting 250bp to 450bpfragments size using a fragmentation reagent. The fragmented DNA is directly end repaired and an A isadded to the 3 ends during the FX reaction, making the DNA fragments ready for adapter ligation. Followingthis step, platform-specific adapters are ligated to both ends of the DNA fragments. These adapters containsequences essential for binding dual-barcoded libraries to a flow cell for sequencing.Furthermore, the DNA was amplified by 4 cycles of PCR with the addition of HiFi PCR master mix and Primermix. The amplified products were then purified using 1 X AMPure XP beads (Catalog: A63881, BeckmanCoulter) and the final DNA library was eluted in 15l of 0.1X TE buffer.