Whole genome sequencing of Escherichia coli: third-generation cephalosporin-resistant isolate from captive llama (Ec1, Tunisia)
Genomic DNA was extracted from overnight cultures of third-generation cephalosporin-resistant Escherichia coli isolates using the DNeasy Blood & Tissue Kit (Qiagen) according to the manufacturers instructions. DNA purity was checked by NanoDrop spectrophotometry and concentrations were determined with a Qubit dsDNA assay. Sequencing libraries were prepared with the Illumina DNA Prep kit (tagmentation-based workflow) without any target enrichment, and dual-indexed paired-end libraries were generated. Pooled libraries were sequenced on an Illumina iSeq 100 platform yielding 2150 bp reads.