title: patient sample ST410 30
design: DNA extraction from the E. coli isolates was carried out using the QIAsymphony SP instrument (QIAGEN, USA) with the DSP DNA Mini Kit, following the pre-treatment protocol for gram-negative bacteria. Library preparation was performed using the Illumina DNA Prep Kit (Illumina, USA), and sequencing was conducted on the AVITI System (Element Biosciences, USA) to generate 300 base pairs paired-end reads. To meet the exclusion criterion, DNA concentration was measured using the Qubit 1X dsDNA BR Assay Kit (ThermoFisher Scientific) at the Laboratory Medicine of UZ Leuven. DNA quantification (Qubit Flex), fragment analysis (Agilent Fragment Analyzer), pooling of all libraries, and sequencing on the AVITI platform was performed at the core sequencing facility of Nucleomics Core (VIB KU Leuven, Leuven, Belgium).