WGS, Clostridioides difficile and Clostridium perfringens
Libraries were prepared using the Native Barcoding Kit 24 V14 (SQK-NBD114.24, Oxford Nanopore Technologies [ONT], Oxford, UK). Libraries were loaded onto R10 flow cells (FLO-MIN114, ONT), and sequencing was performed on a MinION Mk1B (ONT) device for 72 h. Data acquisition was carried out using MinKNOW software (v25.09.16), and basecalling was performed in real time using Dorado (v7.11.2) with the Super-accurate basecalling 400 bps.