MinION whole genome sequencing of STEC from ruminants
Preparation of genomic DNA library was performed according to the manufacturer's recommendation using 1-2 g of input DNA with a ligation sequencing kit (SQK-LSK-109) and a native barcoding expansion kit (EXP-NBD-104 and EXP-NBD-114). Libraries were loaded onto a R9.4.1 flow cell (Oxford Nanopore Technologies) and sequenced using the MinION Mk1B (Oxford Nanopore Technologies) for 48h. Basecalling and demultiplexing was performed with guppy basecaller and guppy barcoder.