title: ONT DNA-seq of E.coli strain BW25113 pBREX AL: BrxX WT
design: Genomic DNA of BW25113 carrying pBREX AL was purified from 2ml of overnight cultures grown in LB at 37C with Monarch Genomic DNA Purification Kit (NEB). Total DNA libraries were prepared from DNA treated with XbaI (Thermo Sicentific) using the Native Barcoding Kit 24 V14 (SQK-NBD114-24) with enrichment of long fragments using the Long Fragment Buffer (LFB) according to the manufacturers instructions. DNA library was sequenced using R10.4.1 flow cell (FLO-MIN114) on the MinION device with MinKNOW v23.11.2. The basecalling was performed with Dorado v.0.53 using the following models: a main basecalling model dna_r10.4.1_e8.2_400bps_sup@v4.3.0 and the modified basecalling model dna_r10.4.1_e8.2_400bps_sup@v4.3.0_6mA@v2 (for N6-methyladenosine (6mA) modifications) from Rerio v. 5.0.11 basecalling models set. Basecalled .bam reads was converted into fastq with SAMtools fastq v.1.2.0 (methylation metadata in a header of fastq record). Fastq is suitable for analysis with MicrobeMod v.1.0.3.
identifiers.namespace: SUB15013352
identifiers.id: WT