This international standard specifies minimum requirements for generating and analyzing whole-genome sequence (WGS) data obtained from foodborne bacteria. These requirements are applicable to any sequencing platform or chemistry. This process may include the following stages:
• Handling of bacterial cultures;
• Genomic DNA isolation;
• Sequencing library preparation, sequencing, and assessment of raw DNA sequence read quality and storage;
• Bioinformatic analysis, including methods such as high quality single nucleotide polymorphism (hqSNP)
analysis, core genome and whole genome multi-locus genotyping (cgMLST, wgMLST), and bioinformatic pipeline validation; and
• Metadata capture and sequence repository deposition.