Serovar-level identification of bacterial foodborne pathogens from full-length 16S rRNA gene sequencing.

ABSTRACT: The resolution of variation within species is critical for interpreting and acting on many microbial measurements. In the key foodborne pathogens Salmonella and Escherichia coli, the primary subspecies classification scheme used is serotyping: differentiating variants within these species by surface antigen profiles. Serotype prediction from whole-genome sequencing (WGS) of isolates is now seen as comparable or preferable to traditional laboratory methods where WGS is available. However, laboratory and WGS methods depend on an isolation step that is time-consuming and incompletely represents the sample when multiple strains are present. Community sequencing approaches that skip the isolation step are, therefore, of interest for pathogen surveillance. Here, we evaluated the vi

SUBMITTER: Grinevich D 

PROVIDER: S-EPMC10949465 | biostudies-literature | 2024 Mar

REPOSITORIES: biostudies-literature