A Targeted Sequencing Assay for Serotyping Escherichia coli Using AgriSeq Technology.

ABSTRACT: The gold standard method for serotyping Escherichia coli has relied on antisera-based typing of the O- and H-antigens, which is labor intensive and often unreliable. In the post-genomic era, sequence-based assays are potentially faster to provide results, could combine O-serogrouping and H-typing in a single test, and could simultaneously screen for the presence of other genetic markers of interest such as virulence factors. Whole genome sequencing is one approach; however, this method has limited multiplexing capabilities, and only a small fraction of the sequence is informative for subtyping or identifying virulence potential. A targeted, sequence-based assay and accompanying software for data analysis would be a great improvement over the currently available methods for serotypin

SUBMITTER: Elder JR 

PROVIDER: S-EPMC7844058 | biostudies-literature | 2020

REPOSITORIES: biostudies-literature