Genomic Surveillance Enables Suitability Assessment of <i>Salmonella</i> Gene Targets Used for Culture-Independent Diagnostic Testing
Rebecca J. Rockett, Alicia Arnott, Qinning Wang, Peter Howard, Vitali Sintchenko
Abstract
Salmonella is a highly diverse genus consisting of over 2,600 serovars responsible for high-burden food- and waterborne gastroenteritis worldwide. Sensitivity and specificity of PCR-based culture-independent diagnostic testing (CIDT) systems for Salmonella , which depend on a highly conserved gene target, can be affected by single nucleotide polymorphisms (SNPs), indels, and genomic rearrangements within primer and probe sequences. This report demonstrates the value of prospectively collected genomic data for verifying CIDT targets.
Topics & Concepts
SalmonellaIndelBiologyGeneticsPrimer (cosmetics)SerotypeGenePolymerase chain reactionSingle-nucleotide polymorphismComputational biologygenomic DNAVirologyGenotypeBacteriaOrganic chemistryChemistrySalmonella and Campylobacter epidemiologyViral gastroenteritis research and epidemiologyBacteriophages and microbial interactions