Optimization and Validation of Candida auris Short Tandem Repeat Analysis
Theun de Groot, Bram Spruijtenburg, Lindsay Parnell, Nancy A. Chow, Jacques F. Meis
Abstract
The emerging fungal pathogen Candida auris poses a threat to public health, mainly causing outbreaks in intensive care units. Genotyping is essential for investigating potential outbreaks and preventing further spread. Previously, we developed a STR genotyping scheme for rapid and high-resolution genotyping, and WGS SNP outcomes for some isolates were compared to STR data. Here, we compared WGS SNP and STR outcomes for a larger sample cohort. Also, we optimized the resolution of this typing scheme with the addition of 2 STR markers. Altogether, we validated and optimized this rapid, reliable, and high-resolution typing scheme for C. auris.
Topics & Concepts
Candida aurisGenotypingBiologyGeneticsOutbreakGenotypeSingle-nucleotide polymorphismMicrosatelliteTandem repeatCladeGenomeVirologyPhylogenetic treeMicrobiologyGeneAntifungalAlleleAntifungal resistance and susceptibilityFungal Infections and StudiesProbiotics and Fermented Foods