Development and validation of a core genome multilocus sequence typing scheme for <i>Citrobacter freundii</i>: application in outbreak investigations and comparative analysis across the <i>Citrobacter</i> genus.

ABSTRACT: Citrobacter freundii is a nosocomial pathogen increasingly associated with multidrug resistance and hospital outbreaks. Despite its growing clinical relevance, no standardized core genome multilocus sequence typing (cgMLST) scheme has been available for high-resolution epidemiological analyses. Here, we developed and validated a robust cgMLST scheme for C. freundii comprising 3,250 target loci based on a curated data set of 825 globally distributed genomes representing extensive sequence type and geographic diversity. Validation against published outbreak data sets from hospitals in Finland and Belgium, as well as environmental and patient isolates from two German university hospitals, proved that the scheme possesses high target gene coverage (median 99.6%) and strong discri

SUBMITTER: Kieninger B 

PROVIDER: S-EPMC12505962 | biostudies-literature | 2025 Oct

REPOSITORIES: biostudies-literature