Genomic epidemiology of enteropathogenic Escherichia coli in southwestern Nigeria.

ABSTRACT:

Background

Enteropathogenic Escherichia coli (EPEC) are etiological agents of diarrhea. We studied the genetic diversity and virulence factors of EPEC in southwestern Nigeria, where this pathotype is rarely characterized.

Methodology/principal findings

EPEC isolates (n = 96) recovered from recent southwestern Nigeria diarrhea case-control studies were whole genome-sequenced using Illumina technology. Genomes were assembled using SPAdes and quality was evaluated using QUAST. Virulencefinder, Ectyper, and ResFinder were used to identify virulence genes, serotypes, and resistance genes. Multilocus sequence typing was done by STtyping. Single nucleotide polymorphisms (SNPs) were called out of whole genome alignment using SNP-sites and a phylogenetic tree was constructed using IQ

SUBMITTER: Akinlabi OC 

PROVIDER: S-EPMC12404642 | biostudies-literature | 2025 Aug

REPOSITORIES: biostudies-literature