Attack of the clones: whole genome-based characterization of two closely related enterohemorrhagic Escherichia coli O26 epidemic lineages

BMC Genomics
Lucia KarnisovaJaroslav Nunvar

Abstract

Enterohemorrhagic Escherichia coli (EHEC) O26:H11/H-, the most common non-O157 serotype causing hemolytic uremic syndrome worldwide, are evolutionarily highly dynamic with new pathogenic clones emerging rapidly. Here, we investigated the population structure of EHEC O26 isolated from patients in several European countries using whole genome sequencing, with emphasis on a detailed analysis of strains of the highly virulent new European clone (nEC) which has spread since 1990s. Genome-wide single nucleotide polymorphism (SNP)-based analysis of 32 EHEC O26 isolated in the Czech Republic, Germany, Austria and Italy demonstrated a split of the nEC (ST29C2 clonal group) into two distinct lineages, which we termed, based on their temporal emergence, as "early" nEC and "late" nEC. The evolutionary divergence of the early nEC and late nEC is marked by the presence of 59 and 70 lineage-specific SNPs (synapomorphic mutations) in the genomes of the respective lineages. In silico analyses of publicly available E. coli O26 genomic sequences identified the late nEC lineage worldwide. Using a PCR designed to target the late nEC synapomorphic mutation in the sen/ent gene, we identified the early nEC decline accompanied by the late nEC rise in G...Continue Reading

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Citations

Jan 30, 2020·Microorganisms·Adriene Maria Ferreira CavalcantiLuís Fernando Dos Santos
Aug 23, 2020·Nature Reviews. Microbiology·Erick DenamurDavid Gordon

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Datasets Mentioned

BETA
CP011331
AP010953

Methods Mentioned

BETA
electrophoresis
PCR

Software Mentioned

Progressive MAUVE
CLC Genomics Workbench de novo assembler
Primer
TBLASTN
BLAST
Geneious
/ BLAST
CLC Genomics Workbench
Geneious R9 platform
FastTree

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