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Whole Genome Sequencing / Urinary Tract Infections / Escherichia Coli Infections · Journal article
Virulence · August 10, 2026
Early or partial results. Treat as a signal, not a conclusion.
This is a descriptive pangenome analysis of 142 uropathogenic E. coli isolates from Ecuador, characterizing core and accessory genomes, virulence factor profiles, and antimicrobial resistance genes. The study identifies the prevalence of high-risk clones (ST131, O25:H4) and resistance-associated genes but does not establish clinical impact or validate genotype–phenotype associations.
Genomic descriptive study (pangenome analysis of publicly available whole-genome sequences). 145 E. coli isolates from urinary tract samples in Ecuador; 142 retained after quality control (completeness ≥95%, contamination ≤5%); no clinical metadata, host information, or phenotypic data included.. n = 142. Ecuador (sourced from two NCBI BioProjects; specific collection sites not detailed).
Pangenome structure comprised 16,732 genes: 3,385 core genes and 13,347 accessory genes ST131 lineage predominant at 42.3% of total isolates O25:H4 serotype present in 42.96% of cases
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This work establishes a baseline genomic profile of UPEC circulating in Ecuador and identifies high-risk clones and resistance determinants, but does not directly inform treatment decisions or clinical outcomes. Results may guide surveillance strategies and empirical therapy considerations if validated clinically.
This is a descriptive genomic characterization study of UPEC isolates without clinical outcomes, experimental validation, or comparator groups; it reports pangenome structure and resistance/virulence gene profiles but does not test an intervention or establish causation.
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This work establishes a baseline genomic profile of UPEC circulating in Ecuador and identifies high-risk clones and resistance determinants, but does not directly inform treatment decisions or clinical outcomes. Results may guide surveillance strategies and empirical therapy considerations if validated clinically.
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Uropathogenic Escherichia coli (UPEC) is one of the leading causes of bacterial Urinary Tract Infections (UTIs) worldwide. In this study, we characterized the UPEC pangenome in Ecuador, focusing on the virulome and resistome of 142 genomes sequenced using whole-genome sequencing (WGS). Our analysis revealed a structure of 16,732 genes, including a conserved core of 3,385 genes and a dynamic accessory genome of 13,347 genes. The ST131 lineage was predominant, accounting for 42.3 % of the total, whereas the O25:H4 serotype was present in 42.96 % of the cases. The resistome was associated with a large accessory gene repertoire, with 3,712 significant associations identified across 29 antimicrobial resistance genes (ARGs). The virulome was organized into 23 main profiles, with adhesion and siderophore genes being the most abundant. These findings demonstrate the presence of high-risk variants in terms of virulence and resistance circulating in Ecuador, which requires the establishment of improved health control strategies in the region.
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