ArticleBMC biology2023
Genome-wide association reveals host-specific genomic traits in Escherichia coli.
Article in BMC biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 32 citations in OpenAlex.
- Article
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- Intestinal colonization of weaner pigs by extended-spectrum-β-lactamase-encoding Escherichia coli classified for differential host-association using a phylogenetics-based approach.Scientific reports · 2026Article
- Genome-host association mapping reveals wheat pathogen genes involved in host specialization.Nature plants · 2026Article
- Genomic Insights into Ciprofloxacin-Resistant EnteropathogenicAntibiotics (Basel, Switzerland) · 2026Article
- Visual Screening of Genetic Polymorphisms inSensors (Basel, Switzerland) · 2026Article
- Everything is everywhere but Escherichia coli adapts to different niches.The ISME journal · 2026Article
- Genomic epidemiology reveals statewide dispersal of clinical Shiga toxin-producingMicrobiology spectrum · 2026Article
- Beyond AMR and virulence databases: genome wide associations of closely relatedFrontiers in microbiology · 2026Article
- Genomic characterization and comparative analysis of multidrug-resistant Escherichia coli ST361 from urban wetland.BMC microbiology · 2025Article
- Evidence of ESBL plasmid transfer and selective persistence of multiple host-associatedApplied and environmental microbiology · 2025Article
- Bacterial Systematic Genetics and Integrated Multi-Omics: Beyond Static Genomics Toward Predictive Models.International journal of molecular sciences · 2025Review
- Bacterial genome-wide association studies: exploring the genetic variation underlying bacterial phenotypes.Applied and environmental microbiology · 2025Review
- Using GWAS and Machine Learning to Identify and Predict Genetic Variants Associated with Foodborne Bacteria Phenotypic Traits.Methods in molecular biology (Clifton, N.J.) · 2025Review
- Host-Pathogen Interactions during Shiga Toxin-ProducingMicroorganisms · 2024Review
- EnterohemorrhagicMicrobiology spectrum · 2024Article
- Unveiling Antibiotic Resistance, Clonal Diversity, and Biofilm Formation inPathogens (Basel, Switzerland) · 2024Article
- Functional host-specific adaptation of the intestinal microbiome in hominids.Nature communications · 2024Article
- Article
Corrections and comments
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Authors and funding
29 authors at 13 institutions in 5 countries.
Funding
Abstract
backgroundEscherichia coli is an opportunistic pathogen which colonizes various host species. However, to what extent genetic lineages of E. coli are adapted or restricted to specific hosts and the genomic determinants of such adaptation or restriction is poorly understood.
resultsWe randomly sampled E. coli isolates from four countries (Germany, UK, Spain, and Vietnam), obtained from five host species (human, pig, cattle, chicken, and wild boar) over 16 years, from both healthy and diseased hosts, to construct a collection of 1198 whole-genome sequenced E. coli isolates. We identified associations between specific E. coli lineages and the host from which they were isolated. A genome-wide association study (GWAS) identified several E. coli genes that were associated with human, cattle, or chicken hosts, whereas no genes associated with the pig host could be found. In silico characterization of nine contiguous genes (collectively designated as nan-9) associated with the human host indicated that these genes are involved in the metabolism of sialic acids (Sia). In contrast, the previously described sialic acid regulon known as sialoregulon (i.e. nanRATEK-yhcH, nanXY, and nanCMS) was not associated with any host species. In vitro growth experiments with a Δnan-9 E. coli mutant strain, using the sialic acids 5-N-acetylneuraminic acid (Neu5Ac) and N-glycolylneuraminic acid (Neu5Gc) as sole carbon source, showed impaired growth behaviour compared to the wild-type.
conclusionsThis study provides an extensive analysis of genetic determinants which may contribute to host specificity in E. coli. Our findings should inform risk analysis and epidemiological monitoring of (antimicrobial resistant) E. coli.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.