ArticleNature microbiology2022
Population genomics of Escherichia coli in livestock-keeping households across a rapidly developing urban landscape.
Article in Nature microbiology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers.
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Who cites it
58 citing papers in PubMed.
- Genomic epidemiology of extended-spectrum beta-lactamase-producingJAC-antimicrobial resistance · 2026Article
- Eco-Geography Reverses Dominant AMR Reservoirs in Klebsiella pneumoniae: Integron-Rich Mobilomes and Cross-Niche Connectivity.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Strain-level analyses of public sequencing data to characterizeOne health (Amsterdam, Netherlands) · 2026Article
- Comprehensive Genomics and Functional Validation Reveal Evolutionary Insights into Xanthan Gum Biosynthesis and Pathogenesis ofJournal of agricultural and food chemistry · 2026Article
- Cross-sectoral sharing of CTX-M-producingMicrobiology spectrum · 2026Article
- Molecular characterization of extended-spectrum beta-lactamase-producing Escherichia coli among children and farm animals in Agogo, Ghana.BMC microbiology · 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
- Genomic diversity of diarrheagenic multidrug-resistant Escherichia coli across asymptomatic children and livestock in Nairobi, Kenya.PLOS global public health · 2026Article
- Evidence of transmission and dissemination of diverseApplied and environmental microbiology · 2025Article
- Circulation of polyclonal OXA-244-producingJAC-antimicrobial resistance · 2025Article
- Whole-Genome Analysis ofAntibiotics (Basel, Switzerland) · 2025Article
- Circulation of Salmonella spp. between humans, animals and the environment in animal-owning households in Malawi.Nature communications · 2025Article
- Genomic profiling of enterotoxigenicMicrobial genomics · 2025Article
- Human microbiome acquisition and transmission.Nature reviews. Microbiology · 2025Review
- Ecological connectivity of genomic markers of antimicrobial resistance in Escherichia coli in Hong Kong.Nature communications · 2025Article
- Available phosphorus and opportunistic pathogens drive geographic variation in Escherichia coli O157:H7 survival in soils across eastern China.Nature food · 2025Article
- Context-Seq: CRISPR-Cas9 targeted nanopore sequencing for transmission dynamics of antimicrobial resistance.Nature communications · 2025Article
- Variants of β-lactamase-encoding genes are disseminated by multiple genetically distinct lineages of bloodstream Escherichia coli.Communications medicine · 2025Article
- A systematic review of antimicrobial resistance transmission inferences at the human-livestock interface in Africa.npj antimicrobials and resistance · 2025Article
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Funding
Abstract
Quantitative evidence for the risk of zoonoses and the spread of antimicrobial resistance remains lacking. Here, as part of the UrbanZoo project, we sampled Escherichia coli from humans, livestock and peri-domestic wildlife in 99 households across Nairobi, Kenya, to investigate its distribution among host species in this rapidly developing urban landscape. We performed whole-genome sequencing of 1,338 E. coli isolates and found that the diversity and sharing patterns of E. coli were heavily structured by household and strongly shaped by host type. We also found evidence for inter-household and inter-host sharing and, importantly, between humans and animals, although this occurs much less frequently. Resistome similarity was differently distributed across host and household, consistent with being driven by shared exposure to antimicrobials. Our results indicate that a large, epidemiologically structured sampling framework combined with WGS is needed to uncover strain-sharing events among different host populations in complex environments and the major contributing pathways that could ultimately drive the emergence of zoonoses and the spread of antimicrobial resistance.
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