Pathogenic Escherichia coli in Animal Populations: Emerging Risks, Innovations, and Control Strategies

A special issue of Animals (ISSN 2076-2615). This special issue belongs to the section "Veterinary Clinical Studies".

Deadline for manuscript submissions: 31 December 2026 | Viewed by 678

Special Issue Editor


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Guest Editor
College of Veterinary Medicine, Chungbuk National University, Cheongju 28644, Republic of Korea
Interests: pathogenic E. coli; virulence; antimicrobial resistance; microbiome; whole-genome sequencing

Special Issue Information

Dear Colleagues,

Pathogenic Escherichia coli continues to pose major challenges to animal health, food safety, and global One Health systems. These diverse strains cause significant diseases across livestock, companion animals, and wildlife, leading to economic losses, welfare concerns, and potential zoonotic spillover. Rapid developments in molecular epidemiology, whole-genome sequencing, antimicrobial resistance monitoring, and innovative prevention tools now offer unprecedented opportunities to better understand and mitigate these pathogens.

This Special Issue invites high-quality research, reviews, and short communications that explore the biology, ecology, transmission dynamics, and clinical impacts of pathogenic E. coli in animal populations. We welcome contributions on genomics-driven surveillance, virulence characterization, host–pathogen interactions, environmental persistence, vaccine development, antimicrobial stewardship, and novel control or intervention strategies. Studies addressing One Health perspectives, cross-species transmission, and risk assessment frameworks are particularly encouraged.

By bringing together cutting-edge findings and multidisciplinary approaches, this Special Issue aims to advance our understanding of pathogenic E. coli and support the development of more sustainable, evidence-based strategies to protect animal health and reduce global public health risks.

Dr. Kyung-Hyo Do
Guest Editor

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Keywords

  • Pathogenic Escherichia coli
  • virulence
  • epidemiology
  • animal health
  • antimicrobials
  • antimicrobial resistance (AMR)
  • whole-genome sequencing
  • colibacillosis
  • host–pathogen interactions

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Published Papers (1 paper)

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Research

16 pages, 1342 KB  
Article
Genome Characterization of Temperate Bacteriophages and Associated Genetic Features in Avian Pathogenic Escherichia coli from Brazilian Poultry
by Rafael Dorighello Cadamuro, Giulia Von Tönnemann Pilati, Mariana Alves Elois, Álvaro Cañete Reyes, David Rodríguez-Lázaro and Gislaine Fongaro
Animals 2026, 16(8), 1159; https://doi.org/10.3390/ani16081159 - 10 Apr 2026
Viewed by 364
Abstract
To characterize the ecological and genomic architecture of temperate bacteriophages in Escherichia coli isolated from Brazilian broiler chickens, we analyzed 63 femur-derived genomes, most fulfilling molecular avian pathogenic E. coli (APEC) criteria, and tested whether temperate phage regions are enriched for antimicrobial resistance [...] Read more.
To characterize the ecological and genomic architecture of temperate bacteriophages in Escherichia coli isolated from Brazilian broiler chickens, we analyzed 63 femur-derived genomes, most fulfilling molecular avian pathogenic E. coli (APEC) criteria, and tested whether temperate phage regions are enriched for antimicrobial resistance genes (ARGs), virulence factors, plasmid markers, and other mobilome components. Diversity was summarized using incidence-based richness estimators and bootstrap confidence intervals, and positional enrichment was assessed using permutation-based statistical analysis. We detected 1164 phage-like elements, including 188 medium- and high-quality phages, of which 93.6% were temperate. Median temperate diversity per genome was three phage genera and three temperate regions. At the population level, 19 temperate genera were observed, with a Chao2 estimate of 21.2, indicating near-saturated genus-level diversity. Positional mobilome analysis showed significant enrichment of insertion sequences within temperate regions (p < 0.05), while ARGs, virulence factors, and plasmid markers were not significantly enriched inside temperate phage coordinates (p > 0.05). The surrounding genomic neighborhood (±20 kb) accumulated mobile elements but showed no significant enrichment. CRISPR spacer matches further supported ongoing host–phage interactions. Overall, temperate phages are widespread and ecologically structured in Brazilian broiler-associated E. coli, but they are not preferential hotspots for ARG, virulence, or plasmid gene enrichment; instead, they are chiefly associated with insertion-sequence enrichment. Full article
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