{"id":18277,"date":"2026-05-29T12:54:53","date_gmt":"2026-05-29T05:54:53","guid":{"rendered":"https:\/\/cest.or.id\/?p=18277"},"modified":"2026-05-29T18:06:32","modified_gmt":"2026-05-29T11:06:32","slug":"identifying-extended-spectrum-b2-lactamase-esbl-producing-e-coli-hotspots-in-integrated-livestock-farming-using-whole-genome-sequencing","status":"publish","type":"post","link":"https:\/\/cest.or.id\/id\/identifying-extended-spectrum-b2-lactamase-esbl-producing-e-coli-hotspots-in-integrated-livestock-farming-using-whole-genome-sequencing\/","title":{"rendered":"Identifying extended-spectrum \u03b2-lactamase (ESBL) producing E. coli hotspots in integrated livestock farming using whole genome sequencing"},"content":{"rendered":"
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ABSTRACT<\/h4>
In 2019, antibiotic resistance posed a significant health threat, leading to 1.27 million deaths worldwide, and the risk expected to persist into the future. Livestock farming is a hotspot for antimicrobial resistance owing to the consumption of antimicrobials and environmental contamination of the surroundings. However, few studies have thoroughly sampled Extended Spectrum \u03b2-Lactamase producing\u00a0Escherichia coli<\/em>\u00a0(ESBL\u00a0E. coli)<\/em>\u00a0throughout the entire process within a single farm, from the initial feed spots to the final fertilizer spots. This study used comprehensive sampling, interviews, antibiotic resistance profiling, and whole-genome sequencing to identify ESBL\u00a0E. coli<\/em>\u00a0hotspots in an integrated teaching farm in Indonesia. All of 134 samples were obtained of livestock and human stool, feed concentrates, water, and livestock fertilizer.\u00a0E. coli<\/em>\u00a0and ESBL\u00a0E. coli<\/em>\u00a0were isolated and characterized using selective media, indole assays, and double-disk synergy testing. DNA from 18 isolates was extracted, sequenced, and analyzed. The investigation discovered ESBL\u00a0E. coli<\/em>\u00a0in 35.1% of the samples (47\/134). ESBL\u00a0E. coli<\/em>\u00a0concentrations were highest in poultry fertilizer (7.4 log10<\/sub>\u00a0CFU\/g), broiler stool (6.7 log10<\/sub>\u00a0CFU\/g), and broiler feed. Multiple \u03b2-lactam antibiotic resistance genes and extraintestinal pathogenic\u00a0E. coli<\/em>\u00a0virulence genes were identified through genomic analysis, indicating a considerable threat of antibiotic resistance and pathogenicity in this strain. The close genetic relationship between the isolates suggests cross-contamination within the farm environment. Specific hotspots for ESBL\u00a0E. coli<\/em>\u00a0were identified, including broiler stools, poultry fertilizers, and duck stools, based on ESBL\u00a0E. coli<\/em>\u00a0concentration and phylogenetic tree analyses. This study provides new evidence that ESBL\u00a0E. coli<\/em>\u00a0extends beyond livestock stools to feed concentrates and water, while hotspot mapping uncovers hidden hotspots across the farm. The findings advance One Health by guiding stronger biosecurity, waste management, and antimicrobial resistance surveillance in livestock systems.<\/div><\/div>
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For the complete paper click link here<\/strong><\/a>.<\/div>
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Authors:<\/strong>