Whole genome sequencing analysis Microbiology on antibiotic-resistant Escherichia coli isolated from pig farms in Banten Province, Indonesia
- Author:
Hadri LATIF
1
;
Debby Fadhilah PAZRA
;
Chaerul BASRI
;
I Wayan Teguh WIBAWAN
;
Puji RAHAYU
Author Information
- Publication Type:Research Report
- From:Journal of Veterinary Science 2024;25(3):e44-
- CountryRepublic of Korea
- Language:English
-
Abstract:
Objective:This study analyzed the phylogenetics and diversity of antibiotic resistance genes (ARGs) and molecularly identified the source of ARGs in antibiotic-resistant Escherichia coli isolated from pig farms in Banten Province, Indonesia.
Methods:Forty-four antibiotic-resistant E. coli isolates from fecal samples from 44 pig farms in Banten Province, Indonesia, were used as samples. The samples were categorized into 14 clusters. Sequencing was performed using the Oxford Nanopore Technologies MinION platform, with barcoding before sequencing with Nanopore Rapid sequencing gDNAbarcoding (SQK-RBK110.96) according to manufacturing procedures. ARG detection was conducted using ResFinder, and the plasmid replicon was determined using PlasmidFinder.
Results:Three phylogenetic leaves of E. coli were identified in the pig farming cluster in Banten Province. The E. coli isolates exhibited potential resistance to nine classes of antibiotics. Fiftyone ARGs were identified across all isolates, with each cluster carrying a minimum of 10 ARGs. The ant(3'')-Ia and qnrS1 genes were present in all isolates. ARGs in the E. coli pig farming cluster originated mainly from plasmids, accounting for an average of 89.4%.
Conclusions:and Relevance: The elevated potential for MDR events, coupled with the dominance of ARGs originating from plasmids, increases the risk of ARG spread among bacterial populations in animals, humans, and the environment.
