Regional genomic analysis of lineage distribution and transferable multidrug resistance among chicken-associated Salmonella Kentucky isolates in China.

Xueyuan Zhu; Wanting He; Ying Hu; Tantao Zhang; Yu Cheng; Peipei Cheng; Zhuosi Li; Xiaojie Qin; Qingli Dong; Linlin Xiao

doi:10.1016/j.foodres.2026.120014

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Regional genomic analysis of lineage distribution and transferable multidrug resistance among chicken-associated Salmonella Kentucky isolates in China.

Xueyuan Zhu·Wanting He·Ying Hu·Tantao Zhang·Yu Cheng·Peipei Cheng·Zhuosi Li·Xiaojie Qin·Qingli Dong·Linlin Xiao

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Abstract

Salmonella enterica serovar Kentucky is an important multidrug-resistant foodborne pathogen in the poultry meat supply chain. Although recent broader genomic studies have elucidated the population structure and epidemiological significance of major lineages in China (e.g., ST198 and ST314), the regional dynamics within local poultry supply chains remain insufficiently characterized. In this study, 31 chicken meat-derived isolates from Shanghai and 39 publicly available genomes from China were analyzed using antimicrobial susceptibility testing, whole-genome sequencing, phylogenetic analysis, conjugation experiments, and complete sequencing of representative plasmids. This enabled a systematic characterization of the molecular epidemiological features of the population and the mechanisms underlying resistance dissemination. Population genomic analysis revealed a lineage composition markedly different from the global epidemiological pattern: ST314 was the predominant sequence type among the Shanghai chicken-derived isolates (74.2%), whereas the internationally recognized high-risk clone ST198 accounted for only 25.8% of the local isolates. However, risk stratification analysis indicated that although ST198 was detected less frequently, it carried a significantly greater burden of acquired resistance genes and therefore represented a higher-risk resistant lineage. Functional and structural validation further elucidated the molecular basis of resistance dissemination within this high-risk lineage. Conjugation experiments confirmed the co-transfer of a multidrug resistance module carrying blaTEM-1 and blaCTX-M-267 to the recipient strain Escherichia coli J53. Complete plasmid analysis revealed that these two β-lactam resistance genes were co-localized on a 242-kb transferable plasmid flanked by Tn1331, Tn3, and multiple transposase-associated elements, thereby providing a structural basis for their horizontal transfer. This study provides important molecular epidemiological evidence for lineage-specific surveillance and risk-stratified control of resistant Salmonella in the poultry meat supply chain and further underscores the need for continuous monitoring of mobile genetic elements within a One Health framework.

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Animals Chickens China Drug Resistance, Multiple, Bacterial Phylogeny Salmonella enterica Plasmids Microbial Sensitivity Tests Whole Genome Sequencing Anti-Bacterial Agents Meat Genome, Bacterial Food Microbiology Food safety Multidrug resistance Plasmid-mediated transfer Resistance dissemination Salmonella Kentucky Journal Article

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Xueyuan Zhu, Wanting He, Ying Hu, Tantao Zhang, Yu Cheng, Peipei Cheng, Zhuosi Li, Xiaojie Qin, Qingli Dong, Linlin Xiao. 2026-07-11. Regional genomic analysis of lineage distribution and transferable multidrug resistance among chicken-associated Salmonella Kentucky isolates in China.. https://doi.org/10.1016/j.foodres.2026.120014

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Journal Article resource Animals subject Anti-Bacterial Agents subject China subject Drug Resistance, Multiple, Bacterial subject Food Microbiology subject Food safety subject Genome, Bacterial subject Journal Article subject Meat subject Microbial Sensitivity Tests subject

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