Abstract
Salmonella enterica serovar Kentucky is a frequent cause for clinical infections in human patients. They are isolated and reported with multidrug resistance from the foods of animal origin from various countries. However, studies inferring the colistin resistance are limited. Hence, the current study reports the genetic factors and genomic analysis of the colistin-resistant Salmonella enterica serovar Kentucky strain COL-R for better understanding of its pathogenic potential and phylogenetic relatedness. The S. Kentucky strain COL-R was successfully isolated from chicken meat during ongoing surveillance of food of animal origin. Antimicrobial susceptibility testing revealed resistance to cefoxitin, erythromycin, gentamicin, tetracycline, and most disturbingly to ciprofloxacin and colistin (broth microdilution method). Whole-genome sequence of the COL-R strain was subjected to various in silico analysis to identify the virulence factors, antimicrobial resistance genes, pathogenicity islands and sequence type. The S. Kentucky COL-R strain belonged to sequence type (ST) 198 with a high probability (0.943) of being a human pathogen. Besides presence of integrated phage in the S. Kentucky COL-R genome, 38 genes conferring resistance to various antimicrobials and disinfectants were also identified. Nucleotide Polymorphism analysis indicated triple mutations in gyrA and parC genes conferring fluoroquinolone resistance. Phylogenomic analysis with 31 other S. Kentucky genomes revealed discernible clusters with S. Kentucky COL-R strain latching onto a cluster of high diversity (geographic location and isolation sources). Taken together, our results document the first occurrence of colistin resistance in a fluoroquinolone resistant S. Kentucky COL-R strain isolated from retail chicken and provide crucial information on the genomic features of the strain.
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Data availability
All data generated or analysed during this study are included in the published article (and its supplementary information files). Genome sequence of Salmonella enterica serovar Kentucky strain COL-R is available from NCBI (Accession No. JAFBLQ000000000.1; BioProject PRJNA698726).
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Acknowledgements
The authors are thankful to Tamil Nadu Veterinary and Animal Sciences University, Department of Livestock Products Technology, Veterinary College, Hebbal, Bangalore and ICAR Research Complex for NEH Region, Umiam, Meghalaya, India for providing the necessary support and research facilities to carry out the present research work. Special mention to Dr. Karthikeyan. R who helped in editing the manuscript.
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This research was funded by (i) Tamil Nadu Veterinary and Animal Science University; (ii) Biotechnology Industry Research Assistance Council, India (Grant no. BT/AMR0297/05/18).
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Rose, T.F.A., Kannan, P., Ruban, S.W. et al. Isolation, susceptibility profiles and genomic analysis of a colistin-resistant Salmonella enterica serovar Kentucky strain COL-R. 3 Biotech 13, 140 (2023). https://doi.org/10.1007/s13205-023-03559-2
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DOI: https://doi.org/10.1007/s13205-023-03559-2