Multidrug-resistant monophasic Salmonella Typhimurium ST34 strain producing blaNDM-5 carbapenemase isolated from a patient with rectal cancer in Hainan, China: comprehensive whole genome dissection of antibiotic resistance and virulence determinants
- 1Clinical & Central Laboratory of Sanya People’s Hospital , , ,
- 2Department of Hematology and Oncology of Sanya People’s Hospital , , ,
Abstract
Background: Here, we report the identification and comprehensive whole-genome characterization of a New Delhi metallo-β-lactamase 5 (blaNDM-5)-producing multidrug-resistant (MDR) monophasic Salmonella Typhimurium ST34 strain SYA001 from an immunocompromised rectal cancer patient. Monophasic Salmonella Typhimurium (Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:-) is one of the leading causative agents of foodborne gastroenteritis and hospitalization worldwide, and the rapid emergence and spread of carbapenem-resistant strains have severely compromised clinical treatment and posed a major threat to public health.
Methods: In this study, a series of standardized phenotypic assays were performed to characterize the microbiological, biochemical, and antimicrobial resistance profiles of strain SYA001. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS), biochemical identification, and slide agglutination serotyping were used for species and serotype confirmation. Antimicrobial susceptibility testing was conducted using the VITEK 2 compact system, and six types of carbapenemases were screened via a colloidal gold immunochromatographic assay. Whole-genome sequencing (WGS) was performed on the DNBSEQ-T7 platform, and a comprehensive bioinformatics pipeline was applied to dissect the genomic structure, phylogenetic characteristics, antibiotic resistance determinants, plasmid profiles, prophage regions, Salmonella pathogenicity islands (SPIs), and protein-protein interaction (PPI) network of the strain.
Results: Our results confirmed that SYA001 is a serovar 1,4,[5],12:i:- monophasic Salmonella Typhimurium belonging to the globally epidemic ST34 clone. The strain exhibited an MDR phenotype, with resistance to 7 classes of antibiotics including carbapenems, cephalosporins, and aminoglycosides, and was only susceptible to aztreonam, amikacin, tigecycline, and colistin. Genomic analysis identified the core carbapenem resistance gene blaNDM-5, along with multiple coexisting resistance genes including blaOXA-10, qnrS1, tet(A), sul2, and sul3 and so on. Four plasmid replicons (IncHI2, IncHI2A, IncQ1, p0111), 15 prophage regions, and a complete set of virulence-related SPIs (SPI-1 to SPI-5,SPI-9, SPI-13, SPI-14) were detected. PPI network analysis revealed AcrA as the core hub of the efflux-mediated resistance regulatory network.
Conclusion: This study provides genomic insights into blaNDM-5-producing MDR monophasic Salmonella. Typhimurium from an immunocompromised rectal cancer patient, supplements clinical surveillance data of carbapenem-resistant Salmonella in Hainan.
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BibTeX
@article{zhong2026multidrugresistant,
title = {{Multidrug-resistant monophasic Salmonella Typhimurium ST34 strain producing blaNDM-5 carbapenemase isolated from a patient with rectal cancer in Hainan, China: comprehensive whole genome dissection of antibiotic resistance and virulence determinants}},
author = {Shan Zhong and Lei Xing and Licheng Wang and Chongzhen Wang and Xiaoying Fu and Lixia Xu and Yuanli Li and Huaxiong Zhu and Lvfen He and Xiong Zhu and Huan Li},
journal = {Frontiers in cellular and infection microbiology},
year = {2026},
month = oct,
doi = {10.3389/fcimb.2026.1942157},
url = {https://europepmc.org/article/PMC/PMC13719422},
note = {CC BY},
}
RIS
TY - JOUR
TI - Multidrug-resistant monophasic Salmonella Typhimurium ST34 strain producing blaNDM-5 carbapenemase isolated from a patient with rectal cancer in Hainan, China: comprehensive whole genome dissection of antibiotic resistance and virulence determinants
AU - Shan Zhong
AU - Lei Xing
AU - Licheng Wang
AU - Chongzhen Wang
AU - Xiaoying Fu
AU - Lixia Xu
AU - Yuanli Li
AU - Huaxiong Zhu
AU - Lvfen He
AU - Xiong Zhu
AU - Huan Li
PY - 2026
DA - 2026/10/16
JO - Frontiers in cellular and infection microbiology
DO - 10.3389/fcimb.2026.1942157
UR - https://europepmc.org/article/PMC/PMC13719422
AB - Background: Here, we report the identification and comprehensive whole-genome characterization of a New Delhi metallo-β-lactamase 5 (blaNDM-5)-producing multidrug-resistant (MDR) monophasic Salmonella Typhimurium ST34 strain SYA001 from an immunocompromised rectal cancer patient. Monophasic Salmonella Typhimurium (Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:-) is one of the leading causative agents of foodborne gastroenteritis and hospitalization worldwide, and the rapid emergence and spread of carbapenem-resistant strains have severely compromised clinical treatment and posed a major threat to public health. Methods: In this study, a series of standardized phenotypic assays were performed to characterize the microbiological, biochemical, and antimicrobial resistance profiles of strain SYA001. Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS), biochemical identification, and slide agglutination serotyping were used for species and serotype confirmation. Antimicrobial susceptibility testing was conducted using the VITEK 2 compact system, and six types of carbapenemases were screened via a colloidal gold immunochromatographic assay. Whole-genome sequencing (WGS) was performed on the DNBSEQ-T7 platform, and a comprehensive bioinformatics pipeline was applied to dissect the genomic structure, phylogenetic characteristics, antibiotic resistance determinants, plasmid profiles, prophage regions, Salmonella pathogenicity islands (SPIs), and protein-protein interaction (PPI) network of the strain. Results: Our results confirmed that SYA001 is a serovar 1,4,[5],12:i:- monophasic Salmonella Typhimurium belonging to the globally epidemic ST34 clone. The strain exhibited an MDR phenotype, with resistance to 7 classes of antibiotics including carbapenems, cephalosporins, and aminoglycosides, and was only susceptible to aztreonam, amikacin, tigecycline, and colistin. Genomic analysis identified the core carbapenem resistance gene blaNDM-5, along with multiple coexisting resistance genes including blaOXA-10, qnrS1, tet(A), sul2, and sul3 and so on. Four plasmid replicons (IncHI2, IncHI2A, IncQ1, p0111), 15 prophage regions, and a complete set of virulence-related SPIs (SPI-1 to SPI-5,SPI-9, SPI-13, SPI-14) were detected. PPI network analysis revealed AcrA as the core hub of the efflux-mediated resistance regulatory network. Conclusion: This study provides genomic insights into blaNDM-5-producing MDR monophasic Salmonella. Typhimurium from an immunocompromised rectal cancer patient, supplements clinical surveillance data of carbapenem-resistant Salmonella in Hainan.
SN - 2235-2988
ER -