Dataset Information

Emergence of a Salmonella Rissen ST469 clinical isolate carrying bla _NDM-13 in China.

ABSTRACT: New Delhi metallo-β-lactamase-13 (NDM-13) is an NDM variant that was first identified in 2015 and has not been detected in Salmonella species prior to this study. Here we describe the first identification of a Salmonella Rissen strain SR33 carrying bla _NDM-13. The aim of this study was to molecularly characterize SR33's antimicrobial resistance and virulence features as well as investigate the genetic environment of bla _NDM-13. The Salmonella Rissen SR33 strain was isolated from a patient with fever and diarrhea. SR33 belonged to ST469, and it was found to be multidrug-resistant (MDR) and to carry many virulence genes. Phylogenetic analysis showed that SR33 shared a close relationship with most of the Chinese S. Rissen ST469 strains. bla _NDM-13 was located in a transmissible IncI1 plasmid pNDM13-SR33. Sequence analysis of bla _NDM-13-positive genomes downloaded from GenBank revealed that a genetic context (ΔISAba125-bla _NDM-13-ble _MBL-trpF) and a hybrid promoter (consisting of -35 sequences provided by ISAba125 and -10 sequences) were conserved. ISAba125 was truncated by IS1294 in three plasmids carrying bla _NDM-13, including pNDM13-SR33. To our knowledge, this is the first report of bla _NDM-13 carried by Salmonella. The emergence of bla _NDM-13 in a clinical MDR S. Rissen ST469 strain highlights the critical need for monitoring and controlling the dissemination of bla _NDM-13. bla _NDM-13 carried by a transmissible IncI1 plasmid may result in an increased risk of bla _NDM-13 transmission. IS1294 may be involved in the movement of bla _NDM-13.

SUBMITTER: Huang Y

PROVIDER: S-EPMC9393422 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature

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Emergence of a Salmonella Rissen ST469 clinical isolate carrying bla NDM-13 in China.

Huang Yulan Y Ma Xiaobo X Zeng Shihan S Fu Liang L Xu Heping H Li Xiaoyan X

Frontiers in cellular and infection microbiology 20220808

New Delhi metallo-β-lactamase-13 (NDM-13) is an NDM variant that was first identified in 2015 and has not been detected in Salmonella species prior to this study. Here we describe the first identification of a Salmonella Rissen strain SR33 carrying bla NDM-13. The aim of this study was to molecularly characterize SR33's antimicrobial resistance and virulence features as well as investigate the genetic environment of bla NDM-13. The Salmonella< ...[more]

PMID: 36004325

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Project description:Dissemination of blaNDM, which is carried on the IncX3 plasmid, among Enterobacterales has been reported worldwide. In particular, blaNDM-5-carrying IncX3 plasmids can spread among several hosts, facilitating their dissemination. Other variants, such as blaNDM-17-, blaNDM-19-, blaNDM-20-, blaNDM-21-, and blaNDM-33-carrying IncX3 plasmids, have also been reported. Here, we characterized, using whole-genome sequencing (WGS), a blaNDM-16b-carrying IncX3 plasmid harbored by Escherichia coli strain TA8571, which was isolated from a urine specimen of a hospital inpatient in Tokyo, Japan. The blaNDM-16b differed in sequence from blaNDM-5 (C > T at site 698, resulting in an Ala233Val substitution). This blaNDM-16b-carrying IncX3 plasmid (pTMTA8571-1) is 46,161 bp in length and transferred via conjugation. Transconjugants showed high resistance to β-lactam antimicrobials (except for aztreonam). Because pTMTA8571-1, which carries the Tn125-related region containing blaNDM and conjugative transfer genes, was similar to the previously reported IncX3 plasmids, we performed phylogenetic analysis based on the sequence of 34 shared genes in 142 blaNDM-carrying IncX3 plasmids (22,846/46,923 bp). Comparative analysis of the shared genes revealed short branches on the phylogenetic tree (average of 1.08 nucleotide substitutions per shared genes), but each blaNDM variant was divided into separate groups, and the structure of the tree correlated with the flowchart of blaNDM nucleotide substitutions. The blaNDM-carrying IncX3 plasmids may thereby have evolved from the same ancestral plasmid with subsequent mutation of the blaNDM. Therefore, pTMTA8571-1 likely emerged from a blaNDM-5-carrying IncX3 plasmid. This study suggested that the spread of blaNDM-carrying IncX3 plasmids may be a hotbed for the emergence of novel variants of blaNDM. IMPORTANCE blaNDM-carrying IncX3 plasmids have been reported worldwide. Harbored blaNDM variants were mainly blaNDM-5, but there were also rare variants like blaNDM-17, blaNDM-19, blaNDM-20, blaNDM-21, and blaNDM-33, including blaNDM-16b detected in this study. For these plasmids, previous reports analyzed whole genomes or parts of sequences among a small number of samples, whereas, in this study, we performed an analysis of 142 blaNDM-carrying IncX3 plasmids detected around the world. The results showed that regardless of the blaNDM variants, blaNDM-carrying IncX3 plasmids harbored highly similar shared genes. Because these plasmids already spread worldwide may be a hotbed for the emergence of rare or novel variants of blaNDM, increased attention should be paid to blaNDM-carrying IncX3 plasmids in the future.

Dataset Information

Emergence of a Salmonella Rissen ST469 clinical isolate carrying bla _NDM-13 in China.

Publications

Emergence of a <i>Salmonella</i> Rissen ST469 clinical isolate carrying <i>bla</i> <sub>NDM-13</sub> in China.

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