Molecular Characterization of blaNDM-Carrying IncX3 Plasmids: blaNDM-16b Likely Emerged from a Mutation of blaNDM-5 on IncX3 Plasmid
ABSTRACT 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-, b...
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| Format: | Article |
| Language: | English |
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American Society for Microbiology
2022-08-01
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| Series: | Microbiology Spectrum |
| Subjects: | |
| Online Access: | https://journals.asm.org/doi/10.1128/spectrum.01449-22 |
| _version_ | 1828358216867643392 |
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| author | Tsukasa Ariyoshi Kotaro Aoki Hiroaki Kubota Kenji Sadamasu Yoshikazu Ishii Kazuhiro Tateda |
| author_facet | Tsukasa Ariyoshi Kotaro Aoki Hiroaki Kubota Kenji Sadamasu Yoshikazu Ishii Kazuhiro Tateda |
| author_sort | Tsukasa Ariyoshi |
| collection | DOAJ |
| description | ABSTRACT 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. |
| first_indexed | 2024-04-14T03:25:41Z |
| format | Article |
| id | doaj.art-d335b0c692b5484eaee4e15b2ab4c4f6 |
| institution | Directory Open Access Journal |
| issn | 2165-0497 |
| language | English |
| last_indexed | 2024-04-14T03:25:41Z |
| publishDate | 2022-08-01 |
| publisher | American Society for Microbiology |
| record_format | Article |
| series | Microbiology Spectrum |
| spelling | doaj.art-d335b0c692b5484eaee4e15b2ab4c4f62022-12-22T02:15:10ZengAmerican Society for MicrobiologyMicrobiology Spectrum2165-04972022-08-0110410.1128/spectrum.01449-22Molecular Characterization of blaNDM-Carrying IncX3 Plasmids: blaNDM-16b Likely Emerged from a Mutation of blaNDM-5 on IncX3 PlasmidTsukasa Ariyoshi0Kotaro Aoki1Hiroaki Kubota2Kenji Sadamasu3Yoshikazu Ishii4Kazuhiro Tateda5Department of Microbiology and Infectious Diseases, Toho University Graduate School of Medicine, Tokyo, JapanDepartment of Microbiology and Infectious Diseases, Toho University School of Medicine, Tokyo, JapanDepartment of Microbiology, Tokyo Metropolitan Institute of Public Health, Tokyo, JapanDepartment of Microbiology, Tokyo Metropolitan Institute of Public Health, Tokyo, JapanDepartment of Microbiology and Infectious Diseases, Toho University Graduate School of Medicine, Tokyo, JapanDepartment of Microbiology and Infectious Diseases, Toho University Graduate School of Medicine, Tokyo, JapanABSTRACT 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.https://journals.asm.org/doi/10.1128/spectrum.01449-22carbapenem-resistant EnterobacteralesIncX3plasmidblaNDM-16bwhole-genome sequencingcomparative analysis |
| spellingShingle | Tsukasa Ariyoshi Kotaro Aoki Hiroaki Kubota Kenji Sadamasu Yoshikazu Ishii Kazuhiro Tateda Molecular Characterization of blaNDM-Carrying IncX3 Plasmids: blaNDM-16b Likely Emerged from a Mutation of blaNDM-5 on IncX3 Plasmid Microbiology Spectrum carbapenem-resistant Enterobacterales IncX3 plasmid blaNDM-16b whole-genome sequencing comparative analysis |
| title | Molecular Characterization of blaNDM-Carrying IncX3 Plasmids: blaNDM-16b Likely Emerged from a Mutation of blaNDM-5 on IncX3 Plasmid |
| title_full | Molecular Characterization of blaNDM-Carrying IncX3 Plasmids: blaNDM-16b Likely Emerged from a Mutation of blaNDM-5 on IncX3 Plasmid |
| title_fullStr | Molecular Characterization of blaNDM-Carrying IncX3 Plasmids: blaNDM-16b Likely Emerged from a Mutation of blaNDM-5 on IncX3 Plasmid |
| title_full_unstemmed | Molecular Characterization of blaNDM-Carrying IncX3 Plasmids: blaNDM-16b Likely Emerged from a Mutation of blaNDM-5 on IncX3 Plasmid |
| title_short | Molecular Characterization of blaNDM-Carrying IncX3 Plasmids: blaNDM-16b Likely Emerged from a Mutation of blaNDM-5 on IncX3 Plasmid |
| title_sort | molecular characterization of blandm carrying incx3 plasmids blandm 16b likely emerged from a mutation of blandm 5 on incx3 plasmid |
| topic | carbapenem-resistant Enterobacterales IncX3 plasmid blaNDM-16b whole-genome sequencing comparative analysis |
| url | https://journals.asm.org/doi/10.1128/spectrum.01449-22 |
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