Genomic characterization of carbapenem-resistant Klebsiella oxytoca complex in China: a multi-center study

Weimin Wan; Xiaochun Yang; Hua Yu; Min Wang; Wei Jia; Bin Huang; Fen Qu; Bin Shan; Yi Wei Tang; Liang Chen; Hong Du

doi:10.3389/fmicb.2023.1153781

Genomic characterization of carbapenem-resistant Klebsiella oxytoca complex in China: a multi-center study

Weimin Wan
, Xiaochun Yang
, Hua Yu
, Min Wang
, Wei Jia
, Bin Huang
, Fen Qu
, Bin Shan
, Yi Wei Tang
, Liang Chen
, Hong Du

Pharmacy

The Second Affiliated Hospital of Soochow University
Nanjing Medical University
Sichuan Provincial People's Hospital
Ningxia Medical University
The First Affiliated Hospital, Sun Yat-sen University
Aviation General Hospital
The First Affiliated Hospital of Kunming Medical University
Danaher Diagnostic Platform/Cepheid (People's Republic of China)

Research output: Contribution to journal › Article › peer-review

15 Scopus citations

Abstract

Carbapenem-resistant (CR) Klebsiella oxytoca complex can be associated with high mortality, emerging as a new threat to the public health. K. oxytoca complex is phylogenetically close to K. pneumoniae, one of most common species associated with multidrug resistance in Enterobacterale. The latest research showed that K. oxytoca is a complex of six species. Currently, the epidemiological and genomic characteristics of CR K. oxytoca complex in China are still unclear. Here, we conducted a multi-center study on 25 CR K. oxytoca complex collected from five representative regions in China. These isolates were, respectively, recovered from respiratory tract (12 cases, 48.0%), abdominal cavity (5 cases, 20.0%), blood (4 cases, 16.0%), urine tract (3 cases, 12.0%) and skin or soft tissue (1 cases, 4.0%). Among them, 32.0% (8/25) of patients infected with K. oxytoca complex had a poor prognosis. In this study, three K. oxytoca complex species were detected, namely K. michiganensis, K. oxytoca and K. pasteurii, among which K. michiganensis was the most common. Three carbapenemase genes were identified, including bla_NDM-1 (10, 38.5%), bla_KPC-2 (9, 34.6%) and bla_IMP (6 bla_IMP-4 and 1 bla_IMP-8; 7, 26.9%). Subsequent multilocus sequence typing identified various sequence types (STs), among which ST43, ST92 and ST145 were relatively common. Different from the clonal dissemination of high-risk carbapenem-resistant K. pneumoniae strains, our research revealed a polyclonal dissemination characteristic of CR K. oxytoca complex in China. S1-nuclease PFGE and Southern blot experiment showed that carbapenemase genes were encoded in plasmids of different sizes. Two bla_NDM-harboring plasmids were subsequently sequenced, and were characterized to be IncX3 and IncC incompatibility groups, respectively. This is the first multi-center study of CR K. oxytoca complex in China, which improved our understanding of the prevalence and antimicrobial resistance characteristics of CR K. oxytoca complex in China.

Original language	English
Article number	1153781
Journal	Frontiers in Microbiology
Volume	14
DOIs	https://doi.org/10.3389/fmicb.2023.1153781
State	Published - 2023

Keywords

Klebsiella oxytoca complex
MLST
carbapenemase gene
plasmid
resistance

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10.3389/fmicb.2023.1153781

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@article{095aac5b34c849019083dae9806b58a5,

title = "Genomic characterization of carbapenem-resistant Klebsiella oxytoca complex in China: a multi-center study",

abstract = "Carbapenem-resistant (CR) Klebsiella oxytoca complex can be associated with high mortality, emerging as a new threat to the public health. K. oxytoca complex is phylogenetically close to K. pneumoniae, one of most common species associated with multidrug resistance in Enterobacterale. The latest research showed that K. oxytoca is a complex of six species. Currently, the epidemiological and genomic characteristics of CR K. oxytoca complex in China are still unclear. Here, we conducted a multi-center study on 25 CR K. oxytoca complex collected from five representative regions in China. These isolates were, respectively, recovered from respiratory tract (12 cases, 48.0\%), abdominal cavity (5 cases, 20.0\%), blood (4 cases, 16.0\%), urine tract (3 cases, 12.0\%) and skin or soft tissue (1 cases, 4.0\%). Among them, 32.0\% (8/25) of patients infected with K. oxytoca complex had a poor prognosis. In this study, three K. oxytoca complex species were detected, namely K. michiganensis, K. oxytoca and K. pasteurii, among which K. michiganensis was the most common. Three carbapenemase genes were identified, including blaNDM-1 (10, 38.5\%), blaKPC-2 (9, 34.6\%) and blaIMP (6 blaIMP-4 and 1 blaIMP-8; 7, 26.9\%). Subsequent multilocus sequence typing identified various sequence types (STs), among which ST43, ST92 and ST145 were relatively common. Different from the clonal dissemination of high-risk carbapenem-resistant K. pneumoniae strains, our research revealed a polyclonal dissemination characteristic of CR K. oxytoca complex in China. S1-nuclease PFGE and Southern blot experiment showed that carbapenemase genes were encoded in plasmids of different sizes. Two blaNDM-harboring plasmids were subsequently sequenced, and were characterized to be IncX3 and IncC incompatibility groups, respectively. This is the first multi-center study of CR K. oxytoca complex in China, which improved our understanding of the prevalence and antimicrobial resistance characteristics of CR K. oxytoca complex in China.",

keywords = "Klebsiella oxytoca complex, MLST, carbapenemase gene, plasmid, resistance",

author = "Weimin Wan and Xiaochun Yang and Hua Yu and Min Wang and Wei Jia and Bin Huang and Fen Qu and Bin Shan and Tang, \{Yi Wei\} and Liang Chen and Hong Du",

note = "Publisher Copyright: Copyright {\textcopyright} 2023 Wan, Yang, Yu, Wang, Jia, Huang, Qu, Shan, Tang, Chen and Du.",

year = "2023",

doi = "10.3389/fmicb.2023.1153781",

language = "English",

volume = "14",

journal = "Frontiers in Microbiology",

issn = "1664-302X",

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TY - JOUR

T1 - Genomic characterization of carbapenem-resistant Klebsiella oxytoca complex in China

T2 - a multi-center study

AU - Wan, Weimin

AU - Yang, Xiaochun

AU - Yu, Hua

AU - Wang, Min

AU - Jia, Wei

AU - Huang, Bin

AU - Qu, Fen

AU - Shan, Bin

AU - Tang, Yi Wei

AU - Chen, Liang

AU - Du, Hong

PY - 2023

Y1 - 2023

N2 - Carbapenem-resistant (CR) Klebsiella oxytoca complex can be associated with high mortality, emerging as a new threat to the public health. K. oxytoca complex is phylogenetically close to K. pneumoniae, one of most common species associated with multidrug resistance in Enterobacterale. The latest research showed that K. oxytoca is a complex of six species. Currently, the epidemiological and genomic characteristics of CR K. oxytoca complex in China are still unclear. Here, we conducted a multi-center study on 25 CR K. oxytoca complex collected from five representative regions in China. These isolates were, respectively, recovered from respiratory tract (12 cases, 48.0%), abdominal cavity (5 cases, 20.0%), blood (4 cases, 16.0%), urine tract (3 cases, 12.0%) and skin or soft tissue (1 cases, 4.0%). Among them, 32.0% (8/25) of patients infected with K. oxytoca complex had a poor prognosis. In this study, three K. oxytoca complex species were detected, namely K. michiganensis, K. oxytoca and K. pasteurii, among which K. michiganensis was the most common. Three carbapenemase genes were identified, including blaNDM-1 (10, 38.5%), blaKPC-2 (9, 34.6%) and blaIMP (6 blaIMP-4 and 1 blaIMP-8; 7, 26.9%). Subsequent multilocus sequence typing identified various sequence types (STs), among which ST43, ST92 and ST145 were relatively common. Different from the clonal dissemination of high-risk carbapenem-resistant K. pneumoniae strains, our research revealed a polyclonal dissemination characteristic of CR K. oxytoca complex in China. S1-nuclease PFGE and Southern blot experiment showed that carbapenemase genes were encoded in plasmids of different sizes. Two blaNDM-harboring plasmids were subsequently sequenced, and were characterized to be IncX3 and IncC incompatibility groups, respectively. This is the first multi-center study of CR K. oxytoca complex in China, which improved our understanding of the prevalence and antimicrobial resistance characteristics of CR K. oxytoca complex in China.

AB - Carbapenem-resistant (CR) Klebsiella oxytoca complex can be associated with high mortality, emerging as a new threat to the public health. K. oxytoca complex is phylogenetically close to K. pneumoniae, one of most common species associated with multidrug resistance in Enterobacterale. The latest research showed that K. oxytoca is a complex of six species. Currently, the epidemiological and genomic characteristics of CR K. oxytoca complex in China are still unclear. Here, we conducted a multi-center study on 25 CR K. oxytoca complex collected from five representative regions in China. These isolates were, respectively, recovered from respiratory tract (12 cases, 48.0%), abdominal cavity (5 cases, 20.0%), blood (4 cases, 16.0%), urine tract (3 cases, 12.0%) and skin or soft tissue (1 cases, 4.0%). Among them, 32.0% (8/25) of patients infected with K. oxytoca complex had a poor prognosis. In this study, three K. oxytoca complex species were detected, namely K. michiganensis, K. oxytoca and K. pasteurii, among which K. michiganensis was the most common. Three carbapenemase genes were identified, including blaNDM-1 (10, 38.5%), blaKPC-2 (9, 34.6%) and blaIMP (6 blaIMP-4 and 1 blaIMP-8; 7, 26.9%). Subsequent multilocus sequence typing identified various sequence types (STs), among which ST43, ST92 and ST145 were relatively common. Different from the clonal dissemination of high-risk carbapenem-resistant K. pneumoniae strains, our research revealed a polyclonal dissemination characteristic of CR K. oxytoca complex in China. S1-nuclease PFGE and Southern blot experiment showed that carbapenemase genes were encoded in plasmids of different sizes. Two blaNDM-harboring plasmids were subsequently sequenced, and were characterized to be IncX3 and IncC incompatibility groups, respectively. This is the first multi-center study of CR K. oxytoca complex in China, which improved our understanding of the prevalence and antimicrobial resistance characteristics of CR K. oxytoca complex in China.

KW - Klebsiella oxytoca complex

KW - MLST

KW - carbapenemase gene

KW - plasmid

KW - resistance

UR - https://www.scopus.com/pages/publications/85165138008

U2 - 10.3389/fmicb.2023.1153781

DO - 10.3389/fmicb.2023.1153781

M3 - Article

AN - SCOPUS:85165138008

SN - 1664-302X

VL - 14

JO - Frontiers in Microbiology

JF - Frontiers in Microbiology

M1 - 1153781

ER -

Genomic characterization of carbapenem-resistant Klebsiella oxytoca complex in China: a multi-center study

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Keywords

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