Development of a novel core genome MLST scheme for tracing multidrug resistant Staphylococcus capitis

Zhengan Wang; Chao Gu; Lu Sun; Feng Zhao; Ying Fu; Lingfang Di; Junxiong Zhang; Hemu Zhuang; Shengnan Jiang; Haiping Wang; Feiteng Zhu; Yiyi Chen; Mengzhen Chen; Xia Ling; Yan Chen; Yunsong Yu

doi:10.1038/s41467-022-31908-x

Development of a novel core genome MLST scheme for tracing multidrug resistant Staphylococcus capitis

Nat Commun. 2022 Jul 22;13(1):4254. doi: 10.1038/s41467-022-31908-x.

Authors

Zhengan Wang^#^{1

2

3}, Chao Gu^#^{1

2

3

4}, Lu Sun^#^{1

2

3}, Feng Zhao^{5

6}, Ying Fu^{2

3

5

6}, Lingfang Di^{2

3

7}, Junxiong Zhang^{2

3

8}, Hemu Zhuang^{1

2

3}, Shengnan Jiang^{1

2

3}, Haiping Wang^{1

2

3}, Feiteng Zhu^{1

2

3}, Yiyi Chen^{1

2

3}, Mengzhen Chen^{1

2

3}, Xia Ling^{1

2

3

9}, Yan Chen^{10

11

12}, Yunsong Yu^{13

14

15}

Affiliations

¹ Department of Infectious Diseases, Sir Run Run Shaw Hospital, Zhejiang University School of Medicine, Hangzhou, China.
² Key Laboratory of Microbial Technology and Bioinformatics of Zhejiang Province, Hangzhou, Zhejiang Province, China.
³ Regional Medical Center for National Institute of Respiratory Diseases, Sir Run Run Shaw Hospital, Zhejiang University School of Medicine, Hangzhou, China.
⁴ Department of Respiratory Medicine, The First Hospital of Jiaxing (the Affiliated Hospital of Jiaxing University), 1882 South Zhonghuan Road, Jiaxing, Zhejiang Province, China.
⁵ Department of Clinical Laboratory, Sir Run Run Shaw Hospital, Zhejiang University School of Medicine, Hangzhou, Zhejiang Province, China.
⁶ Key Laboratory of Precision Medicine in Diagnosis and Monitoring Research of Zhejiang Province, Hangzhou, Zhejiang Province, China.
⁷ Department of Clinical Laboratory, Tongxiang First people's hospital, Tongxiang, Zhejiang Province, China.
⁸ Department of Clinical Laboratory, Linping Traditional Chinese Medicine Hospital, Hangzhou, China.
⁹ Blood center of Zhejiang province, Hangzhou, Zhejiang Province, China.
¹⁰ Department of Infectious Diseases, Sir Run Run Shaw Hospital, Zhejiang University School of Medicine, Hangzhou, China. chenyan@zju.edu.cn.
¹¹ Key Laboratory of Microbial Technology and Bioinformatics of Zhejiang Province, Hangzhou, Zhejiang Province, China. chenyan@zju.edu.cn.
¹² Regional Medical Center for National Institute of Respiratory Diseases, Sir Run Run Shaw Hospital, Zhejiang University School of Medicine, Hangzhou, China. chenyan@zju.edu.cn.
¹³ Department of Infectious Diseases, Sir Run Run Shaw Hospital, Zhejiang University School of Medicine, Hangzhou, China. yvys119@zju.edu.cn.
¹⁴ Key Laboratory of Microbial Technology and Bioinformatics of Zhejiang Province, Hangzhou, Zhejiang Province, China. yvys119@zju.edu.cn.
¹⁵ Regional Medical Center for National Institute of Respiratory Diseases, Sir Run Run Shaw Hospital, Zhejiang University School of Medicine, Hangzhou, China. yvys119@zju.edu.cn.

^# Contributed equally.

Abstract

Staphylococcus capitis, which causes bloodstream infections in neonatal intensive care units, is a common cause of healthcare-associated infections. Thus, a standardized high-resolution typing method to document the transmission and dissemination of multidrug-resistant S. capitis isolates is required. We aimed to establish a core genome multilocus sequence typing (cgMLST) scheme to surveil S. capitis. The cgMLST scheme was defined based on primary and validation genome sets and tested with outbreaks of linezolid-resistant isolates and a validation set. Phylogenetic analysis was performed to investigate the population structure and compare it with the result of cgMLST analysis. The S. capitis population consists of 1 dominant, NRCS-A, and 4 less common clones. In this work, a multidrug-resistant clone (L clone) with linezolid resistance is identified. With the features of type III SCCmec and multiple copies of mutations of G2576T and C2104T in the 23S rRNA, the L clone has been spreading silently across China.

MeSH terms

Anti-Bacterial Agents / pharmacology
Anti-Bacterial Agents / therapeutic use
Humans
Infant, Newborn
Linezolid / pharmacology
Linezolid / therapeutic use
Methicillin-Resistant Staphylococcus aureus* / genetics
Multilocus Sequence Typing / methods
Phylogeny
Staphylococcal Infections* / drug therapy
Staphylococcal Infections* / epidemiology
Staphylococcus capitis* / genetics

Substances

Anti-Bacterial Agents
Linezolid