A new approach for establishing multilocus sequence typing scheme: Staphylococcus capitis as an example

Reliable and efficient typing methods for Staphylococcus capitis, an opportunistic pathogen of growing clinical and epidemiological concern, are urgently needed to support microbial epidemiological studies. In the study, we present a novel workflow for developing a multilocus sequence typing (MLST) scheme tailored to S. capitis. Core genome analysis of 603 high-quality S. capitis genomes revealed 2,065 core genes. A hierarchical filtering strategy, including gene, fragment, and combination filters, was applied to select loci that balance discriminatory power and cluster specificity. The final MLST scheme comprised fragments from seven genes: mntC, phoA, atpB_2, hisS, rluB, carB, and clpP. Using this approach, we assigned 39 sequence types (STs) and defined five clonal complexes. The MLST typing results were highly concordant with phylogenetic analysis and demonstrated considerable discriminatory power. Notably, the globally prevalent NRCS-A clone and the linezolid-resistant L clone were designated as ST1 and ST6, respectively. Overall, we developed a reliable, high-resolution MLST scheme for S. capitis that enables accurate characterization of its population structure and facilitates monitoring of multidrug-resistant lineages.

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Publication Details

Journal
BMC Microbiology
Published
2025-10-09
DOI
https://doi.org/10.1186/s12866-025-04339-z
Primary Topic
Antimicrobial Resistance in Staphylococcus
Type
article
Field-Weighted Citation Impact
0.00

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article

A new approach for establishing multilocus sequence typing scheme: Staphylococcus capitis as an example

Yan Chen, Huangdu Hu, Zhengan Wang, Xueqing Wu et al.
BMC Microbiology
Antimicrobial Resistance in Staphylococcus
article

A new approach for establishing multilocus sequence typing scheme: Staphylococcus capitis as an example

Yan Chen, Huangdu Hu, Zhengan Wang, Xueqing Wu, Yunsong Yu, Hemu Zhuang, Feiteng Zhu, Junxin Zhou, Shengnan Jiang, Qiucheng Shi, Lingfang Di, Dandan Wu, Yiyi Chen, Haiping Wang, Feng Zhao, Shiqi Cai, Lu Sun, Junxiong Zhang, Mengzhen Chen, Chao Gu
article en

Abstract

Reliable and efficient typing methods for Staphylococcus capitis, an opportunistic pathogen of growing clinical and epidemiological concern, are urgently needed to support microbial epidemiological studies. In the study, we present a novel workflow for developing a multilocus sequence typing (MLST) scheme tailored to S. capitis. Core genome analysis of 603 high-quality S. capitis genomes revealed 2,065 core genes. A hierarchical filtering strategy, including gene, fragment, and combination filters, was applied to select loci that balance discriminatory power and cluster specificity. The final MLST scheme comprised fragments from seven genes: mntC, phoA, atpB_2, hisS, rluB, carB, and clpP. Using this approach, we assigned 39 sequence types (STs) and defined five clonal complexes. The MLST typing results were highly concordant with phylogenetic analysis and demonstrated considerable discriminatory power. Notably, the globally prevalent NRCS-A clone and the linezolid-resistant L clone were designated as ST1 and ST6, respectively. Overall, we developed a reliable, high-resolution MLST scheme for S. capitis that enables accurate characterization of its population structure and facilitates monitoring of multidrug-resistant lineages.

BMC MicrobiologyVol. 25(1)
Sir Run Run Shaw Hospital (CN), Yinchuan First People's Hospital (CN), Hangzhou Center for Disease Control and Prevention (CN), Zhejiang Center for Disease Control and Prevention (CN), First Hospital of Jiaxing (CN), Second Affiliated Hospital of Zhejiang University (CN), Zhejiang University of Technology (CN), Zhejiang University (CN)
University of Oxford
Openalex Percentile: Top 67%
Antimicrobial Resistance in Staphylococcus
DOIOpen Access PDFOpenAlex
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