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一个核心基因组多部位序列类型化方案,用于检测遗传相关的Streptococcus pyogenes集群

Myrthe M A Toorop¹, Margriet E M Kraakman¹, Irene V Hoogendijk¹

¹Department of Medical Microbiology, Leiden University Medical Center , Leiden, the Netherlands.

Journal of clinical microbiology

|October 10, 2023

概括

一个新的核心基因组多部位序列排型 (cgMLST) 方案为Streptococcus pyogenes提供了高分辨率排型,与传统方法相比,改善了疫情检测和监测.

科学领域:

微生物学微生物学
遗传学遗传学是一个
流行病学流行病学

背景情况:

侵袭性Streptococcus pyogenes感染在欧洲正在增加.
对于S. pyogenes而言,传统的分子分类方法缺乏足够的区分能力来进行疫情调查.
需要高分辨率的排版来评估遗传相关性和跟踪S. pyogenes爆发.

研究的目的:

开发和评估一种新型的高分辨率核心基因组多部位序列排型 (cgMLST) 方案,用于S. pyogenes.
为了比较新的cgMLST方案的歧视力与MLST和emm-typing等传统方法.
使用定义的疫情数据,为cgMLST计划建立一个集群值.

主要方法:

使用Ridom SeqSphere+软件设计了一个cgMLST方案.
该计划通过英国9次S. pyogenes疫情的公开数据进行了验证.
在荷兰,cgMLST计划适用于疑似爆发的隔离物和监视隔离物.
用MLST和emm-typing进行比较分析.

主要成果:

根据疫情数据,在1095个位点中提出了<=5个基差异的集群值.
从疑似爆发的23个分离物中,有7个 (30%) 被确定为潜在的集群 (<=2个基差异).
该cgMLST方案显示了比传统的打字方法更高的区分能力.

结论:

开发的cgMLST方案为S. pyogenes提供了高分辨率的类型化.
这种方法增强了对潜在疫情爆发集群的检测,并有助于监测工作.
该计划促进实验室之间共享测序数据,以改善公共卫生反应.

关键词:

国家储备系统 (NGS)这是一种Streptococcus pyogenes.cgMLST 的意思核心基因组多部位序列的类型化.一组A 链球菌这是下一代测序.

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