核心基因组多位置测序类型管道的比较,用于常见细菌病原体的医院爆发检测
Heather L Glasgow1, Ying Zheng2, Jessica N Brazelton1
1Pathology Department, St. Jude Children's Research Hospital, , Memphis, Tennessee, USA.
Journal of clinical microbiology
|August 27, 2025
概括
三个核心基因组多部位序列类型 (cgMLST) 软件管道在识别疫情监测相关细菌菌株方面显示出高度一致性. 商业工具在临床环境中提供可比的微生物相关性分析结果.
科学领域:
- 微生物学
- 基因组学
- 传染病流行病学
背景情况:
- 全基因组测序 (WGS) 对传染病爆发的调查和监测至关重要.
- 核心基因组多部位序列类型 (cgMLST) 提供高分辨率菌株比较和纵向监测功能.
- 商业cgMLST管道旨在为临床实验室标准化微生物相关性分析.
研究的目的:
- 为了比较三个商业cgMLST软件管道的性能:Ridom SeqSphere+,1928诊断和Ares遗传学ARESdb.
- 评估这些管道在常见病原体中识别相关细菌菌株的一致性.
- 评估这些工具对常规感染控制和疫情监测的有用性.
主要方法:
- 对8种常见病原体的255种细菌分离物的比较分析.
- 使用3个商业cgMLST软件管道进行基因组相关性分析.
- 根据已确定的值,评估分类 (相关) 和非相关 (非相关) 隔离物对的一致性.
主要成果:
- 在管道之间观察到很高的整体一致性 (1928年,ARESdb与SeqSphere+的99.5%).
- 与SeqSphere+和1928相比,ARESdb对聚类隔离物对的基因距离显著更大.
- 尽管基距离有差异,但所有管道都使用建议的菌株相关性聚类值证明了一致性.
结论:
- 商业cgMLST管道为细菌菌株相关性分析提供了可比的结果,有助于疫情监测.
- 这些工具可以快速进行常规的基因组分析以控制感染,而不需要广泛的生物信息学专业知识.
- 该研究提供了一个评估和比较不同cgMLST分析管道的模型.
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