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Updated: Jun 14, 2025
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高风险病原体的快速全基因组表征使用长读测序来识别潜在的医疗保健传播
medRxiv : the preprint server for health sciences
|September 4, 2024
概括
这项研究引入了一种快速,低资源的全基因组测序 (WGS) 方法,使用牛津纳米孔技术 (ONT) 快速识别医疗相关感染 (HAI) 病原体传播,帮助感染控制工作.
科学领域:
- 微生物学 微生物学
- 基因组学就是基因组学.
- 传染病流行病学 传染病流行病学
背景情况:
- 全基因组测序 (WGS) 对于识别医疗相关感染 (HAI) 病原体传播至关重要.
- 目前的短读Illumina WGS方法是劳动和时间密集型的,阻碍了及时的感染预防和控制 (IPC).
- 长期以来,牛津纳米孔技术 (ONT) 的进步为更快,更容易获得的WGS提供了潜力.
研究的目的:
- 开发和验证一种低资源利用方法,使用ONT测序进行基于WGS的HAI病原体的准确比较.
- 为了使WGS分析能够在适合有效IPC干预的时间框架内进行.
主要方法:
- 使用ONT MinION测序器和多拉多基调的抗微生物耐药病原体的未来WGS.
- 使用Ridom SeqSphere+和MINTyper进行核心基因组分析,评估潜在的传播.
- 将ONT管道精度与基于Illumina的WGS数据进行比较.
主要成果:
- 一个操作员在六个月内处理了216名患者的242个细菌分离物.
- 在ONT管道实现了Q分60的,与Illumina相比,覆盖率低 (40X).
- 从DNA提取到遗传分析的平均周转时间为2天,确定了5个传播集群.
结论:
- 一个独立的ONT管道快速准确地检测可能传播的HAI病原体,与流行病学数据相关联.
- 这种低资源的方法可以提高HAI传播检测和预防策略的效率.
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