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快速的抗微生物耐药性病原体的全基因组特征使用长读序列测序来识别潜在的医疗保健传播

Chin-Ting Wu¹, William C Shropshire², Micah M Bhatti³

¹Graduate Program in Diagnostic Genetics and Genomics, School of Health Professions, MD Anderson Cancer Center, University of Texas, Houston, TX, USA.

Infection control and hospital epidemiology

|December 27, 2024

概括

这项研究表明,牛津纳米孔技术 (ONT) 全基因组测序 (WGS) 提供了一种快速,准确,低资源的方法来检测与医疗相关的感染 (HAI) 病原体传播,帮助预防和控制感染 (IPC).

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) 对于在医疗保健环境中识别病原体传播至关重要.
目前的短读WGS方法是劳动密集型和耗时的.
长读测序的进步为更快,更容易获得的病原体分析提供了潜力.

研究的目的:

使用牛津纳米孔技术 (ONT) 开发和验证一种低资源,快速的全基因组测序 (WGS) 管道,用于医疗相关感染 (HAI) 病原体.
与传统方法相比,评估ONT管道的准确性和周转时间.
评估ONT管道对及时感染预防和控制 (IPC) 干预措施的实用性.

主要方法:

未来的全基因组测序 (WGS) 细菌分离物从使用ONT MinION平台的医疗保健传播风险的患者.
通过Ridom SeqSphere+和MINTyper使用核心基因组多位序列类型和单核酸多态性 (SNP) 分析分析潜在的传播.
将ONT管道精度与Illumina测序黄金标准进行比较.

主要成果:

一名操作人员在六个月内成功对216名患者的242个细菌单元进行了测序.
与Illumina相比,ONT管道实现了Q60的平均身份得分,即使在覆盖率低 (40×) 时也是如此.
平均分析时间为2天,能够快速检测到五个潜在的传播群 (8.7%的菌株),其中>70%与患者的传播途径有关.

结论:

一个独立的牛津纳米孔技术 (ONT) 管道提供了快速和准确的检测可能传播的医疗保健相关感染 (HAI) 病原体.
这种资源较少的方法与流行病学数据保持一致,并具有支持感染预防和控制 (IPC) 努力的巨大潜力.
开发的ONT方法为医疗机构的及时病原体监测提供了一个可行的替代方案.

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