使用下一代测序方法进行Mpox病毒谱系分析和技术开发
Farruk Kabir1, Erin Plaisance1, Alexandra Portman1
1Dallas County Health and Human Services, Dallas, Texas, USA.
The Journal of infectious diseases
|November 16, 2023
概括
开发了下一代测序 (NGS) 工作流程来分析mopox (麻疹) 病毒. 该研究在2022年mopox爆发期间确定了西非类IIb和主导血统B.1.2.
科学领域:
- 基因组学就是基因组学.
- 病毒学 病毒学
- 公共卫生 公共卫生
背景情况:
- 爆发的mopox (麻疹) 病毒使得基因组分析技术的快速发展成为必要.
- 达拉斯县卫生局 (DCHHS) 试图加强mopox病毒类和血统分析.
研究的目的:
- 建立和验证下一代测序 (NGS) 工作流程,用于mopox病毒监测.
- 简化MOPOX病毒基因组和基因谱的分析.
主要方法:
- 适应Illumina的COVIDSeq试验,使用自定义的原始池进行mopox DNA测序.
- 利用了包括BaseSpace,NextClade和CLC Workbench在内的综合生物信息管道进行数据分析和质量控制.
- 测序了171个mopox样本,评估了读数质量,深度和覆盖范围.
主要成果:
- 在2022年7月至10月期间确认西非类IIb为主要的mopox类.
- 在测序的mopox基因组中,确定了B.1.2血统为主导变异 (77.7%),这表明美国的分布.
- 将病毒序列上传到GISAID EpiPox以进行全球数据共享.
结论:
- 开发并验证了NGS工作流程,用于精确的mopox病毒类和血统检测.
- 加强基因组监测能力,以应对MPOX疫情的公共卫生反应.
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