使用废水RBD amplicon测序揭示SARS-CoV-2变种出现和演变的模式
Xingwen Chen1, John Balliew2, Cici X Bauer1
1School of Public Health, University of Texas Health Science Center at Houston, TX, USA; Texas Epidemic Public Health Institute (TEPHI), UTHealth Houston, Houston, TX, USA.
The Journal of infection
|September 28, 2024
概括
废水测序有效追踪SARS-CoV-2变种,比临床方法更早地检测到它们. 这种方法通过揭示变异演变和社区动态来加强公共卫生监测,特别是在低传播时期.
科学领域:
- 病毒学 病毒学
- 流行病学 流行病学
- 环境科学 环境科学
背景情况:
- 由于SARS-CoV-2的快速演变,需要严格的监测.
- 临床测序在捕捉人口水平变异动态方面存在局限性.
- 废水监测提供了一种补充方法来监测病毒循环.
研究的目的:
- 为了监测SARS-CoV-2变种社区的动态和演变.
- 为了利用废水样本的受体结合域 (RBD) 子测序.
- 为了加强监测,将废水测序与临床基因组数据进行比较.
主要方法:
- 来自德克萨斯州埃尔帕索的废水测序,超过17个月.
- 废水测序数据与临床基因组测序的比较.
- 生物多样性分析以揭示变体动态和演变.
主要成果:
- 确定了91种SARS-CoV-2变种,观察了从BA.2到XBB.1.5.5的过渡.
- 废水测序提供了早期的变种检测,并确定了未报告的疫情.
- 观察到变种多样性的季节性变化,在冬季和爆发的滞后阶段,变种多样性更高.
结论:
- 使用RBD amplicon测序的废水监测对于跟踪病毒演变是有效的.
- 低传播时间对于快速突变和变种的出现至关重要.
- 这种综合方法提高了对新兴变种的公共卫生准备.
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