结合个人和废水全基因组测序的分析,改善了SARS-CoV-2的监测
Evan P Troendle1, Andrew J Lee2, Marina I Reyne2
1Wellcome-Wolfson Institute for Experimental Medicine, School of Medicine, Dentistry and Biomedical Sciences, Queen's University Belfast (QUB), Belfast, Northern Ireland, United Kingdom.
Water research
|June 14, 2025
概括
整合废水和个人全基因组测序 (WGS) 提供了更全面的SARS-CoV-2基因组监测. 这种综合方法提高了对预测变异组合和传播的公众健康的信心.
科学领域:
- 公共卫生 微生物学
- 基因组流行病学 基因组流行病学
- 环境监督环境监督
背景情况:
- 有效的病原体监测对于公共卫生决策至关重要.
- 个人和废水的全基因组测序 (WGS) 是监测SARS-CoV-2的既定方法.
- 结合这两种监测方法的国家级基因组监测的互补潜力尚未得到充分探索.
研究的目的:
- 评估废水和个人WGS对SARS-CoV-2基因组监测的独特和综合贡献.
- 评估基于废水的测序 (WBS) 和单个WGS之间的变异检测的一致性和互补性.
- 使用这两种监测方法推断变种检测时间和地理空间传播的差异.
主要方法:
- 在北爱尔兰 (4000多个WW样本和23000个单个样本上进行了SARS-CoV-2WGS (2021-2023年).
- 使用Freyja分析变体组合,通过时间序列分析,相关性和波动性测量比较WW和个人数据.
- 通过突变分类,重叠分析和时间曲线移动来评估检测和传播的滞后/领先的量化互补性.
主要成果:
- 证明了WW和个别变体组成之间的强烈一致性 (平均平均绝对误差[MAE] = 6.2%).
- MAE与测序速率相反相关,并且随着流通变异的增加而增加,强调在波动时期的测序增加.
- 在WBS和个体测序之间发现了变体传播的一致模式,为变体趋势和地理空间分布提供了互补的见解.
结论:
- 个人和废水WGS数据的整合提供了更全面的SARS-CoV-2基因组监测.
- 结合方法提高了对变种组成和传播的预测的信心.
- 污水处理厂的大小不是数据与国家个别测序计划一致的可靠指标.
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