优化用于废水 SARS-CoV-2 基因组监测的初级泥处理方法
Md Pervez Kabir1, Julio Plaza-Diaz2,3, Élisabeth Mercier1
1Department of Civil Engineering, University of Ottawa, Ottawa, Ontario K1N 1A2, Canada.
概括
使用初级污泥的废水基因组监测 (WGS) 为SARS-CoV-2基因组测序提供了一个强大的方法. 这种方法克服了废水方面的挑战,提供了准确的公共卫生见解.
科学领域:
- 环境微生物学环境微生物学
- 基因组流行病学基因组流行病学
- 公共卫生监督是对公共卫生的监督.
背景情况:
- 针对SARS-CoV-2的废水基因组监测 (WGS) 面临样本退化和低病毒度等挑战.
- 影响性废水通常被使用,但初级污泥提供了更缩的遗传物质来源.
- 初级污泥可能导致序列库失效,需要开发方法.
研究的目的:
- 开发和验证使用初级污泥进行强大的SARS-CoV-2基因组测序方法.
- 为了比较初级污泥与流入废水对WGS的有效性.
- 评估初级污泥对追踪SARS-CoV-2血统和变种的有用性.
主要方法:
- 在加拿大太华收集了30个平行流入的废水和初级污泥样本,分别在三个时间段内进行.
- 应用了一种基于初级污泥的SARS-CoV-2基因组测序协议.
- 分析了测序数据,以恢复近乎完整的基因组,并识别流行和罕见的单核酸变体 (SNV).
主要成果:
- 开发的方法始终从初级污泥和流入废水中恢复近乎完整 (≥90%) 的SARS-CoV-2基因组.
- 在两个矩阵之间观察到相同的流行血统和SNV配置文件 (p > 0.05).
- 在两种样本类型中检测到相似数量的罕见SNV (p > 0.05).
结论:
- 初级污泥是SARS-CoV-2 WGS的可行和强大的基质,克服了以前的限制.
- 这种方法可以对缩的遗传物质进行测序,增强公共卫生监测能力.
- 该方法为超越COVID-19流行病的传染病预测提供了宝贵的见解.
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