City-wide wastewater genomic surveillance through the successive emergence of SARS-CoV-2 Alpha and Delta variants.
City-wide wastewater genomic surveillance through the successive emergence of SARS-CoV-2 Alpha and Delta variants.
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DOI：
10.1016/j.watres.2022.119306
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发表时间：
2022-11-01
期刊：
影响因子：
12.8
通讯作者：
Paterson, S.
中科院分区：
文献类型：
--
作者：
Brunner, F. S.;Brown, M. R.;Bassano, I;Denise, H.;Khalifa, M. S.;Wade, M. J.;van Aerle, R.;Kevill, J. L.;Jones, D. L.;Farkas, K.;Jeffries, A. R.;Cairns, E.;Wierzbicki, C.;Paterson, S.
关键词：
SARS-CoV-2的基因组监测为整个流行期间的公共卫生决策提供了关键的证据基础。来自临床病例的测序数据有助于了解疾病传播和新变体的传播。基因组废水监测可以提供重要的，补充信息，提供频率估计的所有变异在人口中流通，没有采样偏差。在这里，我们表明，基因组SARS-CoV-2废水监测可以在2020年11月至2021年6月期间出现Alpha和Delta变体期间检测到城市中心，特别是英国利物浦市内的细微差异。此外，废水和临床测序在新变体上升的估计时间上匹配良好，并且在给定区域中首次检测到新变体可能发生在临床或废水样品中。该研究的主要局限性在于2021年春季感染流行率较低时的样本质量，导致与前一个冬季阿尔法变异的上升相比，Delta变异上升的分辨率较低。废水和临床变异频率之间的对应关系证明了废水监测的可靠性。然而，这两种方法之间首次检测到阿尔法变体的差异突出表明，废水监测也可以捕获缺失的信息，这可能是由于无症状病例或社区较少参与检测方案造成的，正如在全市同时进行的激增检测工作所发现的那样。
Genomic surveillance of SARS-CoV-2 has provided a critical evidence base for public health decisions throughout the pandemic. Sequencing data from clinical cases has helped to understand disease transmission and the spread of novel variants. Genomic wastewater surveillance can offer important, complementary information by providing frequency estimates of all variants circulating in a population without sampling biases. Here we show that genomic SARS-CoV-2 wastewater surveillance can detect fine-scale differences within urban centres, specifically within the city of Liverpool, UK, during the emergence of Alpha and Delta variants between November 2020 and June 2021. Furthermore, wastewater and clinical sequencing match well in the estimated timing of new variant rises and the first detection of a new variant in a given area may occur in either clinical or wastewater samples. The study's main limitation was sample quality when infection prevalence was low in spring 2021, resulting in a lower resolution of the rise of the Delta variant compared to the rise of the Alpha variant in the previous winter. The correspondence between wastewater and clinical variant frequencies demonstrates the reliability of wastewater surveillance. However, discrepancies in the first detection of the Alpha variant between the two approaches highlight that wastewater monitoring can also capture missing information, possibly resulting from asymptomatic cases or communities less engaged with testing programmes, as found by a simultaneous surge testing effort across the city.
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DOI：
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发表时间：
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期刊：
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Edmunds WJ
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2.4
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DOI：
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发表时间：
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期刊：
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影响因子：
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DOI：
10.1126/science.abh2644
发表时间：
2021-05-21
期刊：
Science (New York, N.Y.)
影响因子：
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Sabino EC