前哨站点的废水 Tiling 扩增子测序揭示了 SARS-CoV-2 变异株流行的纵向动态变化

IF 7.2 2区 环境科学与生态学 Q1 ENGINEERING, ENVIRONMENTAL
Yu Wang , Gaofeng Ni , Wei Tian , Haofei Wang , Jiaying Li , Phong Thai , Phil M. Choi , Greg Jackson , Shihu Hu , Bicheng Yang , Jianhua Guo
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引用次数: 0

摘要

SARS-CoV-2 的不断演变是一个重大问题,特别是随着临床测序工作的减少,这阻碍了公共卫生部门为新变种的出现和潜在的 COVID-19 爆发做好准备的能力。有人建议将基于废水的流行病学 (WBE) 作为一种监测计划,用于检测和监测在社区传播的 SARS-CoV-2 变种。然而,在评估哨点废水收集对监测疾病流行和变异体动态的有效性方面,研究还很有限,尤其是在推断更大范围(如州/省一级)的流行模式方面。本研究利用基于多重叠层扩增子测序(ATOPlex)技术,跟踪从澳大利亚昆士兰州各城市收集的废水中关注变异体(VOC)的纵向动态,时间跨度为 2020 年至 2022 年。我们证明,通过 ATOPlex 测定的废水流行病学与每日确诊病例数呈现出强烈而一致的相关性。废水中观察到的挥发性有机化合物动态与临床测序报告的动态特征密切相关。废水测序有可能为新出现的变异体提供早期预警信息。这些研究结果表明,定点监测点的 WBE 与灵敏的测序方法相结合,可提供一种可靠的长期疾病监测策略。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

Wastewater tiling amplicon sequencing in sentinel sites reveals longitudinal dynamics of SARS-CoV-2 variants prevalence

Wastewater tiling amplicon sequencing in sentinel sites reveals longitudinal dynamics of SARS-CoV-2 variants prevalence

The ongoing evolution of SARS-CoV-2 is a significant concern, especially with the decrease in clinical sequencing efforts, which impedes the ability of public health sectors to prepare for the emergence of new variants and potential COVID-19 outbreaks. Wastewater-based epidemiology (WBE) has been proposed as a surveillance program to detect and monitor the SARS-CoV-2 variants being transmitted in communities. However, research is limited in evaluating the effectiveness of wastewater collection at sentinel sites for monitoring disease prevalence and variant dynamics, especially in terms of inferring the epidemic patterns on a broader scale, such as at the state/province level. This study utilized a multiplexed tiling amplicon-based sequencing (ATOPlex) to track the longitudinal dynamics of variant of concern (VOC) in wastewater collected from municipalities in Queensland, Australia, spanning from 2020 to 2022. We demonstrated that wastewater epidemiology measured by ATOPlex exhibited a strong and consistent correlation with the number of daily confirmed cases. The VOC dynamics observed in wastewater closely aligned with the dynamic profile reported by clinical sequencing. Wastewater sequencing has the potential to provide early warning information for emerging variants. These findings suggest that WBE at sentinel sites, coupled with sensitive sequencing methods, provides a reliable and long-term disease surveillance strategy.

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来源期刊
Water Research X
Water Research X Environmental Science-Water Science and Technology
CiteScore
12.30
自引率
1.30%
发文量
19
期刊介绍: Water Research X is a sister journal of Water Research, which follows a Gold Open Access model. It focuses on publishing concise, letter-style research papers, visionary perspectives and editorials, as well as mini-reviews on emerging topics. The Journal invites contributions from researchers worldwide on various aspects of the science and technology related to the human impact on the water cycle, water quality, and its global management.
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