Genome Sequencing of Sewage Detects Regionally Prevalent SARS-CoV-2 Variants

mBio, Год журнала: 2021, Номер 12(1)

Опубликована: Янв. 18, 2021

Viral genome sequencing has guided our understanding of the spread and extent genetic diversity SARS-CoV-2 during COVID-19 pandemic. viral genomes are usually sequenced from nasopharyngeal swabs individual patients to track spread.

Язык: Английский

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Implementation of environmental surveillance for SARS-CoV-2 virus to support public health decisions: Opportunities and challenges

Current Opinion in Environmental Science & Health, Год журнала: 2020, Номер 17, С. 49 - 71

Опубликована: Окт. 1, 2020

Язык: Английский

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Wastewater surveillance to infer COVID-19 transmission: A systematic review

The Science of The Total Environment, Год журнала: 2021, Номер 804, С. 150060 - 150060

Опубликована: Сен. 8, 2021

Successful detection of SARS-COV-2 in wastewater suggests the potential utility wastewater-based epidemiology (WBE) for COVID-19 community surveillance. This systematic review aims to assess performance surveillance as early warning system transmission. A search was conducted PubMed, Medline, Embase and WBE Consortium Registry according PRISMA guidelines relevant articles published until 31st July 2021. Relevant data were extracted summarized. Quality each paper assessed using an assessment tool adapted from Bilotta et al.'s environmental science. Of 763 studies identified, 92 distributed across 34 countries shortlisted qualitative synthesis. total 26,197 samples collected between January 2020 May 2021 various locations serving population ranging 321 11,400,000 inhabitants. Overall sample positivity moderate at 29.2% all examined settings with spike (S) gene having maximum rate positive detections nucleocapsid (N) being most targeted. Wastewater signals preceded confirmed cases by up 63 days, 13 reporting before first detected community. At least 50 reported association viral load cases. While cannot replace large-scale diagnostic testing, it can complement clinical providing signs transmission more active public health responses. However, standardized validated methods are required along risk analysis modelling understand dynamics outbreaks.

Язык: Английский

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COVID-19 wastewater epidemiology: a model to estimate infected populations

The Lancet Planetary Health, Год журнала: 2021, Номер 5(12), С. e874 - e881

Опубликована: Дек. 1, 2021

Язык: Английский

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Detection and quantification of SARS-CoV-2 RNA in wastewater and treated effluents: Surveillance of COVID-19 epidemic in the United Arab Emirates

The Science of The Total Environment, Год журнала: 2020, Номер 764, С. 142929 - 142929

Опубликована: Окт. 19, 2020

Язык: Английский

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Wastewater surveillance of SARS-CoV-2 across 40 U.S. states from February to June 2020

Water Research, Год журнала: 2021, Номер 202, С. 117400 - 117400

Опубликована: Июль 2, 2021

Язык: Английский

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High-Throughput Wastewater SARS-CoV-2 Detection Enables Forecasting of Community Infection Dynamics in San Diego County

mSystems, Год журнала: 2021, Номер 6(2)

Опубликована: Март 8, 2021

Wastewater monitoring has a lot of potential for revealing coronavirus disease 2019 (COVID-19) outbreaks before they happen because the virus is found in wastewater people have clinical symptoms. However, application wastewater-based surveillance been limited by long processing times specifically at concentration step.

Язык: Английский

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Co-quantification of crAssphage increases confidence in wastewater-based epidemiology for SARS-CoV-2 in low prevalence areas

Water Research X, Год журнала: 2021, Номер 11, С. 100100 - 100100

Опубликована: Апрель 6, 2021

Wastewater surveillance of SARS-CoV-2 RNA is increasingly being incorporated into public health efforts to respond the COVID-19 pandemic. In order obtain maximum benefit from these efforts, approaches wastewater monitoring need be rapid, sensitive, and relatable relevant epidemiological parameters. this study, we present an ultracentrifugation-based method for concentration use crAssphage, a bacteriophage specific human gut, help account loss during transit in system sample processing. With methods, were able detect, sometimes quantify, 20 mL samples within as little 4.5 hours. Using known concentrations bovine coronavirus deactivated SARS-CoV-2, estimate recovery rates approximately 7-12% viral using our method. Results 24 sewersheds across Upstate New York spring summer 2020 suggested that stronger signals may indicative greater incidence represented service area one week advance. was quantifiable some areas with daily positives tests less than 1 per 10,000 people or when weekly positive test sewershed low 1.7%. crAssphage DNA significantly lower periods high flow almost all studied. After accounting rate population served, levels capita estimated about 1.35 × 1011 2.42 108 genome copies day RNA, respectively. A negative relationship between size also observed likely reflecting degradation over long times. Our results reinforce potential used tool supplement understanding infectious disease transmission obtained by traditional testing highlight co-detection improve interpretations data.

Язык: Английский

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Making waves: Defining the lead time of wastewater-based epidemiology for COVID-19

Water Research, Год журнала: 2021, Номер 202, С. 117433 - 117433

Опубликована: Июль 15, 2021

Individuals infected with SARS-CoV-2, the virus that causes COVID-19, may shed in stool before developing symptoms, suggesting measurements of SARS-CoV-2 concentrations wastewater could be a "leading indicator" COVID-19 prevalence. Multiple studies have corroborated leading indicator concept by showing correlation between and case counts is maximized when are lagged. However, meaning will depend on specific application wastewater-based epidemiology, analysis not relevant for all applications. In fact, quantification epidemiological, biological, health systems factors. Thus, there no single "lead time" monitoring. To illustrate this complexity, we enumerate three different applications epidemiology COVID-19: qualitative "early warning" system; an independent, quantitative estimate disease prevalence; alert bursts incidence. The has definitions utility each application.

Язык: Английский

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Metrics to relate COVID-19 wastewater data to clinical testing dynamics

Water Research, Год журнала: 2022, Номер 212, С. 118070 - 118070

Опубликована: Янв. 14, 2022

Wastewater surveillance has emerged as a useful tool in the public health response to COVID-19 pandemic. While wastewater been applied at various scales monitor population-level dynamics, there is need for quantitative metrics interpret data context of trends. 24-hour composite samples were collected from March 2020 through May 2021 Massachusetts treatment plant and SARS-CoV-2 RNA concentrations measured using RT-qPCR. The relationship between copy numbers gene fragments clinical cases deaths varies over time. We demonstrate utility three new changes epidemiology: (1) ratio (WC ratio), (2) time lag reporting, (3) transfer function case curves. WC increases after key events, providing insight into balance disease spread response. Time analysis showed that preceded clinically reported first wave pandemic but did not serve leading indicator second wave, likely due increased testing capacity, which allows more timely detection reporting. These could help further integrate future pandemics.

Язык: Английский

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