Minimizing errors in RT-PCR detection and quantification of SARS-CoV-2 RNA for wastewater surveillance

The Science of The Total Environment, Год журнала: 2021, Номер 805, С. 149877 - 149877

Опубликована: Авг. 25, 2021

Wastewater surveillance for pathogens using reverse transcription-polymerase chain reaction (RT-PCR) is an effective and resource-efficient tool gathering community-level public health information, including the incidence of coronavirus disease-19 (COVID-19). Surveillance Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2) in wastewater can potentially provide early warning signal COVID-19 infections a community. The capacity world's environmental microbiology virology laboratories SARS-CoV-2 RNA characterization increasing rapidly. However, there are no standardized protocols or harmonized quality assurance control (QA/QC) procedures surveillance. This paper technical review factors that cause false-positive false-negative errors wastewater, culminating recommended strategies be implemented to identify mitigate some these errors. Recommendations include stringent QA/QC measures, representative sampling approaches, virus concentration efficient extraction, PCR inhibition assessment, inclusion sample processing controls, considerations RT-PCR assay selection data interpretation. Clear interpretation guidelines (e.g., determination positive negative samples) critical, particularly when low. Corrective confirmatory actions must place inconclusive results diverging from current trends initial onset reemergence community). It also prudent perform interlaboratory comparisons ensure results' reliability interpretability prospective retrospective analyses. this aim improve detection applications. A silver lining pandemic efficacy continues demonstrated during global crisis. In future, should play important role range other communicable diseases.

Язык: Английский

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Understanding and managing uncertainty and variability for wastewater monitoring beyond the pandemic: Lessons learned from the United Kingdom national COVID-19 surveillance programmes

Journal of Hazardous Materials, Год журнала: 2021, Номер 424, С. 127456 - 127456

Опубликована: Окт. 9, 2021

The COVID-19 pandemic has put unprecedented pressure on public health resources around the world. From adversity, opportunities have arisen to measure state and dynamics of human disease at a scale not seen before. In United Kingdom, evidence that wastewater could be used monitor SARS-CoV-2 virus prompted development National surveillance programmes. pace this work proven unique in monitoring national level, demonstrating importance wastewater-based epidemiology (WBE) for protection. Beyond COVID-19, it can provide additional value informing range biological chemical markers health. A discussion measurement uncertainty associated with wastewater, focusing lessons-learned from UK programmes is presented, showing sources impacting quality interpretation data decision-making, are varied complex. While some factors remain poorly understood, we present approaches taken by manage mitigate more tractable uncertainty. This provides platform integrate management into WBE activities as part global One Health initiatives beyond pandemic.

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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Wastewater-Based Estimation of the Effective Reproductive Number of SARS-CoV-2

Environmental Health Perspectives, Год журнала: 2022, Номер 130(5)

Опубликована: Май 1, 2022

Background: The effective reproductive number, Re, is a critical indicator to monitor disease dynamics, inform regional and national policies, estimate the effectiveness of interventions. It describes average number new infections caused by single infectious person through time. To date, Re estimates are based on clinical data such as observed cases, hospitalizations, and/or deaths. These temporarily biased when testing or reporting strategies change. Objectives: We show that dynamics severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RNA in wastewater can be used near real time, independent without associated biases. Methods: collected longitudinal measurements SARS-CoV-2 Zurich, Switzerland, San Jose, California, USA. combined this with information temporal shedding (the load distribution) time series proportional daily COVID-19 infection incidence. estimated wastewater-based from Results: method worked robustly two different countries matrices. resulting were similar case report deaths among each other. further provide details effect sampling frequency distribution ability infer Re. Discussion: our knowledge, first has been wastewater. This provides low-cost, rapid, way monitoring during ongoing pandemic applicable future epidemiology targeting other pathogens. https://doi.org/10.1289/EHP10050

Язык: Английский

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Making waves: Plausible lead time for wastewater based epidemiology as an early warning system for COVID-19

Water Research, Год журнала: 2021, Номер 202, С. 117438 - 117438

Опубликована: Июль 12, 2021

Язык: Английский

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Comparison of RT-qPCR and RT-dPCR Platforms for the Trace Detection of SARS-CoV-2 RNA in Wastewater

ACS ES&T Water, Год журнала: 2022, Номер 2(11), С. 1871 - 1880

Опубликована: Янв. 28, 2022

We compared reverse transcription-quantitative polymerase chain reaction (RT-qPCR) and RT digital PCR (RT-dPCR) platforms for the trace detection of SARS-CoV-2 RNA in low-prevalence COVID-19 locations Queensland, Australia, using CDC N1 N2 assays. The assay limit (ALOD), inhibition rates, performance characteristics each assay, along with positivity rates RT-qPCR RT-dPCR platforms, were evaluated by seeding known concentrations exogenous wastewater. ALODs approximately 2-5 times lower than those RT-qPCR. During sample processing, endogenous (n = 96) 24) wastewater samples separated, was extracted from both eluates pellets (solids). platform demonstrated a rate significantly greater that assays eluate (N1, p 0.0029; N2, 0.0003) pellet 0.0015; 0.0067) samples. results also indicated analysis wastewater, including may further increase sensitivity RT-dPCR.

Язык: Английский

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Wastewater analysis can be a powerful public health tool—if it’s done sensibly

Proceedings of the National Academy of Sciences, Год журнала: 2022, Номер 119(6)

Опубликована: Фев. 3, 2022

The coronavirus disease 2019 (COVID-19) pandemic sparked an explosion of interest in wastewater-based epidemiology (WBE; also known as wastewater monitoring or surveillance). Much has been said, the scientific literature and popular press alike, about public health value tracking severe acute respiratory syndrome 2 (SARS-CoV-2) wastewater. Emergence spread omicron variant recently pushed WBE for COVID-19 management back into headlines. Unfortunately, coverage potential is rarely balanced by a practical discussion limitations tradeoffs, especially when it comes to issues beyond technical challenges encountered lab. Sometimes makes sense way monitor outbreaks other threats, sometimes constraints argue spending scarce resources elsewhere. We grapple with such frequently while managing program Healthy Davis Together (HDT), multi-pronged pandemic-response initiative Davis, CA. Since launching September 2020, grown include in-house analysis collected on weekly, triweekly, daily basis from 70 sites distributed across City University California, (UC Davis) campus sewer systems influent their treatment plants. are glad that our data informing local mitigation efforts. Results UC dorm outflows supporting safe return students campus; results neighborhoods broader city areas helping officials understand spatial changes trends react accordingly. At same time, running campaign requires significant investments money, labor, expertise. Given much information gleaned not directly actionable, and/or duplicates sources, prudent consider these worthwhile. … [↵][1]1To whom correspondence may be addressed. Email: hbischel{at}ucdavis.edu. [1]: #xref-corresp-1-1

Язык: Английский

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Wastewater monitoring can anchor global disease surveillance systems

The Lancet Global Health, Год журнала: 2023, Номер 11(6), С. e976 - e981

Опубликована: Май 17, 2023

To inform the development of global wastewater monitoring systems, we surveyed programmes in 43 countries. Most monitored predominantly urban populations. In high-income countries (HICs), composite sampling at centralised treatment plants was most common, whereas grab from surface waters, open drains, and pit latrines more typical low-income middle-income (LMICs). Almost all analysed samples in-country, with an average processing time 2·3 days HICs 4·5 LMICs. Whereas 59% regularly for SARS-CoV-2 variants, only 13% LMICs did so. share their data internally, partnering organisations, but not publicly. Our findings show richness existing ecosystem. With additional leadership, funding, implementation frameworks, thousands individual initiatives can coalesce into integrated, sustainable network disease surveillance-one that minimises risk overlooking future health threats.

Язык: Английский

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Nationwide Trends in COVID-19 Cases and SARS-CoV-2 RNA Wastewater Concentrations in the United States

ACS ES&T Water, Год журнала: 2022, Номер 2(11), С. 1899 - 1909

Опубликована: Май 3, 2022

Wastewater-based epidemiology has emerged as a promising technology for population-level surveillance of COVID-19. In this study, we present results large nationwide SARS-CoV-2 wastewater monitoring system in the United States. We profile 55 locations with at least six months sampling from April 2020 to May 2021. These represent more than 12 million individuals across 19 states. Samples were collected approximately weekly by treatment utilities part regular service and analyzed RNA concentrations. concentrations normalized pepper mild mottle virus, an indicator fecal matter wastewater. show that data reflect temporal geographic trends clinical COVID-19 cases investigate impact normalization on correlations case within locations. also provide key lessons learned our broad-scale implementation wastewater-based epidemiology, which can be used inform approaches future emerging diseases. This work demonstrates is feasible approach disease. With evolving epidemic effective vaccines against SARS-CoV-2, serve passive detecting changing dynamics or resurgences virus.

Язык: Английский

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Wastewater-based surveillance as a tool for public health action: SARS-CoV-2 and beyond

Clinical Microbiology Reviews, Год журнала: 2023, Номер 37(1)

Опубликована: Дек. 14, 2023

SUMMARY Wastewater-based surveillance (WBS) has undergone dramatic advancement in the context of coronavirus disease 2019 (COVID-19) pandemic. The power and potential this platform technology were rapidly realized when it became evident that not only did WBS-measured SARS-CoV-2 RNA correlate strongly with COVID-19 clinical within monitored populations but also, fact, functioned as a leading indicator. Teams from across globe innovated novel approaches by which wastewater could be collected diverse sewersheds ranging treatment plants (enabling community-level surveillance) to more granular locations including individual neighborhoods high-risk buildings such long-term care facilities (LTCF). Efficient processes enabled extraction concentration highly dilute matrix. Molecular genomic tools identify, quantify, characterize its various variants adapted programs applied these mixed environmental systems. Novel data-sharing allowed information mobilized made immediately available public health government decision-makers even public, enabling evidence-informed decision-making based on local dynamics. WBS since been recognized tool transformative potential, providing near-real-time cost-effective, objective, comprehensive, inclusive data changing prevalence measured analytes space time populations. However, consequence rapid innovation hundreds teams simultaneously, tremendous heterogeneity currently exists literature. This manuscript provides state-of-the-art review established details current work underway expanding scope other infectious targets.

Язык: Английский

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