Recent progress on wastewater-based epidemiology for COVID-19 surveillance: A systematic review of analytical procedures and epidemiological modeling

The Science of The Total Environment, Journal Year: 2023, Volume and Issue: 878, P. 162953 - 162953

Published: March 21, 2023

Language: Английский

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Tracing COVID-19 Trails in Wastewater: A Systematic Review of SARS-CoV-2 Surveillance with Viral Variants

Water, Journal Year: 2023, Volume and Issue: 15(6), P. 1018 - 1018

Published: March 7, 2023

The emergence of new variants SARS-CoV-2 associated with varying infectivity, pathogenicity, diagnosis, and effectiveness against treatments challenged the overall management COVID-19 pandemic. Wastewater surveillance (WWS), i.e., monitoring infections in communities through detecting viruses wastewater, was applied to track spread globally. However, there is a lack comprehensive understanding use WWS for variants. Here we systematically reviewed published articles reporting different wastewater by following PRISMA guidelines provided current state art this study area. A total 80 studies were found that reported until November 2022. Most these (66 out 80, 82.5%) conducted Europe North America, resource-rich countries. There high variation sampling strategy around world, composite (50/66 studies, 76%) as primary method In contrast, grab more common (8/14 57%) resource-limited Among detection methods, reverse transcriptase polymerase chain reaction (RT-PCR)-based sequencing quantitative RT-PCR commonly used wastewater. variants, B1.1.7 (Alpha) variant appeared earlier pandemic most (48/80 studies), followed B.1.617.2 (Delta), B.1.351 (Beta), P.1 (Gamma), others All same pattern clinical within timeline, demonstrating tracked all timely way when emerged. Thus, may be utilized identify presence or absence follow development transmission existing emerging Routine powerful infectious disease tool implemented

Language: Английский

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Identification and genome sequencing of an influenza H3N2 variant in wastewater from elementary schools during a surge of influenza A cases in Las Vegas, Nevada

The Science of The Total Environment, Journal Year: 2023, Volume and Issue: 872, P. 162058 - 162058

Published: Feb. 8, 2023

Real-time surveillance of infectious diseases at schools or in communities is often hampered by delays reporting due to resource limitations and infrastructure issues. By incorporating quantitative PCR genome sequencing, wastewater has been an effective complement public health the community building-scale for pathogens such as poliovirus, SARS-CoV-2, even monkeypox virus. In this study, we asked whether programs elementary could be leveraged detect RNA from influenza viruses shed wastewater. We monitored A B viral six January May 2022. Quantitative led identification three schools, which coincided with lifting COVID-19 restrictions a surge infections Las Vegas, Nevada, USA. performed sequencing RNA, leading 2021–2022 vaccine-resistant (H3N2) 3C.2a1b.2a.2 subclade. next tested samples treatment plant that serviced but were unable presence A/B RNA. Together, our results demonstrate utility near-source detection local transmission potential investigated further paired school-level incidence data.

Language: Английский

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COVID-19 monitoring with sparse sampling of sewered and non-sewered wastewater in urban and rural communities

iScience, Journal Year: 2023, Volume and Issue: 26(7), P. 107019 - 107019

Published: June 9, 2023

Language: Английский

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Long-term monitoring of SARS-CoV-2 variants in wastewater using a coordinated workflow of droplet digital PCR and nanopore sequencing

Water Research, Journal Year: 2024, Volume and Issue: 254, P. 121338 - 121338

Published: Feb. 18, 2024

Quantitative polymerase chain reaction (PCR) and genome sequencing are important methods for wastewater surveillance of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The reverse transcription-droplet digital PCR (RT-ddPCR) is a highly sensitive method quantifying SARS-CoV-2 RNA in samples to track the trends viral activity levels but cannot identify new variants. It also takes time develop PCR-based assays targeting variants interest. Whole (WGS) can be used monitor known variants, it generally not quantitative. Several short-read techniques expensive might experience delayed turnaround times when outsourced due inadequate in-house resources. Recently, portable nanopore system offers an affordable real-time wastewater. This technology has potential enable swift response disease outbreaks without relying on clinical results. In addressing concerns related rapid accurate variant analysis, both RT-ddPCR were employed emergence was conducted at 23 sewer maintenance hole sites five treatment plants Michigan from 2020 2022. 2020, dominated by parental (20A, 20C 20G), followed 20I (Alpha, B.1.1.7) early 2021 Delta concern (VOC) late 2021. For year 2022, Omicron dominated. Nanopore validate suspected cases that initially undetermined assays. concordance rate between identifying clade-level 76.9%. Notably, instances disagreement two most prominent identification We showed with N gene concentrations >104 GC/100ml as measured improve recovery coverage depth using MinION device. better detecting key spike protein mutations A67V, del69-70, K417N, L452R, N501Y, N679K, R408S (p-value <0.05) compared sequencing. suggested should coordinated where preliminary quantification confirmatory detection or reported here adopted reliable analysis community level public health response.

Language: Английский

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Critical Needs for Integrated Surveillance: Wastewater-Based and Clinical Epidemiology in Evolving Scenarios with Lessons Learned from SARS-CoV-2

Food and Environmental Virology, Journal Year: 2024, Volume and Issue: 16(1), P. 38 - 49

Published: Jan. 2, 2024

Abstract During the COVID-19 pandemic, wastewater-based epidemiology (WBE) and clinical surveillance have been used as tools for analyzing circulation of SARS-CoV-2 in community, but both approaches can be strongly influenced by some sources variability. From challenging perspective integrating environmental data, we performed a correlation analysis between concentrations raw sewage incident cases areas served medium-size wastewater treatment plants (WWTPs) from 2021 to 2023. To this aim, datasets were adjusted several variability: WBE data factors including analytical protocol, flow, population size, while adjustments considered demographic composition population. Then, addressed impact on differences among sewerage networks variations frequency type swab tests due changes political regulatory scenarios. Wastewater significantly correlated when restrictive containment measures limited movements effect ( ρ = 0.50) confirmed exclusively through molecular testing 0.49). Moreover, positive (although weak) arose WWTPs located densely populated 0.37) with shorter lengths 0.28). This study provides methodological interpreting which could also useful other infections. Data evaluation possible bias need carefully integrated

Language: Английский

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The Efficient and Practical virus Identification System with ENhanced Sensitivity for Solids (EPISENS-S): A rapid and cost-effective SARS-CoV-2 RNA detection method for routine wastewater surveillance

The Science of The Total Environment, Journal Year: 2022, Volume and Issue: 843, P. 157101 - 157101

Published: Aug. 8, 2022

Language: Английский

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Comparative analysis of Adsorption-Extraction (AE) and Nanotrap® Magnetic Virus Particles (NMVP) workflows for the recovery of endogenous enveloped and non-enveloped viruses in wastewater

The Science of The Total Environment, Journal Year: 2022, Volume and Issue: 859, P. 160072 - 160072

Published: Nov. 7, 2022

In this study, two virus concentration methods, namely Adsorption-Extraction (AE) and Nanotrap® Magnetic Virus Particles (NMVP) along with commercially available extraction kits were used to quantify endogenous pepper mild mottle (PMMoV) severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) in nucleic acid extracted from 48 wastewater samples collected over six events eight treatment plants (WWTPs). The main aim was determine which workflow (i.e., methods) produces greater concentrations of PMMoV SARS-CoV-2 gene copies (GC) comparison each other. Turbidity total suspended solids (TSS) within among the WWTPs highly variable (41–385 NTU 77–668 mg/L TSS). 58 % individual samples, log10 GC by NMVP compared AE workflow. Paired measurements GC/10 mL across all weakly correlated (r = 0.455, p 0.001) demonstrated a poor linear relationship (r2 0.207). 69 contrast PMMoV, derived counts strongly 0.859, < strong 0.738). general, achieved decreased increasing turbidity, but did not appear be as sensitive either turbidity or TSS levels. These findings suggest that sample concentration, intended target for analysis should considered when validating an optimal surveillance viruses.

Language: Английский

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Adeno-Associated Virus 2 and Human Adenovirus F41 in Wastewater during Outbreak of Severe Acute Hepatitis in Children, Ireland

Emerging infectious diseases, Journal Year: 2023, Volume and Issue: 29(4), P. 751 - 760

Published: March 26, 2023

During April-July 2022, outbreaks of severe acute hepatitis unknown etiology (SAHUE) were reported in 35 countries. Five percent cases required liver transplantation, and 22 patients died. Viral metagenomic studies clinical samples from SAHUE showed a correlation with human adenovirus F type 41 (HAdV-F41) adeno-associated virus 2 (AAV2). To explore the association between those DNA viruses children Ireland, we quantified HAdV-F41 AAV2 collected wastewater treatment plant serving 40% Ireland's population. We noted high circulation community cases. Next-generation sequencing hexon demonstrated was predominant HAdV circulating. Our environmental analysis increased prevalence during outbreak. findings highlight how sampling could aid surveillance for respiratory species.

Language: Английский

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Advancing Pathogen Identification: The Role of Digital PCR in Enhancing Diagnostic Power in Different Settings

Diagnostics, Journal Year: 2024, Volume and Issue: 14(15), P. 1598 - 1598

Published: July 25, 2024

Digital polymerase chain reaction (dPCR) has emerged as a groundbreaking technology in molecular biology and diagnostics, offering exceptional precision sensitivity nucleic acid detection quantification. This review highlights the core principles transformative potential of dPCR, particularly infectious disease diagnostics environmental surveillance. Emphasizing its evolution from traditional PCR, dPCR provides accurate absolute quantification target acids through advanced partitioning techniques. The addresses significant impact sepsis diagnosis management, showcasing superior specificity early pathogen identification drug-resistant genes. Despite advantages, challenges such optimization experimental conditions, standardization data analysis workflows, high costs are discussed. Furthermore, we compare various commercially available platforms, detailing their features applications clinical research settings. Additionally, explores dPCR's role water microbiology, wastewater surveillance monitoring waterborne pathogens, underscoring importance public health protection. In conclusion, future prospects including methodological optimization, integration with innovative technologies, expansion into new sectors like metagenomics, explored.

Language: Английский

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