Wastewater-based prediction of COVID-19 cases using a highly sensitive SARS-CoV-2 RNA detection method combined with mathematical modeling

Environment International, Год журнала: 2023, Номер 173, С. 107743 - 107743

Опубликована: Янв. 7, 2023

Wastewater-based epidemiology (WBE) has the potential to predict COVID-19 cases; however, reliable methods for tracking SARS-CoV-2 RNA concentrations (C

Язык: Английский

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Impact of the COVID-19 pandemic on the prevalence of influenza A and respiratory syncytial viruses elucidated by wastewater-based epidemiology

The Science of The Total Environment, Год журнала: 2023, Номер 880, С. 162694 - 162694

Опубликована: Март 8, 2023

Since the COVID-19 pandemic, a decrease in prevalence of Influenza A virus (IAV) and respiratory syncytial (RSV) has been suggested by clinical surveillance. However, there may be potential biases obtaining an accurate overview infectious diseases community. To elucidate impact on IAV RSV, we quantified RSV RNA wastewater collected from three treatment plants (WWTPs) Sapporo, Japan, between October 2018 January 2023, using highly sensitive EPISENS™ method. From to April 2020, M gene concentrations were positively correlated with confirmed cases corresponding area (Spearman's r = 0.61). Subtype-specific HA genes also detected, their showed trends that consistent clinically reported cases. B serotypes detected wastewater, 0.36-0.52). The detection ratios decreased 66.7 % (22/33) 42.4 (14/33) 4.56 (12/263) 32.7 (86/263), respectively city after prevalence. present study demonstrates usefulness wastewater-based epidemiology combined preservation (wastewater banking) as tool for better management viral diseases.

Язык: Английский

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Moving forward with COVID-19: Future research prospects of wastewater-based epidemiology methodologies and applications

Current Opinion in Environmental Science & Health, Год журнала: 2023, Номер 33, С. 100458 - 100458

Опубликована: Март 7, 2023

Язык: Английский

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Targeted amplicon sequencing of wastewater samples for detecting SARS-CoV-2 variants with high sensitivity and resolution

The Science of The Total Environment, Год журнала: 2023, Номер 893, С. 164766 - 164766

Опубликована: Июнь 12, 2023

Wastewater-based epidemiology (WBE) is a promising approach for monitoring the spread of SARS-CoV-2 within communities. Although qPCR-based WBE powerful in that it allows quick and highly sensitive detection this virus, can provide limited information about which variants are responsible overall increase or decrease virus sewage, hinders accurate risk assessments. To resolve problem, we developed next generation sequencing (NGS)-based method to determine identity composition individual wastewater samples. Combination optimization targeted amplicon-sequencing nested PCR allowed each variant with sensitivity comparable qPCR. In addition, by targeting receptor binding domain (RBD) S protein, has mutations informative classification, could discriminate most concern (VOC) even sublineages Omicron (BA.1, BA.2, BA.4/5, BA.2.75, BQ.1.1 XBB.1). Focusing on benefit decreasing reads. We applied samples collected from treatment plant Kyoto city throughout 13 months (from January 2021 February 2022) successfully identified lineages wild-type, alpha, delta, omicron BA.1 BA.2 as well their compositions The transition these was good agreement epidemic situation reported during period based clinical testing. These data indicate our NGS-based useful detecting tracking emerging sewage Coupled advantages WBE, potential serve an efficient low cost means community assessment infection.

Язык: Английский

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Comparison of the methods for isolation and detection of SARS-CoV-2 RNA in municipal wastewater

Frontiers in Public Health, Год журнала: 2023, Номер 11

Опубликована: Март 7, 2023

Coronavirus SARS-CoV-2 is a causative agent responsible for the current global pandemic situation known as COVID-19. Clinical manifestations of COVID-19 include wide range symptoms from mild (i.e., cough, fever, dyspnea) to severe pneumonia-like respiratory symptoms. has been demonstrated be detectable in stool patients. Waste-based epidemiology (WBE) shown promising approach early detection and monitoring local population performed via collection, isolation, viral pathogens environmental sources.In order select optimal protocol epidemiological region Turiec, Slovakia, we (1) compared methods separation including virus precipitation by polyethylene glycol (PEG), purification ultrafiltration (Vivaspin®) subsequent isolation NucleoSpin RNA Virus kit (Macherey-Nagel), direct wastewater (Zymo Environ Water Kit); (2) evaluated impact water freezing on SARS- CoV-2 separation, detection; (3) role filtration stability; (4) determined appropriate reverse transcription-droplet digital PCR (RT-ddPCR) real-time quantitative polymerase chain reaction (RT-qPCR) (targeting same genes, i.e., RdRp gene E) samples.(1) Usage Zymo Kit provided superior quality isolated comparison with both ultracentrifugation PEG precipitation. Freezing samples significantly reduces yield. Filtering counterproductive when used. According specificity sensitivity, RT-ddPCR outperforms RT-qPCR.The results our study suggest that WBE valuable warning alert represents non-invasive monitor pathogens, thus protects public health regional national level. In addition, have sensitivity testing nearer limit can improved selecting combination enrichment, methods.

Язык: Английский

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Near full-automation of COPMAN using a LabDroid enables high-throughput and sensitive detection of SARS-CoV-2 RNA in wastewater as a leading indicator

The Science of The Total Environment, Год журнала: 2023, Номер 881, С. 163454 - 163454

Опубликована: Апрель 13, 2023

Wastewater-based epidemiology (WBE) is a promising tool to efficiently monitor COVID-19 prevalence in community. For WBE community surveillance, automation of the viral RNA detection process ideal. In present study, we achieved near full-automation previously established method, COPMAN (COagulation and Proteolysis method using MAgnetic beads for Nucleic acids wastewater), which was then applied detect SARS-CoV-2 wastewater half year. The line employed Maholo LabDroid an automated-pipetting device achieve high-throughput sample-processing capability 576 samples per week. quantified with automated collected from two treatment plants Sagami River basin Japan between 1 November 2021 24 May 2022, when numbers daily reported cases ranged 0 130.3 100,000 inhabitants. detected 81 out 132 at concentrations up 2.8 × 105 copies/L. These showed direct correlations subsequently clinical (5-13 days later), as determined by Pearson's Spearman's cross-correlation analyses. To compare results, also conducted testing EPISENS-S (Efficient Practical virus Identification System ENhanced Sensitivity Solids, Ando et al., 2022), method. correlated only Our shown be efficient timely large-scale monitoring RNA, making more feasible surveillance.

Язык: Английский

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COPMAN: A novel high-throughput and highly sensitive method to detect viral nucleic acids including SARS-CoV-2 RNA in wastewater

The Science of The Total Environment, Год журнала: 2022, Номер 856, С. 158966 - 158966

Опубликована: Сен. 23, 2022

During the coronavirus disease 2019 (COVID-19) pandemic, wastewater-based epidemiology (WBE) attracted attention as an objective and comprehensive indicator of community infection that does not require individual inspection. Although several severe acute respiratory syndrome 2 (SARS-CoV-2) detection methods from wastewater have been developed, there are obstacles to their social implementation. In this study, we developed COPMAN (Coagulation Proteolysis method using Magnetic beads for Nucleic acids in wastewater), automatable can concentrate detect multiple types viruses a limited volume (∼10 mL) wastewater. The consists high basicity polyaluminum chloride (PAC) coagulation process, magnetic bead-based RNA purification, RT-preamplification, followed by qPCR. A series enzymes exhibiting tolerance PCR inhibitors derived was identified employed molecular steps COPMAN. We compared detectability viral 10-mL samples virus-spiked (heat-inactivated SARS-CoV-2 intact RSV) or unspiked other (PEG-qPCR, UF-qPCR, EPISENS-S). most efficient detecting spiked wastewater, highest level pepper mild mottle virus (PMMoV), typical intrinsic human stool, samples. also successfully detected indigenous 12 at concentrations 2.2 × 104 5.4 105 copies/L, during initial stages wave right left bank Sagami River Japan (0.65 11.45 daily reported cases per 100,000 people). These results indicate is suitable pathogens small automated stations.

Язык: Английский

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Correspondence of SARS-CoV-2 genomic sequences obtained from wastewater samples and COVID-19 patient at long-term care facilities

The Science of The Total Environment, Год журнала: 2024, Номер 916, С. 170103 - 170103

Опубликована: Янв. 17, 2024

Wastewater-based epidemiology (WBE) has been in the spotlight because of applicability early detection virus outbreak and new variants at catchment area. However, there a notable absence research directly confirming association between SARS-CoV-2 wastewater patient specimens. In this study, we performed quantitative qualitative investigation with genetic-level comparison COVID-19 patients positive samples long-term care facilities. Wastewater were collected via passive sampling from manholes, load was determined by qPCR. We correlation analysis case number, which suggested that detected earlier than ascertainment case. Six six RNA cases wastewater, respectively, two facilities then applied for amplicon sequencing analysis. Mutation revealed high sequence similarity (>99 %). To best our knowledge, is first study demonstrating WBE also effective predicting predominant variant facility-level, helpful to develop early-warning system occurrence variant.

Язык: Английский

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Association of wastewater SARS-CoV-2 load with confirmed COVID-19 cases at a university hospital in Sapporo, Japan during the period from February 2021 to February 2023

The Science of The Total Environment, Год журнала: 2023, Номер 899, С. 165457 - 165457

Опубликована: Июль 25, 2023

Wastewater surveillance for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has been used to monitor trends in SARS-CoV-2 prevalence a community without being influenced by clinical testing resources or healthcare-seeking behaviors. Since the rate of mortality from COVID-19 is higher elderly patients with comorbidities, it important protect hospitalized nosocomial infections caused SARS-CoV-2. dissemination within hospital ward was mostly mediated healthcare workers (HCWs) and patients. HCWs need understand occurrence reflect this their infection control measures. The aim present study determine potential RNA wastewater as leading indicator confirmed cases at university hospital. trend geometric mean concentrations collected Sapporo corresponded well that number newly Hokkaido University Hospital between February 15, 2021 26, 2023 (Pearson's r = 0.8823, p < 0.0001). Our results showed monitoring municipal useful estimating facilities city.

Язык: Английский

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Enhanced detection of mpox virus in wastewater using a pre-amplification approach: A pilot study informing population-level monitoring of low-titer pathogens

The Science of The Total Environment, Год журнала: 2023, Номер 903, С. 166230 - 166230

Опубликована: Авг. 11, 2023

Язык: Английский

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