Viruses in Wastewater—A Concern for Public Health and the Environment DOI Creative Commons
Coralia Bleoţu, Lilia Matei, Laura Denisa Dragu

et al.

Microorganisms, Journal Year: 2024, Volume and Issue: 12(7), P. 1430 - 1430

Published: July 14, 2024

Wastewater monitoring provides essential information about water quality and the degree of contamination. Monitoring these waters helps identify manage risks to public health, prevent spread disease, protect environment. Standardizing appropriate most accurate methods for isolation identification viruses in wastewater is necessary. This review aims present major classes wastewater, as well concentration, isolation, assess health implement corrective measures control viral infections. Last but not least, we propose evaluate current strategies treatment new alternative disinfection.

Language: Английский

Rapid Assessment of SARS-CoV-2 Variant-Associated Mutations in Wastewater Using Real-Time RT-PCR DOI Creative Commons
Kata Farkas, Cameron Pellett,

Rachel Williams

et al.

Microbiology Spectrum, Journal Year: 2023, Volume and Issue: 11(1)

Published: Jan. 11, 2023

Within months of the COVID-19 pandemic being declared on March 20, 2020, novel, more infectious variants SARS-CoV-2 began to be detected in geospatially distinct regions world. With international travel a lead cause spread disease, importance rapidly identifying entering country is critical. In this study, we utilized wastewater-based epidemiology (WBE) monitor presence wastewater generated managed quarantine facilities for air passengers United Kingdom. Specifically, developed multiplex reverse transcription quantitative PCR (RT-qPCR) assays identification defining mutations associated with Beta (K417N), Gamma (K417T), Delta (156/157DEL), and Kappa (E154K) which were globally prevalent at time sampling (April July 2021). The sporadically Beta, Gamma, 0.7%, 2.3%, 0.4% all samples, respectively. variant was identified 13.3% peak detection rates concentrations observed May 2021 (24%), concurrent its emergence RT-qPCR results correlated well those from sequencing, suggesting that PCR-based good predictor presence; although, inadequate probe binding may false positive or negative results. Our findings suggest WBE coupled used as rapid, initial assessment identify emerging borders mass quarantining facilities. IMPORTANCE global COVID-19, it essential harmful able escape vaccines rapidly. To date, gold standard assess circulating communities has been sequencing S gene whole genome SARS-CoV-2; however, approach time-consuming expensive. two duplex detect quantify Delta, variants. validated using RNA extracts derived samples taken showed correlation demonstrated Kingdom 2021. here enable variant-specific within 2 h after extract outbreak rapid response.

Language: Английский

Citations

11
Public Health Interventions Guided by Houston’s Wastewater Surveillance Program During the COVID-19 Pandemic DOI Creative Commons
Loren Hopkins, Katherine B. Ensor, Lauren B. Stadler

et al.

Public Health Reports, Journal Year: 2023, Volume and Issue: 138(6), P. 856 - 861

Published: July 28, 2023

Since the start of COVID-19 pandemic, wastewater surveillance has emerged as a powerful tool used by public health authorities to track SARS-CoV-2 infections in communities. In May 2020, Houston Health Department began working with coalition municipal and academic partners develop monitoring reporting system for city Houston, Texas. Data collected from are integrated other data communicated through different channels local general public. This information is shape policies inform actions mitigate prevent spread at municipal, institutional, individual levels. Based on success this drive protection efforts, program likely become standard part toolkit responding infectious diseases and, potentially, disease-causing outbreaks.

Language: Английский

Citations

11
Hyperplex PCR enables highly multiplexed analysis of point mutations in wastewater: long-term SARS-CoV-2 variant surveillance in Sweden as a case study DOI
Ruben R. G. Soares,

Javier Edo Varg,

Attila Szabó

et al.

Water Research, Journal Year: 2025, Volume and Issue: 274, P. 123154 - 123154

Published: Jan. 16, 2025

Language: Английский

Citations

0
Diagnostic performance of allele-specific RT-qPCR and genomic sequencing in wastewater-based surveillance of SARS-CoV-2 DOI Creative Commons

Md Pervez Kabir,

Élisabeth Mercier,

Walaa Eid

et al.

Eco-Environment & Health, Journal Year: 2025, Volume and Issue: 4(1), P. 100135 - 100135

Published: Jan. 21, 2025

Clinical genomic surveillance is regarded as the gold standard for monitoring SARS-CoV-2 variants globally. However, pandemic wanes, reduced testing poses a risk to effectively tracking trajectory of these within populations. Wastewater-based that estimates variant frequency based on its defining set alleles derived from clinical has been successfully implemented. This method challenges, and allele-specific (AS) RT-qPCR or RT-dPCR may instead be used complementary estimating prevalence. Demonstrating equivalent performance methods prerequisite their continued application in current future pandemics. Here, we compared single-allele using AS-RT-qPCR, haplotype estimations amplicon-based sequencing estimate prevalence wastewater during emergent prevalent periods Delta, Omicron, two sub-lineages Omicron. We found all three estimation were concordant contained sufficient information describe further confirmed accuracy by quantifying diagnostic through Youden's index. The index AS-RT-qPCR was low period particular while same allele negatively influenced due insufficient read depth. haplotype-based calls when common between variants. Coupling with can overcome shortcomings either platform provide comprehensive picture stakeholders public health responses.

Language: Английский

Citations

0
Monitoring the Emergence of SARS-CoV-2 VOCs in Wastewater and Clinical Samples—A One-Year Study in Santiago de Compostela (Spain) DOI Creative Commons
Marta Lois, David Polo, María de Toro

et al.

Viruses, Journal Year: 2025, Volume and Issue: 17(4), P. 489 - 489

Published: March 28, 2025

Wastewater surveillance has become a valuable tool to monitor the emergence of SARS-CoV-2 variants concern (VOCs) at community level. In this study, we aimed evaluate presence Alpha (B.1.1.7), Beta (B.1.351), Delta (B.1617.2), and Omicron (B.1.1.529) VOCs in samples from inlet wastewater treatment plant (WWTP) as well two different sewer interceptors (SI-1 SI-2) urban sewage system Santiago de Compostela (Galicia, NW Spain) throughout 2021 January 2022. For purpose, detection quantification four was performed using duplex allelic discrimination RT-qPCR assays, targeting S-gene. An N1 gene assay used reference for RNA samples. All were detected Alpha, Beta, Delta, 45.7%, 7.5%, 66.7%, 72.7% all samples, respectively. VOC dominant during first part whereas peaks observed May–June December 2021, Some differences among results obtained city sectors studied, which could be explained by characteristics population between them. Wastewater-based epidemiology allowed us track early circulation local level, our are temporally concordant with clinical data epidemiological findings reported health authorities.

Language: Английский

Citations

0
Confirming Multiplex RT-qPCR Use in COVID-19 with Next-Generation Sequencing: Strategies for Epidemiological Advantage DOI Creative Commons
Rob E. Carpenter, Vaibhav K. Tamrakar, Harendra Chahar

et al.

Global Health, Journal Year: 2022, Volume and Issue: 2022, P. 1 - 10

Published: July 30, 2022

Rapid identification and tracking of emerging SARS-CoV-2 variants are critical for understanding the transmission dynamics developing strategies interrupting chain. Next-Generation Sequencing (NGS) is an exceptional tool whole-genome analysis deciphering new mutations. The technique has been instrumental in identifying concern (VOC) this pandemic. However, NGS complex expensive large-scale adoption, epidemiological monitoring with alone could be unattainable limited-resource settings. In study, we explored application RT-qPCR-based detection variant identified by NGS. We analyzed a total 78 deidentified samples that screened positive from two timeframes, August 2020 July 2021. All were classified into WHO lineages sequencing then compared commercially available RT-qPCR assays spike protein mutation(s). data showed good concordance between specific characteristic quick cost-effective thus can implemented synergy screening NGS-identified mutations clinical interest. Strategic use offer several COVID-19 advantages.

Language: Английский

Citations

18
An improved method for determining frequency of multiple variants of SARS-CoV-2 in wastewater using qPCR assays DOI Open Access
Meghan Fuzzen, Nathanael B.J. Harper, Hadi A. Dhiyebi

et al.

The Science of The Total Environment, Journal Year: 2023, Volume and Issue: 881, P. 163292 - 163292

Published: April 7, 2023

Language: Английский

Citations

10
Wastewater genomic sequencing for SARS-CoV-2 variants surveillance in wastewater-based epidemiology applications DOI
Xiaoqing Xu, Yu Deng, Jiahui Ding

et al.

Water Research, Journal Year: 2023, Volume and Issue: 244, P. 120444 - 120444

Published: Aug. 3, 2023

Language: Английский

Citations

10
Comparison of Nanopore and Synthesis-Based Next-Generation Sequencing Platforms for SARS-CoV-2 Variant Monitoring in Wastewater DOI Open Access
David García-Pedemonte, Albert Carcereny, Josep Gregori

et al.

International Journal of Molecular Sciences, Journal Year: 2023, Volume and Issue: 24(24), P. 17184 - 17184

Published: Dec. 6, 2023

Shortly after the beginning of SARS-CoV-2 pandemic, many countries implemented sewage sentinel systems to monitor circulation virus in population. A fundamental part these surveillance programs is variant tracking through sequencing approaches and identify new variants or mutations that may be importance. Two main platforms are Illumina Oxford Nanopore Technologies. Here, we compare performance MiSeq (Illumina) MinION (Oxford Technologies), as well two different data processing pipelines, determine effect they have on results. showed higher coverage, lower error rate, better capacity detect accurately estimate abundances than R9.4.1 flow cell data. The use callers (LoFreq iVar) calculate proportions had a remarkable impact results generated from wastewater samples. Freyja, coupled with iVar, more sensitive accurate LoFreq, especially data, but it comes at cost having rate. analysis R10.4.1 using Freyja combined iVar narrows gap terms read quality, accuracy, sensitivity, number detected mutations. Although should still considered standard method for tracking, MinION's versatility rapid turnaround time represent clear advantage during ongoing pandemic.

Language: Английский

Citations

10
SARS-CoV-2 surveillance in medical and industrial wastewater—a global perspective: a narrative review DOI Open Access
Kaiwen Yang, Jinlin Guo, Michelle Møhlenberg

et al.

Environmental Science and Pollution Research, Journal Year: 2023, Volume and Issue: 30(23), P. 63323 - 63334

Published: March 29, 2023

Language: Английский

Citations

9