ArticleApplied and environmental microbiology2021
RNA Viromics of Southern California Wastewater and Detection of SARS-CoV-2 Single-Nucleotide Variants.
Article in Applied and environmental microbiology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
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Who cites it
42 citing papers in PubMed, 69 citations in OpenAlex.
- metaWEPP: leveraging biobank-scale intra-species phylogenies for near-haplotype resolution in metagenomic analysis.NAR genomics and bioinformatics · 2026Article
- First Wastewater-Based Surveillance of Tomato Brown Rugose Fruit Virus (ToBRFV) in Korea.Food and environmental virology · 2026Article
- Co-prevalence of SARS-CoV-2 and Noroviruses in Wastewater Collection and Treatment Facilities of the Eastern Cape Region, South Africa: An Exacerbated Public and Environmental Health Risk Concern.Food and environmental virology · 2026Article
- Decoding mycobacterial ecology in Sub-Saharan African wastewater: metagenomic and metatranscriptomic insights for tuberculosis surveillance.Journal of water and health · 2026Article
- High-throughput sequencing reveals the virome characteristics of wastewater in Gansu Province, China from 2024 to 2026.Frontiers in microbiology · 2026Article
- Deep metatranscriptomic sequencing data of wastewater from Los Angeles, USA, 2023-2024.Scientific data · 2025Article
- Incidence and temporal distribution of SARS-CoV-2 circulating in the municipal wastewaters of the Buffalo City region, Eastern Cape, South Africa.Global epidemiology · 2025Article
- Recovering wastewater RNA for virome sequencing by systematically optimized tangential-flow ultrafiltration and Nanotrap microbiome particles.Applied and environmental microbiology · 2025Article
- Developing and Benchmarking One Health Genomic Surveillance Tools for Influenza A Virus in Wastewater.Research square · 2025Article
- Developing and Benchmarking One Health Genomic Surveillance Tools for Influenza A Virus in Wastewater.bioRxiv : the preprint server for biology · 2025Article
- Monitoring SARS-CoV-2 Dissemination in Wastewater and Virus Isolation in Cell Cultures: An Integrated Approach for Pathogen Detection and Surveillance.Journal of cellular and molecular medicine · 2025Article
- Metagenomic Analysis of Surface Waters and Wastewater in the Colombian Andean Highlands: Implications for Health and Disease.Current microbiology · 2025Article
- Beyond clinical data: the role of sewage monitoring in tracking pandemic trends of SARS-CoV-2.Frontiers in microbiology · 2025Article
- Harnessing the Power of Next-Generation Sequencing in Wastewater-Based Epidemiology and Global Disease Surveillance.Food and environmental virology · 2024Review
- Agile, on-demand wastewater surveillance of virus infections to support pandemic and outbreak response in Rotterdam-Rijnmond, the Netherlands, 2020 to 2022.Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin · 2024Article
- A Narrative Review of High Throughput Wastewater Sample Processing for Infectious Disease Surveillance: Challenges, Progress, and Future Opportunities.International journal of environmental research and public health · 2024Review
- Genetic tracing of market wildlife and viruses at the epicenter of the COVID-19 pandemic.Cell · 2024Article
- Evaluation of the Impact of Concentration and Extraction Methods on the Targeted Sequencing of Human Viruses from Wastewater.Environmental science & technology · 2024Article
- Considerations and Opportunities for Probe Capture Enrichment Sequencing of Emerging Viruses from Wastewater.Environmental science & technology · 2024Review
- A systematic review of influenza virus in water environments across human, poultry, and wild bird habitats.Water research X · 2024Review
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Authors and funding
13 authors at 2 institutions in 1 country.
Funding
Abstract
Municipal wastewater provides an integrated sample of a diversity of human-associated microbes across a sewershed, including viruses. Wastewater-based epidemiology (WBE) is a promising strategy to detect pathogens and may serve as an early warning system for disease outbreaks. Notably, WBE has garnered substantial interest during the coronavirus disease 2019 (COVID-19) pandemic to track disease burden through analyses of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RNA. Throughout the COVID-19 outbreak, tracking SARS-CoV-2 in wastewater has been an important tool for understanding the spread of the virus. Unlike traditional sequencing of SARS-CoV-2 isolated from clinical samples, which adds testing burden to the health care system, in this study, metatranscriptomics was used to sequence virus directly from wastewater. Here, we present a study in which we explored RNA viral diversity through sequencing 94 wastewater influent samples across seven wastewater treatment plants (WTPs), collected from August 2020 to January 2021, representing approximately 16 million people in Southern California. Enriched viral libraries identified a wide diversity of RNA viruses that differed between WTPs and over time, with detected viruses including coronaviruses, influenza A, and noroviruses. Furthermore, single-nucleotide variants (SNVs) of SARS-CoV-2 were identified in wastewater, and we measured proportions of overall virus and SNVs across several months. We detected several SNVs that are markers for clinically important SARS-CoV-2 variants along with SNVs of unknown function, prevalence, or epidemiological consequence. Our study shows the potential of WBE to detect viruses in wastewater and to track the diversity and spread of viral variants in urban and suburban locations, which may aid public health efforts to monitor disease outbreaks.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.