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The Rapid Assessment of Aggregated Wastewater Samples for Genomic Surveillance of SARS-CoV-2 on a City-Wide Scale

Throughout the course of the ongoing SARS-CoV-2 pandemic there has been a need for approaches that enable rapid monitoring of public health using an unbiased and minimally invasive means. A major way this has been accomplished is through the regular assessment of wastewater samples by qRT-PCR to det...

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Autores principales: Rouchka, Eric C., Chariker, Julia H., Saurabh, Kumar, Waigel, Sabine, Zacharias, Wolfgang, Zhang, Mei, Talley, Daymond, Santisteban, Ian, Puccio, Madeline, Moyer, Sarah, Holm, Rochelle H., Yeager, Ray A., Sokoloski, Kevin J., Fuqua, Joshua, Bhatnagar, Aruni, Smith, Ted
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8541652/
https://www.ncbi.nlm.nih.gov/pubmed/34684220
http://dx.doi.org/10.3390/pathogens10101271
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author Rouchka, Eric C.
Chariker, Julia H.
Saurabh, Kumar
Waigel, Sabine
Zacharias, Wolfgang
Zhang, Mei
Talley, Daymond
Santisteban, Ian
Puccio, Madeline
Moyer, Sarah
Holm, Rochelle H.
Yeager, Ray A.
Sokoloski, Kevin J.
Fuqua, Joshua
Bhatnagar, Aruni
Smith, Ted
author_facet Rouchka, Eric C.
Chariker, Julia H.
Saurabh, Kumar
Waigel, Sabine
Zacharias, Wolfgang
Zhang, Mei
Talley, Daymond
Santisteban, Ian
Puccio, Madeline
Moyer, Sarah
Holm, Rochelle H.
Yeager, Ray A.
Sokoloski, Kevin J.
Fuqua, Joshua
Bhatnagar, Aruni
Smith, Ted
author_sort Rouchka, Eric C.
collection PubMed
description Throughout the course of the ongoing SARS-CoV-2 pandemic there has been a need for approaches that enable rapid monitoring of public health using an unbiased and minimally invasive means. A major way this has been accomplished is through the regular assessment of wastewater samples by qRT-PCR to detect the prevalence of viral nucleic acid with respect to time and location. Further expansion of SARS-CoV-2 wastewater monitoring efforts to include the detection of variants of interest/concern through next-generation sequencing has enhanced the understanding of the SARS-CoV-2 outbreak. In this report, we detail the results of a collaborative effort between public health and metropolitan wastewater management authorities and the University of Louisville to monitor the SARS-CoV-2 pandemic through the monitoring of aggregate wastewater samples over a period of 28 weeks. Through the use of next-generation sequencing approaches the polymorphism signatures of Variants of Concern/Interest were evaluated to determine the likelihood of their prevalence within the community on the basis of their relative dominance within sequence datasets. Our data indicate that wastewater monitoring of water quality treatment centers and smaller neighborhood-scale catchment areas is a viable means by which the prevalence and genetic variation of SARS-CoV-2 within a metropolitan community of approximately one million individuals may be monitored, as our efforts detected the introduction and emergence of variants of concern in the city of Louisville. Importantly, these efforts confirm that regional emergence and spread of variants of interest/concern may be detected as readily in aggregate wastewater samples as compared to the individual wastewater sheds. Furthermore, the information gained from these efforts enabled targeted public health efforts including increased outreach to at-risk communities and the deployment of mobile or community-focused vaccination campaigns.
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spelling pubmed-85416522021-10-24 The Rapid Assessment of Aggregated Wastewater Samples for Genomic Surveillance of SARS-CoV-2 on a City-Wide Scale Rouchka, Eric C. Chariker, Julia H. Saurabh, Kumar Waigel, Sabine Zacharias, Wolfgang Zhang, Mei Talley, Daymond Santisteban, Ian Puccio, Madeline Moyer, Sarah Holm, Rochelle H. Yeager, Ray A. Sokoloski, Kevin J. Fuqua, Joshua Bhatnagar, Aruni Smith, Ted Pathogens Article Throughout the course of the ongoing SARS-CoV-2 pandemic there has been a need for approaches that enable rapid monitoring of public health using an unbiased and minimally invasive means. A major way this has been accomplished is through the regular assessment of wastewater samples by qRT-PCR to detect the prevalence of viral nucleic acid with respect to time and location. Further expansion of SARS-CoV-2 wastewater monitoring efforts to include the detection of variants of interest/concern through next-generation sequencing has enhanced the understanding of the SARS-CoV-2 outbreak. In this report, we detail the results of a collaborative effort between public health and metropolitan wastewater management authorities and the University of Louisville to monitor the SARS-CoV-2 pandemic through the monitoring of aggregate wastewater samples over a period of 28 weeks. Through the use of next-generation sequencing approaches the polymorphism signatures of Variants of Concern/Interest were evaluated to determine the likelihood of their prevalence within the community on the basis of their relative dominance within sequence datasets. Our data indicate that wastewater monitoring of water quality treatment centers and smaller neighborhood-scale catchment areas is a viable means by which the prevalence and genetic variation of SARS-CoV-2 within a metropolitan community of approximately one million individuals may be monitored, as our efforts detected the introduction and emergence of variants of concern in the city of Louisville. Importantly, these efforts confirm that regional emergence and spread of variants of interest/concern may be detected as readily in aggregate wastewater samples as compared to the individual wastewater sheds. Furthermore, the information gained from these efforts enabled targeted public health efforts including increased outreach to at-risk communities and the deployment of mobile or community-focused vaccination campaigns. MDPI 2021-10-01 /pmc/articles/PMC8541652/ /pubmed/34684220 http://dx.doi.org/10.3390/pathogens10101271 Text en © 2021 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Rouchka, Eric C.
Chariker, Julia H.
Saurabh, Kumar
Waigel, Sabine
Zacharias, Wolfgang
Zhang, Mei
Talley, Daymond
Santisteban, Ian
Puccio, Madeline
Moyer, Sarah
Holm, Rochelle H.
Yeager, Ray A.
Sokoloski, Kevin J.
Fuqua, Joshua
Bhatnagar, Aruni
Smith, Ted
The Rapid Assessment of Aggregated Wastewater Samples for Genomic Surveillance of SARS-CoV-2 on a City-Wide Scale
title The Rapid Assessment of Aggregated Wastewater Samples for Genomic Surveillance of SARS-CoV-2 on a City-Wide Scale
title_full The Rapid Assessment of Aggregated Wastewater Samples for Genomic Surveillance of SARS-CoV-2 on a City-Wide Scale
title_fullStr The Rapid Assessment of Aggregated Wastewater Samples for Genomic Surveillance of SARS-CoV-2 on a City-Wide Scale
title_full_unstemmed The Rapid Assessment of Aggregated Wastewater Samples for Genomic Surveillance of SARS-CoV-2 on a City-Wide Scale
title_short The Rapid Assessment of Aggregated Wastewater Samples for Genomic Surveillance of SARS-CoV-2 on a City-Wide Scale
title_sort rapid assessment of aggregated wastewater samples for genomic surveillance of sars-cov-2 on a city-wide scale
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8541652/
https://www.ncbi.nlm.nih.gov/pubmed/34684220
http://dx.doi.org/10.3390/pathogens10101271
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