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Improving wastewater-based epidemiology performance through streamlined automation

Wastewater-based epidemiology (WBE) has enabled us to describe Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) infections in populations. However, implementation of wastewater monitoring of SARS-CoV-2 is limited due to the need for expert staff, expensive equipment, and prolonged proces...

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Autores principales: Dehghan Banadaki, Mohammad, Torabi, Soroosh, Strike, William D., Noble, Ann, Keck, James W., Berry, Scott M.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier Ltd. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9970922/
https://www.ncbi.nlm.nih.gov/pubmed/36875746
http://dx.doi.org/10.1016/j.jece.2023.109595
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author Dehghan Banadaki, Mohammad
Torabi, Soroosh
Strike, William D.
Noble, Ann
Keck, James W.
Berry, Scott M.
author_facet Dehghan Banadaki, Mohammad
Torabi, Soroosh
Strike, William D.
Noble, Ann
Keck, James W.
Berry, Scott M.
author_sort Dehghan Banadaki, Mohammad
collection PubMed
description Wastewater-based epidemiology (WBE) has enabled us to describe Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) infections in populations. However, implementation of wastewater monitoring of SARS-CoV-2 is limited due to the need for expert staff, expensive equipment, and prolonged processing times. As WBE increases in scope (beyond SARS-CoV-2) and scale (beyond developed regions), there is a need to make WBE processes simpler, cheaper, and faster. We developed an automated workflow based on a simplified method termed exclusion-based sample preparation (ESP). Our automated workflow takes 40 min from raw wastewater to purified RNA, which is several times faster than conventional WBE methods. The total assay cost per sample/replicate is $6.50 which includes consumables and reagents for concentration, extraction, and RT-qPCR quantification. The assay complexity is reduced significantly, as extraction and concentration steps are integrated and automated. The high recovery efficiency of the automated assay (84.5 ± 25.4%) yielded an improved Limit of Detection (LoD(Automated)=40 copies/mL) compared to the manual process (LoD(Manual)=206 copies/mL), increasing analytical sensitivity. We validated the performance of the automated workflow by comparing it with the manual method using wastewater samples from several locations. The results from the two methods correlated strongly (r = 0.953), while the automated method was shown to be more precise. In 83% of the samples, the automated method showed lower variation between replicates, which is likely due to higher technical errors in the manual process e.g., pipetting. Our automated wastewater workflow can support the expansion of WBE in the fight against Coronavirus Disease of 2019 (COVID-19) and other epidemics.
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spelling pubmed-99709222023-02-28 Improving wastewater-based epidemiology performance through streamlined automation Dehghan Banadaki, Mohammad Torabi, Soroosh Strike, William D. Noble, Ann Keck, James W. Berry, Scott M. J Environ Chem Eng Article Wastewater-based epidemiology (WBE) has enabled us to describe Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) infections in populations. However, implementation of wastewater monitoring of SARS-CoV-2 is limited due to the need for expert staff, expensive equipment, and prolonged processing times. As WBE increases in scope (beyond SARS-CoV-2) and scale (beyond developed regions), there is a need to make WBE processes simpler, cheaper, and faster. We developed an automated workflow based on a simplified method termed exclusion-based sample preparation (ESP). Our automated workflow takes 40 min from raw wastewater to purified RNA, which is several times faster than conventional WBE methods. The total assay cost per sample/replicate is $6.50 which includes consumables and reagents for concentration, extraction, and RT-qPCR quantification. The assay complexity is reduced significantly, as extraction and concentration steps are integrated and automated. The high recovery efficiency of the automated assay (84.5 ± 25.4%) yielded an improved Limit of Detection (LoD(Automated)=40 copies/mL) compared to the manual process (LoD(Manual)=206 copies/mL), increasing analytical sensitivity. We validated the performance of the automated workflow by comparing it with the manual method using wastewater samples from several locations. The results from the two methods correlated strongly (r = 0.953), while the automated method was shown to be more precise. In 83% of the samples, the automated method showed lower variation between replicates, which is likely due to higher technical errors in the manual process e.g., pipetting. Our automated wastewater workflow can support the expansion of WBE in the fight against Coronavirus Disease of 2019 (COVID-19) and other epidemics. Elsevier Ltd. 2023-04 2023-02-28 /pmc/articles/PMC9970922/ /pubmed/36875746 http://dx.doi.org/10.1016/j.jece.2023.109595 Text en © 2023 Elsevier Ltd. All rights reserved. Since January 2020 Elsevier has created a COVID-19 resource centre with free information in English and Mandarin on the novel coronavirus COVID-19. The COVID-19 resource centre is hosted on Elsevier Connect, the company's public news and information website. Elsevier hereby grants permission to make all its COVID-19-related research that is available on the COVID-19 resource centre - including this research content - immediately available in PubMed Central and other publicly funded repositories, such as the WHO COVID database with rights for unrestricted research re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for free by Elsevier for as long as the COVID-19 resource centre remains active.
spellingShingle Article
Dehghan Banadaki, Mohammad
Torabi, Soroosh
Strike, William D.
Noble, Ann
Keck, James W.
Berry, Scott M.
Improving wastewater-based epidemiology performance through streamlined automation
title Improving wastewater-based epidemiology performance through streamlined automation
title_full Improving wastewater-based epidemiology performance through streamlined automation
title_fullStr Improving wastewater-based epidemiology performance through streamlined automation
title_full_unstemmed Improving wastewater-based epidemiology performance through streamlined automation
title_short Improving wastewater-based epidemiology performance through streamlined automation
title_sort improving wastewater-based epidemiology performance through streamlined automation
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9970922/
https://www.ncbi.nlm.nih.gov/pubmed/36875746
http://dx.doi.org/10.1016/j.jece.2023.109595
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