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Improvement of SARS-COV-2 screening using pooled sampling testing in limited RT-qPCR resources

BACKGROUND: COVID-19 is a worldwide pandemic representing the most challenging global health crisis currently. Screening tests availability are a problematic task due to resource-limited abilities of some countries using RT-qPCR technique for SARS−COV-2 detection. OBJECTIVE: To cope with these healt...

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Autores principales: Bensaada, Mostefa, Smaali, Mohamed Amine, Bahi, Oussama, Bouhedjar, Khalid, Khelifa, Foudil, Sellam, Feriel, Mebrek, Saad
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Published by Elsevier B.V. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8667353/
https://www.ncbi.nlm.nih.gov/pubmed/34915089
http://dx.doi.org/10.1016/j.jviromet.2021.114421
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author Bensaada, Mostefa
Smaali, Mohamed Amine
Bahi, Oussama
Bouhedjar, Khalid
Khelifa, Foudil
Sellam, Feriel
Mebrek, Saad
author_facet Bensaada, Mostefa
Smaali, Mohamed Amine
Bahi, Oussama
Bouhedjar, Khalid
Khelifa, Foudil
Sellam, Feriel
Mebrek, Saad
author_sort Bensaada, Mostefa
collection PubMed
description BACKGROUND: COVID-19 is a worldwide pandemic representing the most challenging global health crisis currently. Screening tests availability are a problematic task due to resource-limited abilities of some countries using RT-qPCR technique for SARS−COV-2 detection. OBJECTIVE: To cope with these health emergencies, in particular with this COVID-19 pandemic, states with low molecular diagnostic resources must optimize their capacity in molecular tests. We aimed to design a simple and effective strategy to improve inputs in the RT-qPCR tests as we attempted to check the financial advisability of using such an approach by calculating reduction rate of the test unit cost. METHODS: The used RNA was taken from suspected Covid-19 positive people. Nasopharyngeal swabs were collected at Pasteur Institute Diagnostic Center, Constantine, Algeria, 2020. We have optimized a screening strategy by grouping 16 individuals per pool, without reducing the sensitivity of RT-qPCR. RESULTS: A 1/16 dilution of a positive sample was a practical limit that does not require the use of robotic systems or mathematical modeling to construct the pools. The financial analysis of our strategy has shown that the costs can be reduced to 90 %. The pooled testing strategy that was proven in this study could be recommended to help COVID-19 containment in countries with low potential screening infrastructures using RT-qPCR technique by reducing the number of tests required to identify all positive subjects.
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spelling pubmed-86673532021-12-14 Improvement of SARS-COV-2 screening using pooled sampling testing in limited RT-qPCR resources Bensaada, Mostefa Smaali, Mohamed Amine Bahi, Oussama Bouhedjar, Khalid Khelifa, Foudil Sellam, Feriel Mebrek, Saad J Virol Methods Protocols BACKGROUND: COVID-19 is a worldwide pandemic representing the most challenging global health crisis currently. Screening tests availability are a problematic task due to resource-limited abilities of some countries using RT-qPCR technique for SARS−COV-2 detection. OBJECTIVE: To cope with these health emergencies, in particular with this COVID-19 pandemic, states with low molecular diagnostic resources must optimize their capacity in molecular tests. We aimed to design a simple and effective strategy to improve inputs in the RT-qPCR tests as we attempted to check the financial advisability of using such an approach by calculating reduction rate of the test unit cost. METHODS: The used RNA was taken from suspected Covid-19 positive people. Nasopharyngeal swabs were collected at Pasteur Institute Diagnostic Center, Constantine, Algeria, 2020. We have optimized a screening strategy by grouping 16 individuals per pool, without reducing the sensitivity of RT-qPCR. RESULTS: A 1/16 dilution of a positive sample was a practical limit that does not require the use of robotic systems or mathematical modeling to construct the pools. The financial analysis of our strategy has shown that the costs can be reduced to 90 %. The pooled testing strategy that was proven in this study could be recommended to help COVID-19 containment in countries with low potential screening infrastructures using RT-qPCR technique by reducing the number of tests required to identify all positive subjects. Published by Elsevier B.V. 2022-02 2021-12-13 /pmc/articles/PMC8667353/ /pubmed/34915089 http://dx.doi.org/10.1016/j.jviromet.2021.114421 Text en © 2021 Published by Elsevier B.V. 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 Protocols
Bensaada, Mostefa
Smaali, Mohamed Amine
Bahi, Oussama
Bouhedjar, Khalid
Khelifa, Foudil
Sellam, Feriel
Mebrek, Saad
Improvement of SARS-COV-2 screening using pooled sampling testing in limited RT-qPCR resources
title Improvement of SARS-COV-2 screening using pooled sampling testing in limited RT-qPCR resources
title_full Improvement of SARS-COV-2 screening using pooled sampling testing in limited RT-qPCR resources
title_fullStr Improvement of SARS-COV-2 screening using pooled sampling testing in limited RT-qPCR resources
title_full_unstemmed Improvement of SARS-COV-2 screening using pooled sampling testing in limited RT-qPCR resources
title_short Improvement of SARS-COV-2 screening using pooled sampling testing in limited RT-qPCR resources
title_sort improvement of sars-cov-2 screening using pooled sampling testing in limited rt-qpcr resources
topic Protocols
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8667353/
https://www.ncbi.nlm.nih.gov/pubmed/34915089
http://dx.doi.org/10.1016/j.jviromet.2021.114421
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