Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2.

Detalhes bibliográficos
Autor(a) principal: Costa, Murilo Soares
Data de Publicação: 2021
Outros Autores: Sato, Hugo I., Rocha, Raissa Prado, Carvalho, Alex Fiorini Coelho, Guimarães, Nathalia Sernizon, Machado, Elaine Leandro, Alves, Claudia Regina Lindgren, Teixeira, Santuza Maria Ribeiro, Takahashi, Ricardo Hiroshi Caldeira, Tupinambás, Unaí, Fonseca, Flávio Guimarães da
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da UFOP
Texto Completo: http://www.repositorio.ufop.br/jspui/handle/123456789/14132
https://doi.org/10.3390/v13040557
Resumo: Reverse transcription quantitative real-time polymerase chain reaction (RT-qPCR) to detect SARS-CoV-2 RNA is an essential test to monitor the occurrence of COVID-19. A methodology is proposed for the determination of maximum pool size and adjustments of cut-off values of cycle threshold (Ct in RT-qPCR pool testing, to compensate for the dilution caused by pooling. The trade off between pool size and test sensitivity is stated explicitly. The procedure was designed to ensure that samples that would be detectable in individual testing remain detectable in pool testing. The proposed relaxation in cut-off is dependent on the pool size, allowing a relatively tight correction to avoid loss of detection of positive samples. The methodology was evaluated in a study of pool testing of adults attending a public emergency care unit, reference for COVID-19 in Belo Horizonte, Brazil, and presenting flu-like symptoms. Even samples on the edge of detectability in individual testing were detected correctly. The proposed procedure enhances the consistency of RT-qPCR pool testing by enforcing that the scales of detectability in pool processing and in individual sample processing are compatible. This may enhance the contribution of pool testing to large-scale testing for COVID-19.
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spelling Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2.Reverse transcription quantitative real-time polymerase chain reaction (RT-qPCR) to detect SARS-CoV-2 RNA is an essential test to monitor the occurrence of COVID-19. A methodology is proposed for the determination of maximum pool size and adjustments of cut-off values of cycle threshold (Ct in RT-qPCR pool testing, to compensate for the dilution caused by pooling. The trade off between pool size and test sensitivity is stated explicitly. The procedure was designed to ensure that samples that would be detectable in individual testing remain detectable in pool testing. The proposed relaxation in cut-off is dependent on the pool size, allowing a relatively tight correction to avoid loss of detection of positive samples. The methodology was evaluated in a study of pool testing of adults attending a public emergency care unit, reference for COVID-19 in Belo Horizonte, Brazil, and presenting flu-like symptoms. Even samples on the edge of detectability in individual testing were detected correctly. The proposed procedure enhances the consistency of RT-qPCR pool testing by enforcing that the scales of detectability in pool processing and in individual sample processing are compatible. This may enhance the contribution of pool testing to large-scale testing for COVID-19.2021-12-09T14:50:32Z2021-12-09T14:50:32Z2021info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfCOSTA, M. S. et al. Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2. Viruses, v. 13, n. 4, artigo 557, 2021. Disponível em: <https://www.mdpi.com/1999-4915/13/4/557>. Acesso em: 10 jun. 2021.1999-4915http://www.repositorio.ufop.br/jspui/handle/123456789/14132https://doi.org/10.3390/v13040557This 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/). Fonte: o PDF do artigo.info:eu-repo/semantics/openAccessCosta, Murilo SoaresSato, Hugo I.Rocha, Raissa PradoCarvalho, Alex Fiorini CoelhoGuimarães, Nathalia SernizonMachado, Elaine LeandroAlves, Claudia Regina LindgrenTeixeira, Santuza Maria RibeiroTakahashi, Ricardo Hiroshi CaldeiraTupinambás, UnaíFonseca, Flávio Guimarães daengreponame:Repositório Institucional da UFOPinstname:Universidade Federal de Ouro Preto (UFOP)instacron:UFOP2024-01-25T19:59:30Zoai:repositorio.ufop.br:123456789/14132Repositório InstitucionalPUBhttp://www.repositorio.ufop.br/oai/requestrepositorio@ufop.edu.bropendoar:32332024-01-25T19:59:30Repositório Institucional da UFOP - Universidade Federal de Ouro Preto (UFOP)false
dc.title.none.fl_str_mv Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2.
title Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2.
spellingShingle Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2.
Costa, Murilo Soares
title_short Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2.
title_full Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2.
title_fullStr Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2.
title_full_unstemmed Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2.
title_sort Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2.
author Costa, Murilo Soares
author_facet Costa, Murilo Soares
Sato, Hugo I.
Rocha, Raissa Prado
Carvalho, Alex Fiorini Coelho
Guimarães, Nathalia Sernizon
Machado, Elaine Leandro
Alves, Claudia Regina Lindgren
Teixeira, Santuza Maria Ribeiro
Takahashi, Ricardo Hiroshi Caldeira
Tupinambás, Unaí
Fonseca, Flávio Guimarães da
author_role author
author2 Sato, Hugo I.
Rocha, Raissa Prado
Carvalho, Alex Fiorini Coelho
Guimarães, Nathalia Sernizon
Machado, Elaine Leandro
Alves, Claudia Regina Lindgren
Teixeira, Santuza Maria Ribeiro
Takahashi, Ricardo Hiroshi Caldeira
Tupinambás, Unaí
Fonseca, Flávio Guimarães da
author2_role author
author
author
author
author
author
author
author
author
author
dc.contributor.author.fl_str_mv Costa, Murilo Soares
Sato, Hugo I.
Rocha, Raissa Prado
Carvalho, Alex Fiorini Coelho
Guimarães, Nathalia Sernizon
Machado, Elaine Leandro
Alves, Claudia Regina Lindgren
Teixeira, Santuza Maria Ribeiro
Takahashi, Ricardo Hiroshi Caldeira
Tupinambás, Unaí
Fonseca, Flávio Guimarães da
description Reverse transcription quantitative real-time polymerase chain reaction (RT-qPCR) to detect SARS-CoV-2 RNA is an essential test to monitor the occurrence of COVID-19. A methodology is proposed for the determination of maximum pool size and adjustments of cut-off values of cycle threshold (Ct in RT-qPCR pool testing, to compensate for the dilution caused by pooling. The trade off between pool size and test sensitivity is stated explicitly. The procedure was designed to ensure that samples that would be detectable in individual testing remain detectable in pool testing. The proposed relaxation in cut-off is dependent on the pool size, allowing a relatively tight correction to avoid loss of detection of positive samples. The methodology was evaluated in a study of pool testing of adults attending a public emergency care unit, reference for COVID-19 in Belo Horizonte, Brazil, and presenting flu-like symptoms. Even samples on the edge of detectability in individual testing were detected correctly. The proposed procedure enhances the consistency of RT-qPCR pool testing by enforcing that the scales of detectability in pool processing and in individual sample processing are compatible. This may enhance the contribution of pool testing to large-scale testing for COVID-19.
publishDate 2021
dc.date.none.fl_str_mv 2021-12-09T14:50:32Z
2021-12-09T14:50:32Z
2021
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
format article
status_str publishedVersion
dc.identifier.uri.fl_str_mv COSTA, M. S. et al. Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2. Viruses, v. 13, n. 4, artigo 557, 2021. Disponível em: <https://www.mdpi.com/1999-4915/13/4/557>. Acesso em: 10 jun. 2021.
1999-4915
http://www.repositorio.ufop.br/jspui/handle/123456789/14132
https://doi.org/10.3390/v13040557
identifier_str_mv COSTA, M. S. et al. Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2. Viruses, v. 13, n. 4, artigo 557, 2021. Disponível em: <https://www.mdpi.com/1999-4915/13/4/557>. Acesso em: 10 jun. 2021.
1999-4915
url http://www.repositorio.ufop.br/jspui/handle/123456789/14132
https://doi.org/10.3390/v13040557
dc.language.iso.fl_str_mv eng
language eng
dc.rights.driver.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
dc.source.none.fl_str_mv reponame:Repositório Institucional da UFOP
instname:Universidade Federal de Ouro Preto (UFOP)
instacron:UFOP
instname_str Universidade Federal de Ouro Preto (UFOP)
instacron_str UFOP
institution UFOP
reponame_str Repositório Institucional da UFOP
collection Repositório Institucional da UFOP
repository.name.fl_str_mv Repositório Institucional da UFOP - Universidade Federal de Ouro Preto (UFOP)
repository.mail.fl_str_mv repositorio@ufop.edu.br
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