Adjusting the cut-off and maximum pool size in RT-qPCR pool testing for SARS-CoV-2.
Autor(a) principal: | |
---|---|
Data de Publicação: | 2021 |
Outros Autores: | , , , , , , , , , |
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. |
id |
UFOP_a8d68480e22e0071d88ee4f91a7c9f19 |
---|---|
oai_identifier_str |
oai:repositorio.ufop.br:123456789/14132 |
network_acronym_str |
UFOP |
network_name_str |
Repositório Institucional da UFOP |
repository_id_str |
3233 |
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 |
_version_ |
1813002806172319744 |