Sensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2

Digital

Autores:
Bautista, Leonelo E.
Villar, Luis A.
Cleves, Mario A.
Gelvez, Margarita
Lozano-Parra, Anyela
Bueno-Ariza, Nathalia
Orostegui-Arenas, Myriam
Martinez-Vega, Ruth Arali
Díaz-Galvis, Martha
Tipo de recurso:
Article of journal
Fecha de publicación:
2022
Institución:
Universidad de Santander
Repositorio:
Repositorio Universidad de Santander
Idioma:
eng
OAI Identifier:
oai:repositorio.udes.edu.co:001/7430
Acceso en línea:
https://repositorio.udes.edu.co/handle/001/7430
Palabra clave:
Polymerase chain reaction (PCR)
Pool testing
COVID-19
Mass screening
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
Colombia
Testing efficiency
Rights
openAccess
License
Copyright © 2009 - 2022 AME Publishing Company. All rights reserved.
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dc.title.spa.fl_str_mv Sensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2
title Sensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2
spellingShingle Sensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2
Polymerase chain reaction (PCR)
Pool testing
COVID-19
Mass screening
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
Colombia
Testing efficiency
title_short Sensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2
title_full Sensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2
title_fullStr Sensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2
title_full_unstemmed Sensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2
title_sort Sensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2
dc.creator.fl_str_mv Bautista, Leonelo E.
Villar, Luis A.
Cleves, Mario A.
Gelvez, Margarita
Lozano-Parra, Anyela
Bueno-Ariza, Nathalia
Orostegui-Arenas, Myriam
Martinez-Vega, Ruth Arali
Díaz-Galvis, Martha
dc.contributor.author.none.fl_str_mv Bautista, Leonelo E.
Villar, Luis A.
Cleves, Mario A.
Gelvez, Margarita
Lozano-Parra, Anyela
Bueno-Ariza, Nathalia
Orostegui-Arenas, Myriam
Martinez-Vega, Ruth Arali
Díaz-Galvis, Martha
dc.contributor.researchgroup.spa.fl_str_mv Salud Comuniudes
dc.subject.proposal.eng.fl_str_mv Polymerase chain reaction (PCR)
Pool testing
COVID-19
Mass screening
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
Colombia
Testing efficiency
topic Polymerase chain reaction (PCR)
Pool testing
COVID-19
Mass screening
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
Colombia
Testing efficiency
description Digital
publishDate 2022
dc.date.accessioned.none.fl_str_mv 2022-08-17T22:34:15Z
dc.date.available.none.fl_str_mv 2022-08-17T22:34:15Z
dc.date.issued.none.fl_str_mv 2022-06-05
dc.type.spa.fl_str_mv Artículo de revista
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dc.identifier.doi.none.fl_str_mv 10.21037/jphe-21-97
dc.identifier.eissn.spa.fl_str_mv 2520-0054
dc.identifier.issn.spa.fl_str_mv 2520-0054
dc.identifier.uri.none.fl_str_mv https://repositorio.udes.edu.co/handle/001/7430
identifier_str_mv 10.21037/jphe-21-97
2520-0054
url https://repositorio.udes.edu.co/handle/001/7430
dc.language.iso.spa.fl_str_mv eng
language eng
dc.relation.cites.none.fl_str_mv Bautista LE, Villar LA, Cleves MA, Gelvez M, Lozano-Parra A, Bueno-Ariza N, Oróstegui M, Martínez-Vega RA, Díaz-Galvis M. Sensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2. J Public Health Emerg 2022;6:12.
dc.relation.indexed.spa.fl_str_mv Scopus
dc.relation.ispartofjournal.spa.fl_str_mv Journal of Public Health and Emergency
dc.rights.spa.fl_str_mv Copyright © 2009 - 2022 AME Publishing Company. All rights reserved.
dc.rights.coar.fl_str_mv http://purl.org/coar/access_right/c_abf2
dc.rights.accessrights.spa.fl_str_mv info:eu-repo/semantics/openAccess
dc.rights.creativecommons.spa.fl_str_mv Atribución-NoComercial-SinDerivadas 4.0 Internacional (CC BY-NC-ND 4.0)
dc.rights.uri.spa.fl_str_mv https://creativecommons.org/licenses/by-nc-nd/4.0/
rights_invalid_str_mv Copyright © 2009 - 2022 AME Publishing Company. All rights reserved.
Atribución-NoComercial-SinDerivadas 4.0 Internacional (CC BY-NC-ND 4.0)
https://creativecommons.org/licenses/by-nc-nd/4.0/
http://purl.org/coar/access_right/c_abf2
eu_rights_str_mv openAccess
dc.format.extent.spa.fl_str_mv 9 p
dc.format.mimetype.spa.fl_str_mv application/pdf
dc.publisher.place.spa.fl_str_mv China
dc.source.spa.fl_str_mv https://jphe.amegroups.com/article/view/8090/html
institution Universidad de Santander
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spelling Bautista, Leonelo E.7b99d0fa-0f09-418b-8f61-b0316e3702a6-1Villar, Luis A.ea9e5d8d-3935-4f6f-b484-742516576e1c-1Cleves, Mario A.6beb344f-0290-4ece-a7be-8d3d292c3920-1Gelvez, Margarita4e315f80-d464-4e0f-8e13-cce67d5e34da-1Lozano-Parra, Anyela6aabacc0-5490-44b7-8247-804fe706c8c6-1Bueno-Ariza, Nathalia908f025d-7e26-4fee-8e1f-857f42e83a6e-1Orostegui-Arenas, Myriam3f01bcfc-b311-48fc-acf1-71f4b134651e-1Martinez-Vega, Ruth Arali3a299b14-cb0e-43eb-9dc7-c13a6bb8d446-1Díaz-Galvis, Marthac5a0e57c-0673-4416-afbe-ff78186ccb8b-1Salud Comuniudes2022-08-17T22:34:15Z2022-08-17T22:34:15Z2022-06-05DigitalBackground: In spite of the worth of pool testing in public health, data on the sensitivity and efficiency of real-time quantitative polymerase chain reaction (RT-qPCR) pool testing for the diagnosis of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection in middle and low-income countries are limited. Methods: We mixed single specimens of extracted RNA positive for the SARS-CoV-2 envelope (E) gene by RT-qPCR with negative specimens, in pools of 4 (n=89), 8 (n=92), 16 (n=102), and 32 (n=105) specimens each. We estimated the average change in cycle threshold (Ct) for each pool size and added it to the Ct values of the first 1,350 tests in our lab, to obtain dilution-corrected Ct values. We estimated pool sensitivity as the proportion of samples with dilution-corrected Ct >40, and used it in simulations of the efficiency (tests used/true case detected) of binary split pool testing. Results: We tested 388 pools. Average Ct changes were 2.21, 2.51, 3.27, and 3.94 cycles, for pools of 4, 8, 16, and 32 specimens, respectively. Corresponding pool tests sensitivities were 91.1%, 89.6%, 85.8% and 82.5%. Pool testing was substantially more efficient than individual testing. For prevalence of 0.5% to 2.0%, the efficiency of pools of ≥8 specimens was 30% to 280% higher, and the number of people tested was 4.4 to 13.9 times higher than those of individual testing. Conclusions: Binary split pool testing substantially increases the number of people tested and the number of true cases detected per test used. This strategy is key to curtail the transmission of SARS-CoV-2, by increasing efficiency in the identification and isolation of symptomatic and asymptomatic infected individuals.Ciencias Médicas y de la Salud9 papplication/pdf10.21037/jphe-21-972520-00542520-0054https://repositorio.udes.edu.co/handle/001/7430engChinaBautista LE, Villar LA, Cleves MA, Gelvez M, Lozano-Parra A, Bueno-Ariza N, Oróstegui M, Martínez-Vega RA, Díaz-Galvis M. Sensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2. J Public Health Emerg 2022;6:12.ScopusJournal of Public Health and EmergencyCopyright © 2009 - 2022 AME Publishing Company. All rights reserved.info:eu-repo/semantics/openAccessAtribución-NoComercial-SinDerivadas 4.0 Internacional (CC BY-NC-ND 4.0)https://creativecommons.org/licenses/by-nc-nd/4.0/http://purl.org/coar/access_right/c_abf2https://jphe.amegroups.com/article/view/8090/htmlPolymerase chain reaction (PCR)Pool testingCOVID-19Mass screeningSevere acute respiratory syndrome coronavirus 2 (SARS-CoV-2)ColombiaTesting efficiencySensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2Artículo de revistahttp://purl.org/coar/resource_type/c_6501http://purl.org/coar/resource_type/c_2df8fbb1Textinfo:eu-repo/semantics/articlehttp://purl.org/redcol/resource_type/ARTinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/version/c_970fb48d4fbd8a85Todas las AudienciasPublicationORIGINALSensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2.pdfSensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2.pdfapplication/pdf221059https://repositorio.udes.edu.co/bitstreams/4e7cb91e-5baf-44ff-9cee-5795b0270e58/download312d3d20e6b3c8da7a9899c3632f6e33MD51LICENSElicense.txtlicense.txttext/plain; charset=utf-859https://repositorio.udes.edu.co/bitstreams/1ce93e82-24ba-4b14-864b-1b764af11df5/download38d94cf55aa1bf2dac1a736ac45c881cMD52TEXTSensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2.pdf.txtSensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2.pdf.txtExtracted texttext/plain5https://repositorio.udes.edu.co/bitstreams/a543405c-bcd4-40c3-9f91-eadb37b80429/download5dbe86c1111d64f45ba435df98fdc825MD53THUMBNAILSensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2.pdf.jpgSensitivity and efficiency of RNA sample pooling for real-time quantitative polymerase chain reaction testing for SARS-CoV-2.pdf.jpgGenerated Thumbnailimage/jpeg10662https://repositorio.udes.edu.co/bitstreams/bf891aee-8b5d-41aa-aba3-8904c6779127/download8480ead7373f45da2fd08cdc09f8a7c8MD54001/7430oai:repositorio.udes.edu.co:001/74302023-10-10 10:55:40.481https://creativecommons.org/licenses/by-nc-nd/4.0/Copyright © 2009 - 2022 AME Publishing Company. 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