A molecular test based on RT-LAMP for rapid, sensitive and inexpensive colorimetric detection of SARS-CoV-2 in clinical samples

Bibliographic Details
Main Author: Amaral, Catarina
Publication Date: 2021
Other Authors: Antunes, Wilson, Moe, Elin, Duarte, Américo G., Lima, Luís M.P., Santos, Cristiana, Gomes, Inês L., Afonso, Gonçalo S., Vieira, Ricardo, Teles, Helena Sofia S., Reis, Marisa S., da Silva, Manuel A.Ramalho, Henriques, Ana Margarida, Fevereiro, Miguel, Ventura, M. Rita, Serrano, Mónica, Pimentel, Catarina
Format: Article
Language: eng
Source: Repositórios Científicos de Acesso Aberto de Portugal (RCAAP)
Download full: http://hdl.handle.net/10362/142211
Summary: Funding Information: We thank the members of the COVID-19 task force of ITQB NOVA and Mariana Pinho for helpful discussions and suggestions. In particular, we thank Claudio M. Soares and Adriano O. Henriques for their unconditional support and invaluable help in making this work possible. The authors acknowledge the assistance of Paula Chi-cau, ITQB NOVA, in the development of the saliva test and are grateful to Chuck Farah, São Paulo University, for the pGTf2 plasmid. This work was supported by (i) Project LISBOA-01-0145-FEDER-007660 (“Microbiologia Molecular, Estrutural e Celular”) funded by FEDER funds through COMPETE2020—“Programa Operacional Competitividade e Internacionalização” (POCI), (ii) the European Union’s Horizon 2020 research and innovation programme under grant agreement No 810856 and (iii) “Fundação para a Ciência e a Tecnologia” (FCT) through programme IF (IF/00124/2015) to C.P, (iv) through the project “DETECT: Development of an Easy, fast-Track and Economical Colorimetric Test for autonomous national diagnosis of COVID-19” Ref 433_613549914 (20/7/153), attributed to C.P., under the scope of the 2nd edition of the programme RESEARCH4COVID19 and partially supported by (v) the project “STOP-COVID—Strategies to prevent COVID-19 by early detection of asymptomatic carriers at increased risk: epidemiological studies and validation of a rapid in-house diagnostic test”, Ref 072559, funded by FEDER—“Fundo Europeu de Desenvolvimento Regional” from “Programa Opera-cional Regional Lisboa”. Publisher Copyright: © 2021, The Author(s).
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spelling A molecular test based on RT-LAMP for rapid, sensitive and inexpensive colorimetric detection of SARS-CoV-2 in clinical samplesGeneralSDG 3 - Good Health and Well-beingFunding Information: We thank the members of the COVID-19 task force of ITQB NOVA and Mariana Pinho for helpful discussions and suggestions. In particular, we thank Claudio M. Soares and Adriano O. Henriques for their unconditional support and invaluable help in making this work possible. The authors acknowledge the assistance of Paula Chi-cau, ITQB NOVA, in the development of the saliva test and are grateful to Chuck Farah, São Paulo University, for the pGTf2 plasmid. This work was supported by (i) Project LISBOA-01-0145-FEDER-007660 (“Microbiologia Molecular, Estrutural e Celular”) funded by FEDER funds through COMPETE2020—“Programa Operacional Competitividade e Internacionalização” (POCI), (ii) the European Union’s Horizon 2020 research and innovation programme under grant agreement No 810856 and (iii) “Fundação para a Ciência e a Tecnologia” (FCT) through programme IF (IF/00124/2015) to C.P, (iv) through the project “DETECT: Development of an Easy, fast-Track and Economical Colorimetric Test for autonomous national diagnosis of COVID-19” Ref 433_613549914 (20/7/153), attributed to C.P., under the scope of the 2nd edition of the programme RESEARCH4COVID19 and partially supported by (v) the project “STOP-COVID—Strategies to prevent COVID-19 by early detection of asymptomatic carriers at increased risk: epidemiological studies and validation of a rapid in-house diagnostic test”, Ref 072559, funded by FEDER—“Fundo Europeu de Desenvolvimento Regional” from “Programa Opera-cional Regional Lisboa”. Publisher Copyright: © 2021, The Author(s).Until there is an effective implementation of COVID-19 vaccination program, a robust testing strategy, along with prevention measures, will continue to be the most viable way to control disease spread. Such a strategy should rely on disparate diagnostic tests to prevent a slowdown in testing due to lack of materials and reagents imposed by supply chain problems, which happened at the beginning of the pandemic. In this study, we have established a single-tube test based on RT-LAMP that enables the visual detection of less than 100 viral genome copies of SARS-CoV-2 within 30 min. We benchmarked the assay against the gold standard test for COVID-19 diagnosis, RT-PCR, using 177 nasopharyngeal RNA samples. For viral loads above 100 copies, the RT-LAMP assay had a sensitivity of 100% and a specificity of 96.1%. Additionally, we set up a RNA extraction-free RT-LAMP test capable of detecting SARS-CoV-2 directly from saliva samples, albeit with lower sensitivity. The saliva was self-collected and the collection tube remained closed until inactivation, thereby ensuring the protection of the testing personnel. As expected, RNA extraction from saliva samples increased the sensitivity of the test. To lower the costs associated with RNA extraction, we performed this step using an alternative protocol that uses plasmid DNA extraction columns. We also produced the enzymes needed for the assay and established an in-house-made RT-LAMP test independent of specific distribution channels. Finally, we developed a new colorimetric method that allowed the detection of LAMP products by the visualization of an evident color shift, regardless of the reaction pH.Instituto de Tecnologia Química e Biológica António Xavier (ITQB)RUNAmaral, CatarinaAntunes, WilsonMoe, ElinDuarte, Américo G.Lima, Luís M.P.Santos, CristianaGomes, Inês L.Afonso, Gonçalo S.Vieira, RicardoTeles, Helena Sofia S.Reis, Marisa S.da Silva, Manuel A.RamalhoHenriques, Ana MargaridaFevereiro, MiguelVentura, M. RitaSerrano, MónicaPimentel, Catarina2022-07-20T22:29:43Z2021-122021-12-01T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/10362/142211eng2045-2322PURE: 35415001https://doi.org/10.1038/s41598-021-95799-6info:eu-repo/semantics/openAccessreponame:Repositórios Científicos de Acesso Aberto de Portugal (RCAAP)instname:FCCN, serviços digitais da FCT – Fundação para a Ciência e a Tecnologiainstacron:RCAAP2024-05-22T18:03:40Zoai:run.unl.pt:10362/142211Portal AgregadorONGhttps://www.rcaap.pt/oai/openaireinfo@rcaap.ptopendoar:https://opendoar.ac.uk/repository/71602025-05-28T17:34:24.104294Repositórios Científicos de Acesso Aberto de Portugal (RCAAP) - FCCN, serviços digitais da FCT – Fundação para a Ciência e a Tecnologiafalse
dc.title.none.fl_str_mv A molecular test based on RT-LAMP for rapid, sensitive and inexpensive colorimetric detection of SARS-CoV-2 in clinical samples
title A molecular test based on RT-LAMP for rapid, sensitive and inexpensive colorimetric detection of SARS-CoV-2 in clinical samples
spellingShingle A molecular test based on RT-LAMP for rapid, sensitive and inexpensive colorimetric detection of SARS-CoV-2 in clinical samples
Amaral, Catarina
General
SDG 3 - Good Health and Well-being
title_short A molecular test based on RT-LAMP for rapid, sensitive and inexpensive colorimetric detection of SARS-CoV-2 in clinical samples
title_full A molecular test based on RT-LAMP for rapid, sensitive and inexpensive colorimetric detection of SARS-CoV-2 in clinical samples
title_fullStr A molecular test based on RT-LAMP for rapid, sensitive and inexpensive colorimetric detection of SARS-CoV-2 in clinical samples
title_full_unstemmed A molecular test based on RT-LAMP for rapid, sensitive and inexpensive colorimetric detection of SARS-CoV-2 in clinical samples
title_sort A molecular test based on RT-LAMP for rapid, sensitive and inexpensive colorimetric detection of SARS-CoV-2 in clinical samples
author Amaral, Catarina
author_facet Amaral, Catarina
Antunes, Wilson
Moe, Elin
Duarte, Américo G.
Lima, Luís M.P.
Santos, Cristiana
Gomes, Inês L.
Afonso, Gonçalo S.
Vieira, Ricardo
Teles, Helena Sofia S.
Reis, Marisa S.
da Silva, Manuel A.Ramalho
Henriques, Ana Margarida
Fevereiro, Miguel
Ventura, M. Rita
Serrano, Mónica
Pimentel, Catarina
author_role author
author2 Antunes, Wilson
Moe, Elin
Duarte, Américo G.
Lima, Luís M.P.
Santos, Cristiana
Gomes, Inês L.
Afonso, Gonçalo S.
Vieira, Ricardo
Teles, Helena Sofia S.
Reis, Marisa S.
da Silva, Manuel A.Ramalho
Henriques, Ana Margarida
Fevereiro, Miguel
Ventura, M. Rita
Serrano, Mónica
Pimentel, Catarina
author2_role author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
dc.contributor.none.fl_str_mv Instituto de Tecnologia Química e Biológica António Xavier (ITQB)
RUN
dc.contributor.author.fl_str_mv Amaral, Catarina
Antunes, Wilson
Moe, Elin
Duarte, Américo G.
Lima, Luís M.P.
Santos, Cristiana
Gomes, Inês L.
Afonso, Gonçalo S.
Vieira, Ricardo
Teles, Helena Sofia S.
Reis, Marisa S.
da Silva, Manuel A.Ramalho
Henriques, Ana Margarida
Fevereiro, Miguel
Ventura, M. Rita
Serrano, Mónica
Pimentel, Catarina
dc.subject.por.fl_str_mv General
SDG 3 - Good Health and Well-being
topic General
SDG 3 - Good Health and Well-being
description Funding Information: We thank the members of the COVID-19 task force of ITQB NOVA and Mariana Pinho for helpful discussions and suggestions. In particular, we thank Claudio M. Soares and Adriano O. Henriques for their unconditional support and invaluable help in making this work possible. The authors acknowledge the assistance of Paula Chi-cau, ITQB NOVA, in the development of the saliva test and are grateful to Chuck Farah, São Paulo University, for the pGTf2 plasmid. This work was supported by (i) Project LISBOA-01-0145-FEDER-007660 (“Microbiologia Molecular, Estrutural e Celular”) funded by FEDER funds through COMPETE2020—“Programa Operacional Competitividade e Internacionalização” (POCI), (ii) the European Union’s Horizon 2020 research and innovation programme under grant agreement No 810856 and (iii) “Fundação para a Ciência e a Tecnologia” (FCT) through programme IF (IF/00124/2015) to C.P, (iv) through the project “DETECT: Development of an Easy, fast-Track and Economical Colorimetric Test for autonomous national diagnosis of COVID-19” Ref 433_613549914 (20/7/153), attributed to C.P., under the scope of the 2nd edition of the programme RESEARCH4COVID19 and partially supported by (v) the project “STOP-COVID—Strategies to prevent COVID-19 by early detection of asymptomatic carriers at increased risk: epidemiological studies and validation of a rapid in-house diagnostic test”, Ref 072559, funded by FEDER—“Fundo Europeu de Desenvolvimento Regional” from “Programa Opera-cional Regional Lisboa”. Publisher Copyright: © 2021, The Author(s).
publishDate 2021
dc.date.none.fl_str_mv 2021-12
2021-12-01T00:00:00Z
2022-07-20T22:29:43Z
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PURE: 35415001
https://doi.org/10.1038/s41598-021-95799-6
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