A straightforward one-step strategy for SARS-CoV-2 diagnosis and screening of variants of concern: a multicenter study
| Autor(a) principal: | |
|---|---|
| Data de Publicação: | 2023 |
| Outros Autores: | , , , , , , , , , , |
| Tipo de documento: | Artigo |
| Idioma: | eng |
| Título da fonte: | Repositório Institucional da FIOCRUZ (ARCA) |
| Texto Completo: | https://www.arca.fiocruz.br/handle/icict/57026 |
Resumo: | The Collaborative Study Group: Adriano Abbud, Claudio Tavares Sacchi, Karoline Rodrigues Campos (Adolfo Lutz Institute); Ana Flávia Mendonça, Luiz Augusto Pereira (Central Laboratory - Goiás); Jaqueline Pegoretti Goulart, Anna Clara Gregório Có (Central Laboratory - Espírito Santo); Lidio Gonçalves Lima Neto, Hivylla Lorrana dos Santos Ferreira (Central Laboratory - Maranhão); Maria do Carmo Debur, Guilherme Nardi Becker (Central Laboratory - Paraná); Tatiana Schaffer Gregianini, Richard Steiner Salvato (Central Laboratory - Rio Grande do Sul); Sandra Bianchini Fernandes, Darcita Buerger Rovaris (Central Laboratory - Santa Catarina); Andreia Santos Costa, Márcia Socorro Pereira Cavalcante (Central Laboratory - Amapá); Mirleide Cordeiro dos Santos, Luana Soares Barbagelata (Evandro Chagas Institute); Yasmin Santos Freitas Macêdo, Tiago Gräf (Fundação Oswaldo Cruz. Instituto Gonçalo Muniz. Salvador, BA, Brasil); Fabio Miyajima, Carlos Leonardo de Aragão Araujo, Joaquim Cesar do Nascimento Sousa Junior (Fundação Oswaldo Cruz. Fiocruz Ceará. Fortaleza, CE, Brasil). |
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Fontana-Maurell, MarcelaMotta, Fernando do CoutoBarcelos, Monica ArrudaCardoso, PedroRibeiro, MarisaAndrade, ElisabeteGodoy, Daniela T.Costa, ElaineRocha, DanieleSiqueira, Marilda Agudo M. T.Brindeiro, RodrigoAlvarez, Patricia2023-02-12T13:42:50Z2023-02-12T13:42:50Z2023FONTANA-Maurell, Marcela et al. A straightforward one-step strategy for SARS-CoV-2 diagnosis and screening of variants of concern: a multicenter study. Memórias do Instituto Oswaldo Cruz, Rio de Janeiro , v. 118, 220202, p. 1 -31, 2023.0074-0276https://www.arca.fiocruz.br/handle/icict/5702610.1590/0074-02760220202The Collaborative Study Group: Adriano Abbud, Claudio Tavares Sacchi, Karoline Rodrigues Campos (Adolfo Lutz Institute); Ana Flávia Mendonça, Luiz Augusto Pereira (Central Laboratory - Goiás); Jaqueline Pegoretti Goulart, Anna Clara Gregório Có (Central Laboratory - Espírito Santo); Lidio Gonçalves Lima Neto, Hivylla Lorrana dos Santos Ferreira (Central Laboratory - Maranhão); Maria do Carmo Debur, Guilherme Nardi Becker (Central Laboratory - Paraná); Tatiana Schaffer Gregianini, Richard Steiner Salvato (Central Laboratory - Rio Grande do Sul); Sandra Bianchini Fernandes, Darcita Buerger Rovaris (Central Laboratory - Santa Catarina); Andreia Santos Costa, Márcia Socorro Pereira Cavalcante (Central Laboratory - Amapá); Mirleide Cordeiro dos Santos, Luana Soares Barbagelata (Evandro Chagas Institute); Yasmin Santos Freitas Macêdo, Tiago Gräf (Fundação Oswaldo Cruz. Instituto Gonçalo Muniz. Salvador, BA, Brasil); Fabio Miyajima, Carlos Leonardo de Aragão Araujo, Joaquim Cesar do Nascimento Sousa Junior (Fundação Oswaldo Cruz. Fiocruz Ceará. Fortaleza, CE, Brasil).Fundação Oswaldo Cruz. Instituto de Tecnologia de Imunobiológicos Bio-Manguinhos. Rio de Janeiro RJ, Brasil / Universidade Federal do Rio de Janeiro. Departamento de Genética. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto de Tecnologia de Imunobiológicos Bio-Manguinhos. Rio de Janeiro RJ, Brasil.Fundação Oswaldo Cruz. Instituto de Tecnologia de Imunobiológicos Bio-Manguinhos. Rio de Janeiro RJ, Brasil.Fundação Oswaldo Cruz. Instituto de Tecnologia de Imunobiológicos Bio-Manguinhos. Rio de Janeiro RJ, Brasil.Fundação Oswaldo Cruz. Instituto de Tecnologia de Imunobiológicos Bio-Manguinhos. Rio de Janeiro RJ, Brasil.Fundação Oswaldo Cruz. Instituto de Tecnologia de Imunobiológicos Bio-Manguinhos. Rio de Janeiro RJ, Brasil.Fundação Oswaldo Cruz. Instituto de Tecnologia de Imunobiológicos Bio-Manguinhos. Rio de Janeiro RJ, Brasil.Fundação Oswaldo Cruz. Instituto de Tecnologia de Imunobiológicos Bio-Manguinhos. Rio de Janeiro RJ, Brasil.Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Vírus Respiratório e do Sarampo. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto de Tecnologia de Imunobiológicos Bio-Manguinhos. Rio de Janeiro RJ, Brasil / Universidade Federal do Rio de Janeiro. Departamento de Genética. Rio de Janeiro, RJ, Brasil.Fundação Oswaldo Cruz. Instituto de Tecnologia de Imunobiológicos Bio-Manguinhos. Rio de Janeiro RJ, Brasil.Background: The prevalence of SARS-CoV-2 variants of concern (VOCs) has changed unevenly over time around the world. Although whole genome sequencing is the gold standard for virus characterization, the discovery of alpha VOC causing spike gene target failure (SGTF) result, when tested using an RT-qPCR assay, has provided a simple tool for tracking the frequencies of variants. Objectives: The aim of this study was to investigate if a multiplex RT-qPCR assay (BioM 4Plex VOC) could be used to detect SARS-CoV-2 and to perform a VOC screening test in a single reaction tube. Here, we present the multicenter study evaluating this assay. Methods: Twelve laboratories have participated in the multicenter study. The BioM 4Plex VOC was distributed to them with detailed instructions of how to perform the test. They were asked to test the BioM 4Plex VOC in parallel with their routine Commercial SARS-CoV-2 diagnostic assay. Additionally, they were requested to select SARS-CoV-2-positive samples with genome sequenced and lineage definition according to PANGO lineage classification. Findings: The BioM 4Plex VOC and commercial RT-PCR assay are equally effective in detecting SARS-CoV-2. Results revealed a specificity of 96.5 – 100% [95% confidence interval (CI)], a sensitivity of 99.8 – 100% (95% CI), and an accuracy of 99.8 – 100% (95% CI). A 99% concordance rate was found between results from the BioM 4Plex VOC and that from available genome sequencing data. Main conclusions: The BioM 4Plex VOC provides an effective solution to detect SARS-CoV-2 infections and screening for VOCs in a single reaction. It is a straightforward method to help us monitor the frequency and distribution of VOCs and develop strategies to better cope with the pandemics.enghttps://www.arca.fiocruz.br/handle/icict/57809COVID-19Diagnóstico SARS-CoV-2Variantes de PreocupaçãoVigilância epidemiológicaSARS-CoV-2 diagnosisVariants of ConcernEpidemiological surveillanceCOVID-19A straightforward one-step strategy for SARS-CoV-2 diagnosis and screening of variants of concern: a multicenter studyinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleinfo:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZLICENSElicense.txtlicense.txttext/plain; charset=utf-82991https://www.arca.fiocruz.br/bitstream/icict/57026/1/license.txt5a560609d32a3863062d77ff32785d58MD51ORIGINALMarildaSiqueira_etal_IOC_2022.pdfMarildaSiqueira_etal_IOC_2022.pdfapplication/pdf566437https://www.arca.fiocruz.br/bitstream/icict/57026/2/MarildaSiqueira_etal_IOC_2022.pdfe1e5473bda5381327c347f7f946f47f4MD52icict/570262023-06-05 12:14:56.971oai:www.arca.fiocruz.br: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ório 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| dc.title.en_US.fl_str_mv |
A straightforward one-step strategy for SARS-CoV-2 diagnosis and screening of variants of concern: a multicenter study |
| title |
A straightforward one-step strategy for SARS-CoV-2 diagnosis and screening of variants of concern: a multicenter study |
| spellingShingle |
A straightforward one-step strategy for SARS-CoV-2 diagnosis and screening of variants of concern: a multicenter study Fontana-Maurell, Marcela COVID-19 Diagnóstico SARS-CoV-2 Variantes de Preocupação Vigilância epidemiológica SARS-CoV-2 diagnosis Variants of Concern Epidemiological surveillance COVID-19 |
| title_short |
A straightforward one-step strategy for SARS-CoV-2 diagnosis and screening of variants of concern: a multicenter study |
| title_full |
A straightforward one-step strategy for SARS-CoV-2 diagnosis and screening of variants of concern: a multicenter study |
| title_fullStr |
A straightforward one-step strategy for SARS-CoV-2 diagnosis and screening of variants of concern: a multicenter study |
| title_full_unstemmed |
A straightforward one-step strategy for SARS-CoV-2 diagnosis and screening of variants of concern: a multicenter study |
| title_sort |
A straightforward one-step strategy for SARS-CoV-2 diagnosis and screening of variants of concern: a multicenter study |
| author |
Fontana-Maurell, Marcela |
| author_facet |
Fontana-Maurell, Marcela Motta, Fernando do Couto Barcelos, Monica Arruda Cardoso, Pedro Ribeiro, Marisa Andrade, Elisabete Godoy, Daniela T. Costa, Elaine Rocha, Daniele Siqueira, Marilda Agudo M. T. Brindeiro, Rodrigo Alvarez, Patricia |
| author_role |
author |
| author2 |
Motta, Fernando do Couto Barcelos, Monica Arruda Cardoso, Pedro Ribeiro, Marisa Andrade, Elisabete Godoy, Daniela T. Costa, Elaine Rocha, Daniele Siqueira, Marilda Agudo M. T. Brindeiro, Rodrigo Alvarez, Patricia |
| author2_role |
author author author author author author author author author author author |
| dc.contributor.author.fl_str_mv |
Fontana-Maurell, Marcela Motta, Fernando do Couto Barcelos, Monica Arruda Cardoso, Pedro Ribeiro, Marisa Andrade, Elisabete Godoy, Daniela T. Costa, Elaine Rocha, Daniele Siqueira, Marilda Agudo M. T. Brindeiro, Rodrigo Alvarez, Patricia |
| dc.subject.other.en_US.fl_str_mv |
COVID-19 Diagnóstico SARS-CoV-2 Variantes de Preocupação Vigilância epidemiológica |
| topic |
COVID-19 Diagnóstico SARS-CoV-2 Variantes de Preocupação Vigilância epidemiológica SARS-CoV-2 diagnosis Variants of Concern Epidemiological surveillance COVID-19 |
| dc.subject.en.en_US.fl_str_mv |
SARS-CoV-2 diagnosis Variants of Concern Epidemiological surveillance COVID-19 |
| description |
The Collaborative Study Group: Adriano Abbud, Claudio Tavares Sacchi, Karoline Rodrigues Campos (Adolfo Lutz Institute); Ana Flávia Mendonça, Luiz Augusto Pereira (Central Laboratory - Goiás); Jaqueline Pegoretti Goulart, Anna Clara Gregório Có (Central Laboratory - Espírito Santo); Lidio Gonçalves Lima Neto, Hivylla Lorrana dos Santos Ferreira (Central Laboratory - Maranhão); Maria do Carmo Debur, Guilherme Nardi Becker (Central Laboratory - Paraná); Tatiana Schaffer Gregianini, Richard Steiner Salvato (Central Laboratory - Rio Grande do Sul); Sandra Bianchini Fernandes, Darcita Buerger Rovaris (Central Laboratory - Santa Catarina); Andreia Santos Costa, Márcia Socorro Pereira Cavalcante (Central Laboratory - Amapá); Mirleide Cordeiro dos Santos, Luana Soares Barbagelata (Evandro Chagas Institute); Yasmin Santos Freitas Macêdo, Tiago Gräf (Fundação Oswaldo Cruz. Instituto Gonçalo Muniz. Salvador, BA, Brasil); Fabio Miyajima, Carlos Leonardo de Aragão Araujo, Joaquim Cesar do Nascimento Sousa Junior (Fundação Oswaldo Cruz. Fiocruz Ceará. Fortaleza, CE, Brasil). |
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2023 |
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2023-02-12T13:42:50Z |
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2023-02-12T13:42:50Z |
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2023 |
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info:eu-repo/semantics/publishedVersion |
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info:eu-repo/semantics/article |
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article |
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FONTANA-Maurell, Marcela et al. A straightforward one-step strategy for SARS-CoV-2 diagnosis and screening of variants of concern: a multicenter study. Memórias do Instituto Oswaldo Cruz, Rio de Janeiro , v. 118, 220202, p. 1 -31, 2023. |
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https://www.arca.fiocruz.br/handle/icict/57026 |
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0074-0276 |
| dc.identifier.doi.none.fl_str_mv |
10.1590/0074-02760220202 |
| identifier_str_mv |
FONTANA-Maurell, Marcela et al. A straightforward one-step strategy for SARS-CoV-2 diagnosis and screening of variants of concern: a multicenter study. Memórias do Instituto Oswaldo Cruz, Rio de Janeiro , v. 118, 220202, p. 1 -31, 2023. 0074-0276 10.1590/0074-02760220202 |
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https://www.arca.fiocruz.br/handle/icict/57026 |
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eng |
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eng |
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https://www.arca.fiocruz.br/handle/icict/57809 |
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