Accuracy of saliva for SARS-CoV-2 detection in outpatients and their household contacts during the circulation of the Omicron variant of concern

Detalhes bibliográficos
Autor(a) principal: Calvet, Guilherme
Data de Publicação: 2023
Outros Autores: Ogrzewalska, Maria, Tassinari, Wagner, Guaraldo, Lusiele, Resende, Paola, Fuller, Trevon, Penetra, Stephanie, Borges, Michele, Pina-Costa, Anielle, Martins, Ezequias, Moraes, Isabella, Santos, Heloisa, Damasceno, Luana, Medeiros-Filho, Fernando, Espindola, Otavio, Mota, Fernando, Nacife, Valéria, Pauvolid-Corrêa, Alex, Whitworth, Jimmy, Smith, Chris, Siqueira, Marilda, Brasil, Patrícia
Tipo de documento: Artigo
Idioma: eng
Título da fonte: Repositório Institucional da FIOCRUZ (ARCA)
Texto Completo: https://www.arca.fiocruz.br/handle/icict/60234
Resumo: This work was funded by the Carlos Chagas Filho Foundation for Research Support of the State of Rio de Janeiro (FAPERJ) [FAPERJ/E26/201.379/2021 JCNE (G.C), [FAPERJ/E‑26/210.146/2020 COVID (P.B); FAPERJ/E‑26/200.935/2022 CNE (P.B), FAPERJ/E26/210.196/2020 (M.S)]; Department of Science and Technology (DECIT) of the Brazilian Ministry of Health (25000.072811/2016‑19) (P.B), The National Council for Scientific and Technological Development (CNPq), Ministry of Science, Technology and Innovation (MCT) [402457/2020‑0] (M.S); INOVA Oswaldo Cruz Foundation (Fiocruz) [VPPCB‑005‑FIO‑20‑2] (M.S); UK Medical Research Council [MR/V033530/1] (J.W and C.S). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
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spelling Calvet, GuilhermeOgrzewalska, MariaTassinari, WagnerGuaraldo, LusieleResende, PaolaFuller, TrevonPenetra, StephanieBorges, MichelePina-Costa, AnielleMartins, EzequiasMoraes, IsabellaSantos, HeloisaDamasceno, LuanaMedeiros-Filho, FernandoEspindola, OtavioMota, FernandoNacife, ValériaPauvolid-Corrêa, AlexWhitworth, JimmySmith, ChrisSiqueira, MarildaBrasil, Patrícia2023-08-25T23:23:40Z2023-08-25T23:23:40Z2023CALVET, Guilherme et al. Accuracy of saliva for SARS-CoV-2 detection in outpatients and their household contacts during the circulation of the Omicron variant of concern. BMC Infectious Diseases, v. 13, p. 1-9, May 2023.1471-2334https://www.arca.fiocruz.br/handle/icict/6023410.1186/s12879-023-08271-3This work was funded by the Carlos Chagas Filho Foundation for Research Support of the State of Rio de Janeiro (FAPERJ) [FAPERJ/E26/201.379/2021 JCNE (G.C), [FAPERJ/E‑26/210.146/2020 COVID (P.B); FAPERJ/E‑26/200.935/2022 CNE (P.B), FAPERJ/E26/210.196/2020 (M.S)]; Department of Science and Technology (DECIT) of the Brazilian Ministry of Health (25000.072811/2016‑19) (P.B), The National Council for Scientific and Technological Development (CNPq), Ministry of Science, Technology and Innovation (MCT) [402457/2020‑0] (M.S); INOVA Oswaldo Cruz Foundation (Fiocruz) [VPPCB‑005‑FIO‑20‑2] (M.S); UK Medical Research Council [MR/V033530/1] (J.W and C.S). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.Oswaldo Cruz Foundation. Evandro Chagas National Institute of Infectious Diseases. Acute Febrile Illnesses Laboratory. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Oswaldo Cruz Institute. Rio de Janeiro, RJ, Brazil / SARS-CoV-2 National Reference Laboratory. Brazilian Ministry of Health (MoH) and Regional Reference Laboratory in Americas. Pan-American Health Organization. Rio de Janeiro, RJ, Brazil.Federal Rural University of Rio de Janeiro. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Evandro Chagas National Institute of Infectious Diseases. Acute Febrile Illnesses Laboratory. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Oswaldo Cruz Institute. Rio de Janeiro, RJ, Brazil / SARS-CoV-2 National Reference Laboratory. Brazilian Ministry of Health (MoH) and Regional Reference Laboratory in Americas. Pan-American Health Organization. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Evandro Chagas National Institute of Infectious Diseases. Acute Febrile Illnesses Laboratory. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Evandro Chagas National Institute of Infectious Diseases. Acute Febrile Illnesses Laboratory. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Evandro Chagas National Institute of Infectious Diseases. Acute Febrile Illnesses Laboratory. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Evandro Chagas National Institute of Infectious Diseases. Acute Febrile Illnesses Laboratory. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Evandro Chagas National Institute of Infectious Diseases. Acute Febrile Illnesses Laboratory. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Evandro Chagas National Institute of Infectious Diseases. Acute Febrile Illnesses Laboratory. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Evandro Chagas National Institute of Infectious Diseases. Acute Febrile Illnesses Laboratory. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Evandro Chagas National Institute of Infectious Diseases. Acute Febrile Illnesses Laboratory. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Evandro Chagas National Institute of Infectious Diseases. Acute Febrile Illnesses Laboratory. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Evandro Chagas National Institute of Infectious Diseases. Acute Febrile Illnesses Laboratory. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Oswaldo Cruz Institute. Rio de Janeiro, RJ, Brazil / SARS-CoV-2 National Reference Laboratory. Brazilian Ministry of Health (MoH) and Regional Reference Laboratory in Americas. Pan-American Health Organization. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Oswaldo Cruz Institute. Rio de Janeiro, RJ, Brazil / SARS-CoV-2 National Reference Laboratory. Brazilian Ministry of Health (MoH) and Regional Reference Laboratory in Americas. Pan-American Health Organization. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Oswaldo Cruz Institute. Rio de Janeiro, RJ, Brazil / SARS-CoV-2 National Reference Laboratory. Brazilian Ministry of Health (MoH) and Regional Reference Laboratory in Americas. Pan-American Health Organization. Rio de Janeiro, RJ, Brazil.Departments of Clinical Research and Epidemiology and Public Health. London School of Hygiene and Tropical Medicine. London, UK.Departments of Clinical Research and Epidemiology and Public Health. London School of Hygiene and Tropical Medicine. London, UK.Oswaldo Cruz Foundation. Oswaldo Cruz Institute. Rio de Janeiro, RJ, Brazil / SARS-CoV-2 National Reference Laboratory. Brazilian Ministry of Health (MoH) and Regional Reference Laboratory in Americas. Pan-American Health Organization. Rio de Janeiro, RJ, Brazil.Oswaldo Cruz Foundation. Evandro Chagas National Institute of Infectious Diseases. Acute Febrile Illnesses Laboratory. Rio de Janeiro, RJ, Brazil.Background While nasopharyngeal (NP) swabs are considered the gold standard for severe acute respiratory coronavirus 2 (SARS‑CoV‑2) real‑time reverse transcriptase‑polymerase chain reaction (RT‑PCR) detection, several studies have shown that saliva is an alternative specimen for COVID‑19 diagnosis and screening. Methods To analyze the utility of saliva for the diagnosis of COVID‑19 during the circulation of the Omicron variant, participants were enrolled in an ongoing cohort designed to assess the natural history of SARS‑CoV‑2 infection in adults and children. Sensitivity, specificity, positive predictive value (PPV), negative predictive value (NPV), and Cohen’s kappa coefficient were calculated to assess diagnostic performance. Results Overall, 818 samples were collected from 365 outpatients from January 3 to February 2, 2022. The median age was 32.8 years (range: 3–94 years). RT‑PCR for SARS‑CoV‑2 was confirmed in 97/121 symptomatic patients (80.2%) and 62/244 (25.4%) asymptomatic patients. Substantial agreement between saliva and combined nasopharyngeal/ oropharyngeal samples was observed with a Cohen’s kappa value of 0.74 [95% confidence interval (CI): 0.67–0.81]. Sensitivity was 77% (95% CI: 70.9–82.2), specificity 95% (95% CI: 91.9–97), PPV 89.8% (95% CI: 83.1–94.4), NPV 87.9% (95% CI: 83.6–91.5), and accuracy 88.5% (95% CI: 85.0‑91.4). Sensitivity was higher among samples collected from symptomatic children aged three years and older and adolescents [84% (95% CI: 70.5–92)] with a Cohen’s kappa value of 0.63 (95% CI: 0.35–0.91). Conclusions Saliva is a reliable fluid for detecting SARS‑CoV‑2, especially in symptomatic children and adolescents during the circulation of the Omicron variant.engSpringer NatureAccuracy of saliva for SARS-CoV-2 detection in outpatients and their household contacts during the circulation of the Omicron variant of concerninfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleCOVID‑19SARS‑CoV‑2Omicron variantSalivaAccuracyinfo:eu-repo/semantics/openAccessreponame:Repositório Institucional da FIOCRUZ (ARCA)instname:Fundação Oswaldo Cruz (FIOCRUZ)instacron:FIOCRUZORIGINALve_Guilherme_Calvet_etal_INI_IOC_2023.pdfve_Guilherme_Calvet_etal_INI_IOC_2023.pdfapplication/pdf1015369https://www.arca.fiocruz.br/bitstream/icict/60234/2/ve_Guilherme_Calvet_etal_INI_IOC_2023.pdfd6a883550c0f4e0a23d34cefe081694eMD52LICENSElicense.txtlicense.txttext/plain; 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dc.title.en_US.fl_str_mv Accuracy of saliva for SARS-CoV-2 detection in outpatients and their household contacts during the circulation of the Omicron variant of concern
title Accuracy of saliva for SARS-CoV-2 detection in outpatients and their household contacts during the circulation of the Omicron variant of concern
spellingShingle Accuracy of saliva for SARS-CoV-2 detection in outpatients and their household contacts during the circulation of the Omicron variant of concern
Calvet, Guilherme
COVID‑19
SARS‑CoV‑2
Omicron variant
Saliva
Accuracy
title_short Accuracy of saliva for SARS-CoV-2 detection in outpatients and their household contacts during the circulation of the Omicron variant of concern
title_full Accuracy of saliva for SARS-CoV-2 detection in outpatients and their household contacts during the circulation of the Omicron variant of concern
title_fullStr Accuracy of saliva for SARS-CoV-2 detection in outpatients and their household contacts during the circulation of the Omicron variant of concern
title_full_unstemmed Accuracy of saliva for SARS-CoV-2 detection in outpatients and their household contacts during the circulation of the Omicron variant of concern
title_sort Accuracy of saliva for SARS-CoV-2 detection in outpatients and their household contacts during the circulation of the Omicron variant of concern
author Calvet, Guilherme
author_facet Calvet, Guilherme
Ogrzewalska, Maria
Tassinari, Wagner
Guaraldo, Lusiele
Resende, Paola
Fuller, Trevon
Penetra, Stephanie
Borges, Michele
Pina-Costa, Anielle
Martins, Ezequias
Moraes, Isabella
Santos, Heloisa
Damasceno, Luana
Medeiros-Filho, Fernando
Espindola, Otavio
Mota, Fernando
Nacife, Valéria
Pauvolid-Corrêa, Alex
Whitworth, Jimmy
Smith, Chris
Siqueira, Marilda
Brasil, Patrícia
author_role author
author2 Ogrzewalska, Maria
Tassinari, Wagner
Guaraldo, Lusiele
Resende, Paola
Fuller, Trevon
Penetra, Stephanie
Borges, Michele
Pina-Costa, Anielle
Martins, Ezequias
Moraes, Isabella
Santos, Heloisa
Damasceno, Luana
Medeiros-Filho, Fernando
Espindola, Otavio
Mota, Fernando
Nacife, Valéria
Pauvolid-Corrêa, Alex
Whitworth, Jimmy
Smith, Chris
Siqueira, Marilda
Brasil, Patrícia
author2_role author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
author
dc.contributor.author.fl_str_mv Calvet, Guilherme
Ogrzewalska, Maria
Tassinari, Wagner
Guaraldo, Lusiele
Resende, Paola
Fuller, Trevon
Penetra, Stephanie
Borges, Michele
Pina-Costa, Anielle
Martins, Ezequias
Moraes, Isabella
Santos, Heloisa
Damasceno, Luana
Medeiros-Filho, Fernando
Espindola, Otavio
Mota, Fernando
Nacife, Valéria
Pauvolid-Corrêa, Alex
Whitworth, Jimmy
Smith, Chris
Siqueira, Marilda
Brasil, Patrícia
dc.subject.en.en_US.fl_str_mv COVID‑19
SARS‑CoV‑2
Omicron variant
Saliva
Accuracy
topic COVID‑19
SARS‑CoV‑2
Omicron variant
Saliva
Accuracy
description This work was funded by the Carlos Chagas Filho Foundation for Research Support of the State of Rio de Janeiro (FAPERJ) [FAPERJ/E26/201.379/2021 JCNE (G.C), [FAPERJ/E‑26/210.146/2020 COVID (P.B); FAPERJ/E‑26/200.935/2022 CNE (P.B), FAPERJ/E26/210.196/2020 (M.S)]; Department of Science and Technology (DECIT) of the Brazilian Ministry of Health (25000.072811/2016‑19) (P.B), The National Council for Scientific and Technological Development (CNPq), Ministry of Science, Technology and Innovation (MCT) [402457/2020‑0] (M.S); INOVA Oswaldo Cruz Foundation (Fiocruz) [VPPCB‑005‑FIO‑20‑2] (M.S); UK Medical Research Council [MR/V033530/1] (J.W and C.S). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
publishDate 2023
dc.date.accessioned.fl_str_mv 2023-08-25T23:23:40Z
dc.date.available.fl_str_mv 2023-08-25T23:23:40Z
dc.date.issued.fl_str_mv 2023
dc.type.status.fl_str_mv info:eu-repo/semantics/publishedVersion
dc.type.driver.fl_str_mv info:eu-repo/semantics/article
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status_str publishedVersion
dc.identifier.citation.fl_str_mv CALVET, Guilherme et al. Accuracy of saliva for SARS-CoV-2 detection in outpatients and their household contacts during the circulation of the Omicron variant of concern. BMC Infectious Diseases, v. 13, p. 1-9, May 2023.
dc.identifier.uri.fl_str_mv https://www.arca.fiocruz.br/handle/icict/60234
dc.identifier.issn.en_US.fl_str_mv 1471-2334
dc.identifier.doi.none.fl_str_mv 10.1186/s12879-023-08271-3
identifier_str_mv CALVET, Guilherme et al. Accuracy of saliva for SARS-CoV-2 detection in outpatients and their household contacts during the circulation of the Omicron variant of concern. BMC Infectious Diseases, v. 13, p. 1-9, May 2023.
1471-2334
10.1186/s12879-023-08271-3
url https://www.arca.fiocruz.br/handle/icict/60234
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.publisher.none.fl_str_mv Springer Nature
publisher.none.fl_str_mv Springer Nature
dc.source.none.fl_str_mv reponame:Repositório Institucional da FIOCRUZ (ARCA)
instname:Fundação Oswaldo Cruz (FIOCRUZ)
instacron:FIOCRUZ
instname_str Fundação Oswaldo Cruz (FIOCRUZ)
instacron_str FIOCRUZ
institution FIOCRUZ
reponame_str Repositório Institucional da FIOCRUZ (ARCA)
collection Repositório Institucional da FIOCRUZ (ARCA)
bitstream.url.fl_str_mv https://www.arca.fiocruz.br/bitstream/icict/60234/2/ve_Guilherme_Calvet_etal_INI_IOC_2023.pdf
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