Nucleocapsid (N) gene mutations of SARS-CoV-2 can affect real-time RT-PCR diagnostic and impact false-negative results

Full metadata record
DC FieldValueLanguage
dc.contributor(LCC) Laboratório de Ciclo Celularpt_BR
dc.contributorLab. Bioquímicapt_BR
dc.contributorLaboratório Estratégico de Diagnóstico Molecular (LEDM)pt_BR
dc.contributorHVB - Hospital Vital Brazilpt_BR
dc.contributorDiretoria Técnicapt_BR
dc.contributorCentro Bioindustrialpt_BR
dc.contributorLab. Fisiopatologiapt_BR
dc.contributor.authorLesbon, Jéssika Cristina Chagaspt_BR
dc.contributor.authorPoleti, Mirele Daianapt_BR
dc.contributor.authorOliveira, Elisângela Chicaroni de Mattospt_BR
dc.contributor.authorPatané, José Salvatore Leisterpt_BR
dc.contributor.authorClemente, Luan Gasparpt_BR
dc.contributor.authorViala, Vincent Louispt_BR
dc.contributor.authorRibeiro, Gabrielapt_BR
dc.contributor.authorGiovanetti, Martapt_BR
dc.contributor.authorAlcantara, Luiz Carlos Junior dept_BR
dc.contributor.authorLima, Loyze Paola Oliveira dept_BR
dc.contributor.authorMartins, Antonio Jorgept_BR
dc.contributor.authorBarros, Claudia Renata dos Santospt_BR
dc.contributor.authorMarqueze, Elaine Cristinapt_BR
dc.contributor.authorMoretti, Debora Botequiopt_BR
dc.contributor.authorBrassaloti, Ricardo Augustopt_BR
dc.contributor.authorCassano, Raquel de Lello Rocha Campospt_BR
dc.contributor.authorMariani, Pilar Drummond Sampaio Correapt_BR
dc.contributor.authorSlavov, Svetoslav Nanevpt_BR
dc.contributor.authorSantos, Rafael Bezerra dospt_BR
dc.contributor.authorRodrigues, Evandra Strazzapt_BR
dc.contributor.authorSantos, Elaine Vieirapt_BR
dc.contributor.authorBorges, Josiane Serranopt_BR
dc.contributor.authorLa Roque, Debora Glenda Lima dept_BR
dc.contributor.authorKitajima, Joao Paulopt_BR
dc.contributor.authorSantos, Bibianapt_BR
dc.contributor.authorAssato, Patricia Akemipt_BR
dc.contributor.authorCosta, Felipe Allan da Silva dapt_BR
dc.contributor.authorBanho, Cecilia Articopt_BR
dc.contributor.authorSacchetto, Liviapt_BR
dc.contributor.authorMoraes, Marilia Mazzipt_BR
dc.contributor.authorPalmieri, Melissapt_BR
dc.contributor.authorSilva, Fabiana Erica Vilanova dapt_BR
dc.contributor.authorGrotto, Rejane Maria Tommasinipt_BR
dc.contributor.authorSouza-Neto, Jayme A.pt_BR
dc.contributor.authorNogueira, Mauricio Lacerdapt_BR
dc.contributor.authorCoutinho, Luiz Lehmanpt_BR
dc.contributor.authorCalado, Rodrigo Tocantinspt_BR
dc.contributor.authorMachado Neto, Raulpt_BR
dc.contributor.authorCovas, Dimas Tadeupt_BR
dc.contributor.authorKashima, Simonept_BR
dc.contributor.authorElias, Maria Carolinapt_BR
dc.contributor.authorSampaio, Sandra Coccuzzopt_BR
dc.contributor.authorFukumasu, Heidgept_BR
dc.date.accessioned2022-01-11T20:05:57Z-
dc.date.available2022-01-11T20:05:57Z-
dc.date.issued2021pt_BR
dc.identifier.citationLesbon JCC, Poleti MD, Oliveira ECM, Patané JSL, Clemente LG, Viala VL, et al. Nucleocapsid (N) gene mutations of SARS-CoV-2 can affect real-time RT-PCR diagnostic and impact false-negative results. Viruses. 2021 Dec; 13(12):2474. doi:10.3390/v13122474.pt_BR
dc.identifier.urihttps://repositorio.butantan.gov.br/handle/butantan/4090-
dc.description.abstractThe current COVID-19 pandemic demands massive testing by Real-time RT-PCR (Reverse Transcription Polymerase Chain Reaction), which is considered the gold standard diagnostic test for the detection of the SARS-CoV-2 virus. However, the virus continues to evolve with mutations that lead to phenotypic alterations as higher transmissibility, pathogenicity or vaccine evasion. Another big issue are mutations in the annealing sites of primers and probes of RT-PCR diagnostic kits leading to false-negative results. Therefore, here we identify mutations in the N (Nucleocapsid) gene that affects the use of the GeneFinder COVID-19 Plus RealAmp Kit. We sequenced SARS-CoV-2 genomes from 17 positive samples with no N gene detection but with RDRP (RNA-dependent RNA polymerase) and E (Envelope) genes detection, and observed a set of three different mutations affecting the N detection: a deletion of 18 nucleotides (Del28877-28894), a substitution of GGG to AAC (28881-28883) and a frameshift mutation caused by deletion (Del28877-28878). The last one cause a deletion of six AAs (amino acids) located in the central intrinsic disorder region at protein level. We also found this mutation in 99 of the 14,346 sequenced samples by the Sao Paulo state Network for Pandemic Alert of Emerging SARS-CoV-2 variants, demonstrating the circulation of the mutation in Sao Paulo, Brazil. Continuous monitoring and characterization of mutations affecting the annealing sites of primers and probes by genomic surveillance programs are necessary to maintain the effectiveness of the diagnosis of COVID-19.pt_BR
dc.description.sponsorship(FAPESP) Fundação de Amparo à Pesquisa do Estado de São Paulopt_BR
dc.description.sponsorship(OPAS) Pan American Health Organizationpt_BR
dc.description.sponsorship(CNPq) Conselho Nacional de Desenvolvimento Científico e Tecnológicopt_BR
dc.description.sponsorship(CAPES) Coordenação de Aperfeiçoamento de Pessoal de Nível Superiorpt_BR
dc.format.extent2474pt_BR
dc.language.isoEnglishpt_BR
dc.relation.ispartofVirusespt_BR
dc.rightsOpen accesspt_BR
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/pt_BR
dc.titleNucleocapsid (N) gene mutations of SARS-CoV-2 can affect real-time RT-PCR diagnostic and impact false-negative resultspt_BR
dc.typeArticlept_BR
dc.rights.licenseCC BYpt_BR
dc.identifier.doi10.3390/v13122474pt_BR
dc.identifier.urlhttps://doi.org/10.3390/v13122474pt_BR
dc.contributor.external(USP) Universidade de São Paulopt_BR
dc.contributor.external(FIOCRUZ) Fundação Oswaldo Cruzpt_BR
dc.contributor.external(UFMG) Universidade Federal de Minas Geraispt_BR
dc.contributor.externalNGS Soluções Genômicaspt_BR
dc.contributor.externalMendelics Análise Genômicapt_BR
dc.contributor.external(FAMERP) Faculdade de Medicina de São José do Rio Pretopt_BR
dc.identifier.citationvolume13pt_BR
dc.identifier.citationissue12pt_BR
dc.subject.keywordCOVID-19pt_BR
dc.subject.keywordRT-PCRpt_BR
dc.subject.keywordN genept_BR
dc.subject.keywordGeneFinderpt_BR
dc.subject.keywordmutationpt_BR
dc.relation.ispartofabbreviatedVirusespt_BR
dc.identifier.citationabntv. 13, n. 12, 2474, dez. 2021pt_BR
dc.identifier.citationvancouver2021 Dec; 13(12):2474pt_BR
dc.contributor.butantanPatané, José Salvatore Leister|:Pesquisador|:LCC - Laboratório de Ciclo Celularpt_BR
dc.contributor.butantanViala, Vincent Louis|:Tecnico|:Lab. Bioquímicapt_BR
dc.contributor.butantanRibeiro, Gabriela|:Tecnico|:LCC - Laboratório de Ciclo Celularpt_BR
dc.contributor.butantanLima, Loyze Paola Oliveira deTécnico|:Laboratório Estratégico de Diagnóstico Molecular (LEDM)pt_BR
dc.contributor.butantanAntonio Jorge Martins|:Outros|:HVB - Hospital Vital Brazilpt_BR
dc.contributor.butantanMarqueze, Elaine Cristina|:Outros|:Diretoria Técnicapt_BR
dc.contributor.butantanBernardino, Jardelina de Souza Todão|:Outros|:Centro Bioindustrialpt_BR
dc.contributor.butantanMoretti, Debora Botequio|:Outros|:Diretoria Técnicapt_BR
dc.contributor.butantanMachado Neto, Raul|:Outros|:Diretoria Técnicapt_BR
dc.contributor.butantanCovas, Dimas Tadeu|:Outros|:Diretoria Técnicapt_BR
dc.contributor.butantanElias, Maria Carolina|:Pesquisador|:LCC - Laboratório de Ciclo Celularpt_BR
dc.contributor.butantanSandra Coccuzzo Sampaiopt_BR
dc.contributor.butantanBarros, Claudia Renata dos Santos|:Outros|:Diretoria Técnicapt_BR
dc.contributor.butantanSampaio, Sandra Coccuzzo|:Pesquisador:Docente Permanente PPGTox|:Lab. Fisiopatologiapt_BR
dc.sponsorship.butantan(FAPESP) Fundação de Amparo à Pesquisa do Estado de São Paulo¦¦2020/10127-1pt_BR
dc.sponsorship.butantan(FAPESP) Fundação de Amparo à Pesquisa do Estado de São Paulo¦¦2020/05367-3pt_BR
dc.sponsorship.butantan(FAPESP) Fundação de Amparo à Pesquisa do Estado de São Paulo¦¦2013/08135-2pt_BR
dc.sponsorship.butantan(OPAS) Pan American Health Organization¦¦APO21-00010098pt_BR
dc.sponsorship.butantan(CNPq) Conselho Nacional de Desenvolvimento Científico e Tecnológico¦¦401119/2020-3pt_BR
dc.sponsorship.butantan(CAPES) Coordenação de Aperfeiçoamento de Pessoal de Nível Superior¦¦pt_BR
dc.identifier.bvsccBR78.1pt_BR
dc.identifier.bvsdbIBProdpt_BR
dc.description.dbindexedYespt_BR
item.fulltextCom Texto completo-
item.openairetypeArticle-
item.languageiso639-1English-
item.grantfulltextopen-
crisitem.journal.journalissn#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.journal.journaleissn#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.dept#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.orcid0000-0001-6257-3531-
crisitem.author.orcid#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
crisitem.author.parentorg#PLACEHOLDER_PARENT_METADATA_VALUE#-
Appears in Collections:Artigos de periódicos


Files in This Item:

viruses-13-02474.pdf
Description:
Size: 854.67 kB
Format: Adobe PDF
View/Open
Show simple item record

This item is licensed under a Creative Commons License Creative Commons