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spelling Silva, Thaís de SouzaSalvato, Richard SteinerGregianini, Tatiana SchäfferGomes, Ighor ArantesPereira, Elisa CavalcanteOliveira, Eneida deMenezes, André Luiz deBarcellos, Regina BonesGodinho, Fernanda MarquesRiediger, IrinaDebur, Maria do CarmoOliveira, Cristina Mendes deRibeiro-Rodrigues, RodrigoMiyajima, FabioDias, Fernando StehlingAbbud, AdrianoMonte Neto, Rubens Lima doSilva, Carlos Eduardo CalzavaraSiqueira, Marilda MendonçaWallau, Gabriel LuzResende, Paola CristinaFernandes, Gabriel da RochaAlves, Pedro Augusto2023-01-05T19:16:31Z2023-01-05T19:16:31Z2022SILVA, Thaís de Souza et al. Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil. Front Med (Lausanne), v. 9, 1008600, 2022. doi: 10.3389/fmed.2022.1008600.2296-858Xhttps://www.arca.fiocruz.br/handle/icict/56337engFrontiers Media S.AMolecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleFundação Oswaldo Cruz. Instituto René Rachou. Belo Horizonte, MG, BrazilEstado do Rio Grande do Sul. Laboratório Central de Saúde Pública. Porto Alegre, RS, BrazilEstado do Rio Grande do Sul. Laboratório Central de Saúde Pública. Porto Alegre, RS, BrazilFundação Oswaldo Cruz. Instituto Oswaldo Cruz. Rio de Janeiro, RJ, BrazilFundação Oswaldo Cruz. Instituto Oswaldo Cruz. Rio de Janeiro, RJ, BrazilPrefeitura de Belo Horizonte. Laboratório de Referência. Setor de Biologia Molecular. Belo Horizonte, MG, BrazilPrefeitura de Belo Horizonte. Laboratório de Referência. Setor de Biologia Molecular. Belo Horizonte, MG, BrazilCentro de Desenvolvimento Científico e Tecnológico. Porto Alegre, RS, BrazilCentro de Desenvolvimento Científico e Tecnológico. Porto Alegre, RS, BrazilEstado do Paraná. Laboratório Central de Saúde Pública. Curitiba, PR, BrazilEstado do Paraná. Laboratório Central de Saúde Pública. Curitiba, PR, BrazilDasa. Barueri, SP, BrazilEstado do Espírito Santo. Laboratório Central de Saúde Pública. Vitória, ES, BrazilFundação Oswaldo Cruz. Eusébio, CE, BrazilFundação Oswaldo Cruz. Eusébio, CE, BrazilInstituto Adolfo Lutz. São Paulo, SP, BrazilFundação Oswaldo Cruz. Instituto René Rachou. Belo Horizonte, MG, BrazilFundação Oswaldo Cruz. Instituto René Rachou. Belo Horizonte, MG, BrazilFundação Oswaldo Cruz. Instituto Oswaldo Cruz. Rio de Janeiro, RJ, BrazilFundação Oswaldo Cruz. Instituto Aggeu Magalhães. Recife, PE, BrazilFundação Oswaldo Cruz. Instituto Oswaldo Cruz. Rio de Janeiro, RJ, BrazilFundação Oswaldo Cruz. Instituto René Rachou. Belo Horizonte, MG, BrazilFundação Oswaldo Cruz. Instituto René Rachou. Belo Horizonte, MG, BrazilRecombination events have been described in the Coronaviridae family. Since the beginning of the SARS-CoV-2 pandemic, a variable degree of selection pressure has acted upon the virus, generating new strains with increased fitness in terms of viral transmission and antibody scape. Most of the SC2 variants of concern (VOC) detected so far carry a combination of key amino acid changes and indels. Recombination may also reshuffle existing genetic profiles of distinct strains, potentially giving origin to recombinant strains with altered phenotypes. However, co-infection and recombination events are challenging to detect and require in-depth curation of assembled genomes and sequencing reds. Here, we present the molecular characterization of a new SARS-CoV-2 recombinant between BA.1.1 and BA.2.23 Omicron lineages identified in Brazil. We characterized four mutations that had not been previously described in any of the recombinants already identified worldwide and described the likely breaking points. Moreover, through phylogenetic analysis, we showed that the newly named XAG lineage groups in a highly supported monophyletic clade confirmed its common evolutionary history from parental Omicron lineages and other recombinants already described. These observations were only possible thanks to the joint effort of bioinformatics tools auxiliary in genomic surveillance and the manual curation of experienced personnel, demonstrating the importance of genetic, and bioinformatic knowledge in genomics.SARS-CoV-2recombinantgenomic surveillanceXAGvariantsomicroninfo: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/56337/1/license.txt5a560609d32a3863062d77ff32785d58MD51ORIGINALMolecular characterization of a new SARS-CoV-2 .pdfMolecular characterization of a new SARS-CoV-2 .pdfapplication/pdf4263600https://www.arca.fiocruz.br/bitstream/icict/56337/2/Molecular%20characterization%20of%20a%20new%20SARS-CoV-2%20.pdfdffb72fb99d7447c3aff9db767f040e8MD52icict/563372023-01-05 16:16:32.392oai:www.arca.fiocruz.br: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ório 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dc.title.en_US.fl_str_mv Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.
title Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.
spellingShingle Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.
Silva, Thaís de Souza
SARS-CoV-2
recombinant
genomic surveillance
XAG
variants
omicron
title_short Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.
title_full Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.
title_fullStr Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.
title_full_unstemmed Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.
title_sort Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.
author Silva, Thaís de Souza
author_facet Silva, Thaís de Souza
Salvato, Richard Steiner
Gregianini, Tatiana Schäffer
Gomes, Ighor Arantes
Pereira, Elisa Cavalcante
Oliveira, Eneida de
Menezes, André Luiz de
Barcellos, Regina Bones
Godinho, Fernanda Marques
Riediger, Irina
Debur, Maria do Carmo
Oliveira, Cristina Mendes de
Ribeiro-Rodrigues, Rodrigo
Miyajima, Fabio
Dias, Fernando Stehling
Abbud, Adriano
Monte Neto, Rubens Lima do
Silva, Carlos Eduardo Calzavara
Siqueira, Marilda Mendonça
Wallau, Gabriel Luz
Resende, Paola Cristina
Fernandes, Gabriel da Rocha
Alves, Pedro Augusto
author_role author
author2 Salvato, Richard Steiner
Gregianini, Tatiana Schäffer
Gomes, Ighor Arantes
Pereira, Elisa Cavalcante
Oliveira, Eneida de
Menezes, André Luiz de
Barcellos, Regina Bones
Godinho, Fernanda Marques
Riediger, Irina
Debur, Maria do Carmo
Oliveira, Cristina Mendes de
Ribeiro-Rodrigues, Rodrigo
Miyajima, Fabio
Dias, Fernando Stehling
Abbud, Adriano
Monte Neto, Rubens Lima do
Silva, Carlos Eduardo Calzavara
Siqueira, Marilda Mendonça
Wallau, Gabriel Luz
Resende, Paola Cristina
Fernandes, Gabriel da Rocha
Alves, Pedro Augusto
author2_role author
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 Silva, Thaís de Souza
Salvato, Richard Steiner
Gregianini, Tatiana Schäffer
Gomes, Ighor Arantes
Pereira, Elisa Cavalcante
Oliveira, Eneida de
Menezes, André Luiz de
Barcellos, Regina Bones
Godinho, Fernanda Marques
Riediger, Irina
Debur, Maria do Carmo
Oliveira, Cristina Mendes de
Ribeiro-Rodrigues, Rodrigo
Miyajima, Fabio
Dias, Fernando Stehling
Abbud, Adriano
Monte Neto, Rubens Lima do
Silva, Carlos Eduardo Calzavara
Siqueira, Marilda Mendonça
Wallau, Gabriel Luz
Resende, Paola Cristina
Fernandes, Gabriel da Rocha
Alves, Pedro Augusto
dc.subject.en.en_US.fl_str_mv SARS-CoV-2
recombinant
genomic surveillance
XAG
variants
omicron
topic SARS-CoV-2
recombinant
genomic surveillance
XAG
variants
omicron
description Fundação Oswaldo Cruz. Instituto René Rachou. Belo Horizonte, MG, Brazil
publishDate 2022
dc.date.issued.fl_str_mv 2022
dc.date.accessioned.fl_str_mv 2023-01-05T19:16:31Z
dc.date.available.fl_str_mv 2023-01-05T19:16:31Z
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 SILVA, Thaís de Souza et al. Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil. Front Med (Lausanne), v. 9, 1008600, 2022. doi: 10.3389/fmed.2022.1008600.
dc.identifier.uri.fl_str_mv https://www.arca.fiocruz.br/handle/icict/56337
dc.identifier.issn.en_US.fl_str_mv 2296-858X
identifier_str_mv SILVA, Thaís de Souza et al. Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil. Front Med (Lausanne), v. 9, 1008600, 2022. doi: 10.3389/fmed.2022.1008600.
2296-858X
url https://www.arca.fiocruz.br/handle/icict/56337
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 Frontiers Media S.A
publisher.none.fl_str_mv Frontiers Media S.A
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bitstream.url.fl_str_mv https://www.arca.fiocruz.br/bitstream/icict/56337/1/license.txt
https://www.arca.fiocruz.br/bitstream/icict/56337/2/Molecular%20characterization%20of%20a%20new%20SARS-CoV-2%20.pdf
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