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Early introduction, dispersal and evolution of Delta SARS-CoV-2 in Southern Brazil, late predominance of AY.99.2 and AY.101 related lineages

The emergence of Variants of Concern (VOC) presenting an unusual number of new mutations is one of the most remarkable features of SARS-CoV-2. The Delta variant, since its appearance, replaced the VOC Gamma, which was responsible for the major COVID-19 wave in Brazil. In this study, we performed a D...

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Autores principales: Gularte, Juliana Schons, da Silva, Mariana Soares, Mosena, Ana Cristina Sbaraini, Demoliner, Meriane, Hansen, Alana Witt, Filippi, Micheli, Pereira, Vyctoria Malayhka de Abreu Góes, Heldt, Fágner Henrique, Weber, Matheus Nunes, de Almeida, Paula Rodrigues, Hoffmann, Andressa Taiz, Valim, Andreia Rosane de Moura, Possuelo, Lia Gonçalves, Fleck, Juliane Deise, Spilki, Fernando Rosado
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier B.V. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8800493/
https://www.ncbi.nlm.nih.gov/pubmed/35104582
http://dx.doi.org/10.1016/j.virusres.2022.198702
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author Gularte, Juliana Schons
da Silva, Mariana Soares
Mosena, Ana Cristina Sbaraini
Demoliner, Meriane
Hansen, Alana Witt
Filippi, Micheli
Pereira, Vyctoria Malayhka de Abreu Góes
Heldt, Fágner Henrique
Weber, Matheus Nunes
de Almeida, Paula Rodrigues
Hoffmann, Andressa Taiz
Valim, Andreia Rosane de Moura
Possuelo, Lia Gonçalves
Fleck, Juliane Deise
Spilki, Fernando Rosado
author_facet Gularte, Juliana Schons
da Silva, Mariana Soares
Mosena, Ana Cristina Sbaraini
Demoliner, Meriane
Hansen, Alana Witt
Filippi, Micheli
Pereira, Vyctoria Malayhka de Abreu Góes
Heldt, Fágner Henrique
Weber, Matheus Nunes
de Almeida, Paula Rodrigues
Hoffmann, Andressa Taiz
Valim, Andreia Rosane de Moura
Possuelo, Lia Gonçalves
Fleck, Juliane Deise
Spilki, Fernando Rosado
author_sort Gularte, Juliana Schons
collection PubMed
description The emergence of Variants of Concern (VOC) presenting an unusual number of new mutations is one of the most remarkable features of SARS-CoV-2. The Delta variant, since its appearance, replaced the VOC Gamma, which was responsible for the major COVID-19 wave in Brazil. In this study, we performed a Delta whole-genome sequencing of 183 samples as part of a major genomic surveillance study performed since the beginning of the pandemic. Here, we showed an emergence, widespread dispersion and consolidation of the Delta variant in Rio Grande do Sul State, completely replacing the Gamma variant in a four to five months period. Performing the phylogenetic and phylodynamic analysis, the majority of the sequences generated herein were classified as AY.99.2, AY.99.2-like and AY.101. AY.99.2 Delta-related lineage has been widely reported in Brazil and in the Americas as well. Altogether, our findings provided a mutational profile of the sequences and presented high substitutions per site in the root-to-tip phylogenetic tree, corroborating studies that show the high mutational rate of SARS-CoV-2 over time.
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spelling pubmed-88004932022-01-31 Early introduction, dispersal and evolution of Delta SARS-CoV-2 in Southern Brazil, late predominance of AY.99.2 and AY.101 related lineages Gularte, Juliana Schons da Silva, Mariana Soares Mosena, Ana Cristina Sbaraini Demoliner, Meriane Hansen, Alana Witt Filippi, Micheli Pereira, Vyctoria Malayhka de Abreu Góes Heldt, Fágner Henrique Weber, Matheus Nunes de Almeida, Paula Rodrigues Hoffmann, Andressa Taiz Valim, Andreia Rosane de Moura Possuelo, Lia Gonçalves Fleck, Juliane Deise Spilki, Fernando Rosado Virus Res Article The emergence of Variants of Concern (VOC) presenting an unusual number of new mutations is one of the most remarkable features of SARS-CoV-2. The Delta variant, since its appearance, replaced the VOC Gamma, which was responsible for the major COVID-19 wave in Brazil. In this study, we performed a Delta whole-genome sequencing of 183 samples as part of a major genomic surveillance study performed since the beginning of the pandemic. Here, we showed an emergence, widespread dispersion and consolidation of the Delta variant in Rio Grande do Sul State, completely replacing the Gamma variant in a four to five months period. Performing the phylogenetic and phylodynamic analysis, the majority of the sequences generated herein were classified as AY.99.2, AY.99.2-like and AY.101. AY.99.2 Delta-related lineage has been widely reported in Brazil and in the Americas as well. Altogether, our findings provided a mutational profile of the sequences and presented high substitutions per site in the root-to-tip phylogenetic tree, corroborating studies that show the high mutational rate of SARS-CoV-2 over time. Elsevier B.V. 2022-04-02 2022-01-29 /pmc/articles/PMC8800493/ /pubmed/35104582 http://dx.doi.org/10.1016/j.virusres.2022.198702 Text en © 2022 Elsevier B.V. All rights reserved. Since January 2020 Elsevier has created a COVID-19 resource centre with free information in English and Mandarin on the novel coronavirus COVID-19. The COVID-19 resource centre is hosted on Elsevier Connect, the company's public news and information website. Elsevier hereby grants permission to make all its COVID-19-related research that is available on the COVID-19 resource centre - including this research content - immediately available in PubMed Central and other publicly funded repositories, such as the WHO COVID database with rights for unrestricted research re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for free by Elsevier for as long as the COVID-19 resource centre remains active.
spellingShingle Article
Gularte, Juliana Schons
da Silva, Mariana Soares
Mosena, Ana Cristina Sbaraini
Demoliner, Meriane
Hansen, Alana Witt
Filippi, Micheli
Pereira, Vyctoria Malayhka de Abreu Góes
Heldt, Fágner Henrique
Weber, Matheus Nunes
de Almeida, Paula Rodrigues
Hoffmann, Andressa Taiz
Valim, Andreia Rosane de Moura
Possuelo, Lia Gonçalves
Fleck, Juliane Deise
Spilki, Fernando Rosado
Early introduction, dispersal and evolution of Delta SARS-CoV-2 in Southern Brazil, late predominance of AY.99.2 and AY.101 related lineages
title Early introduction, dispersal and evolution of Delta SARS-CoV-2 in Southern Brazil, late predominance of AY.99.2 and AY.101 related lineages
title_full Early introduction, dispersal and evolution of Delta SARS-CoV-2 in Southern Brazil, late predominance of AY.99.2 and AY.101 related lineages
title_fullStr Early introduction, dispersal and evolution of Delta SARS-CoV-2 in Southern Brazil, late predominance of AY.99.2 and AY.101 related lineages
title_full_unstemmed Early introduction, dispersal and evolution of Delta SARS-CoV-2 in Southern Brazil, late predominance of AY.99.2 and AY.101 related lineages
title_short Early introduction, dispersal and evolution of Delta SARS-CoV-2 in Southern Brazil, late predominance of AY.99.2 and AY.101 related lineages
title_sort early introduction, dispersal and evolution of delta sars-cov-2 in southern brazil, late predominance of ay.99.2 and ay.101 related lineages
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8800493/
https://www.ncbi.nlm.nih.gov/pubmed/35104582
http://dx.doi.org/10.1016/j.virusres.2022.198702
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