Dataset Information

Short Report: Early genomic detection of SARS-CoV-2 P.1 variant in Northeast Brazil.

ABSTRACT: Tracking the spread of SARS-CoV-2 variants of concern is crucial to inform public health efforts and control the ongoing pandemic. Here, we report genetic evidence for circulation of the P.1 variant in Northeast Brazil. We advocate for increased active surveillance to ensure adequate control of this variant throughout the country.

SUBMITTER: Tosta S

PROVIDER: S-EPMC8321350 | biostudies-literature | 2021 Jul

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Short Report: Early genomic detection of SARS-CoV-2 P.1 variant in Northeast Brazil.

Tosta Stephane S Giovanetti Marta M Brandão Nardy Vanessa V Reboredo de Oliveira da Silva Luciana L Kelly Astete Gómez Marcela M Gomes Lima Jaqueline J Wanderley Cardoso Cristiane C Oliveira Silva Tarcisio T São Pedro Leal de Souza Marcia M Presta Dias Pedro Henrique PH Fonseca Vagner V de Oliveira Tulio T Lourenço José J Carlos Junior Alcantara Luiz L Pereira Felicidade F Leal Arabela A

PLoS neglected tropical diseases 20210719 7

Tracking the spread of SARS-CoV-2 variants of concern is crucial to inform public health efforts and control the ongoing pandemic. Here, we report genetic evidence for circulation of the P.1 variant in Northeast Brazil. We advocate for increased active surveillance to ensure adequate control of this variant throughout the country. ...[more]

PMID: 34280196

Similar Datasets

Project description:The SARS-CoV-2 P.1 lineage emerged in Amazonas (AM), North Brazil and its evolution has been dynamically reported associated with increased transmissibility and/or immune evasion. Here, we evaluated the lineages circulating in 29 cities in Rio Grande do Sul (RS), Southern Brazil between March 2020 and May 2021 and investigated the genetic events associated with the emergence of the P.1. A total of 202 oro/nasopharyngeal SARS-CoV-2 specimens from patients during routine hospital care were submitted to whole-genome sequencing. Phylogenetic and Bayesian Evolutionary Analyses of the P.1 lineage were carried out to determine the relationship between sequences from RS and AM and dated their common ancestor and origin. One hundred six (53%) sequences were assigned as P.1 and most carried the 22 lineage-defining mutations. All the P.1 sequences included other important mutations, such as P314L and R203K/G204R, and revealed a high genetic diversity in the phylogenetic tree. The time-scaled inference suggests that the oldest P.1 sequences from different Brazilian states share a ancestor with those from AM, but the origin of some sequences from RS is unknown. Further, the common ancestor of sequences from RS is dated to mid-June/July 2020, earlier than those previously reported from AM. Our results demonstrate that there is a high degree of genetic diversity among P.1 sequences, which suggests a continuous evolution and community spread of the virus. Although the first P.1 outbreak was reported in AM, the lineage was associated with multiple introductory events and had already been circulating in Southern Brazil prior to November 2020. IMPORTANCE The SARS-CoV-2 P.1 lineage is associated with increased transmissibility and/or immune evasion and presents a dynamic evolution in Brazil. The significance of our research relies in the fact that we evaluated the SARS-CoV-2 lineages circulating in Southern Brazil between March 2020 and May 2021. This evaluation allowed us to detect the genetic events associated with the emergence of the P.1 and its sublineages. This study is important because we were able to establish that the common ancestor of P.1 sequences from Rio Grande do Sul, Southern Brazil, is dated of mid-June/July 2020, earlier than the P.1 sequences previously reported from Amazonas (AM) state. Noteworthy, the high degree of genetic diversity among P.1 sequences found in this study suggests a continuous evolution and community spread of the virus. Moreover, the oldest P.1 sequences from different Brazilian states share a ancestor with those from AM.

Dataset Information

Short Report: Early genomic detection of SARS-CoV-2 P.1 variant in Northeast Brazil.

Publications

Short Report: Early genomic detection of SARS-CoV-2 P.1 variant in Northeast Brazil.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets