| Journal: | Memorias do Instituto Oswaldo Cruz |
| Database: | PERIÓDICA |
| System number: | 000452372 |
| ISSN: | 0074-0276 |
| Authors: | Sgorlon, Gabriella1 Queiroz, Jackson Alves da Silva1 Roca, Tárcio Peixoto1 Silva, Ana Maisa Passos da1 Gasparelo, Nadson Willian Felipe1 Teixeira, Karolaine Santos1 Oliveira, Andreia Souza da Nóbrega2 Mendonça, Aline Linhares Ferreira de Melo2 Maia, Adriana Cristina Salvador2 Pereira, Soraya dos Santos1 Batista, Flávia Serrano2 Salcedo, Juan Miguel Villalobos1 Rampazzo, Rita de Cassia Pontello4 Resende, Paola Cristina3 Siqueira, Marilda Mendonça3 Vieira, Deusilene1 |
| Institutions: | 1Fundacao Oswaldo Cruz, Laboratorio de Virologia Molecular, Porto Velho, Rondonia. Brasil 2Fundacao Oswaldo Cruz, Instituto Oswaldo Cruz, Rio de Janeiro. Brasil 3Laboratorio Central de Saude Publica do Estado de Rondonia, Porto Velho, Rondonia. Brasil 4Agencia Estadual de Vigilancia em Saude de Rondonia, Coordenacao Estadual da COVID-19, Porto Velho, Rondonia. Brasil 5Fundacao Oswaldo Cruz, Instituto Leonidas e Maria Deane, Manaus, Amazonas. Brasil |
| Year: | 2022 |
| Volumen: | 117 |
| Country: | Brasil |
| Language: | Inglés |
| Document type: | Artículo |
| Approach: | Analítico, descriptivo |
| English abstract | The emergence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants has become a major concern contributing to increased morbidity and mortality worldwide. OBJECTIVES Here we describe the replacement of the Gamma variant of concern (VOC) with Delta in the western Brazilian Amazon. METHODS In this study, we analysed 540 SARS-CoV-2 positive samples determined by qualitative real-time RT-PCR selected in the state of Rondônia between June and December 2021. The positive cohort was sequenced through next-generation sequencing (NGS) and each sample was quantified using real-time RT-qPCR, the whole genome sequence was obtained, SARS-CoV-2 lineages were classified using the system Pango and the maximum likelihood (ML) method was used to conduct phylogenetic analyses. FINDINGS A total of 540 high-quality genomes were obtained, where the Delta VOC showed the highest prevalence making up 72%, with strain AY.43 being the most abundant, while the Gamma VOC was present in 28%, where the P.1 strain was the most frequent. In this study population, only 32.96% (178/540) had completed the vaccination schedule. MAIN CONCLUSIONS This study highlighted the presence of Gamma and Delta variants of SARS-CoV-2 in RO. Furthermore, we observed the replacement of the Gamma VOC with the Delta VOC and its lineages |
| Disciplines: | Medicina |
| Keyword: | Virus, SARS-CoV-2, Cepas, Vigilancia genómica |
| Keyword: | Virus, SARS-CoV-2, Strains, Genomic surveillance |
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