SARS-CoV-2 variant N.9 identified in Rio de Janeiro, Brazil
| Autor: | Luana Damasceno, Paola Cristina Resende Silva, Myrna C. Bonaldo, Marta Pereira Santos, Alexandre Dos Santos, Ieda Pereira Ribeiro, Luis Fernando López Tort, Marilda M. Siqueira, Patrícia Brasil, Lidiane S. R. Menezes |
|---|---|
| Rok vydání: | 2021 |
| Předmět: |
Microbiology (medical)
Genetics Lineage (genetic) Phylogenetic tree Coronavirus disease 2019 (COVID-19) SARS-CoV-2 E484K Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RC955-962 COVID-19 virus diseases Biology Microbiology QR1-502 Reverse transcription polymerase chain reaction Phylogenetics Arctic medicine. Tropical medicine lineage N.9 Mutation variants of interest Rio de Janeiro Humans Phylogeny Brazil Research Article |
| Zdroj: | Memórias do Instituto Oswaldo Cruz, Volume: 116, Article number: e210166, Published: 08 NOV 2021 Memórias do Instituto Oswaldo Cruz Memórias do Instituto Oswaldo Cruz., Vol 116 (2021) |
| ISSN: | 1678-8060 0074-0276 |
| Popis: | BACKGROUND The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) B.1.1.33-derived lineage named N.9 was described recently in Brazil and it’s considered a potential variant of interest (VOI) due to the presence of E484K substitution at the receptor-binding domain (RBD) of the Spike (S) protein. OBJECTIVE To describe the first detection of variant N.9 in Rio de Janeiro State. METHODS SARS-CoV-2 N.9 was confirmed by quantitative reverse transcription polymerase chain reaction (qRT-PCR), wholegenome sequencing and phylogenetic analysis. FINDINGS Here, we report two SARS-CoV-2 N.9 lineage strains in Rio de Janeiro. One of them had only the E484K substitution of the six N.9 lineage-defining mutations. Other three strains pre-defined as N.9 have the same genomic profile. These four strains are grouped within the B.1.1.33 lineage and basal to the N.9 lineage in our phylogenetic analysis, and we call them “N.9- like/B.1.1.33 + E484K”. MAIN CONCLUSIONS The phylogenetic analysis shows four independent introductions of N.9 in the state of Rio de Janeiro in October and December 2020, January and March 2021. SARS-CoV-2 N.9 dissemination in the Rio de Janeiro could have been limited by the emergence and dominance of other variants, mainly by the lineage P.2 VOI Zeta that emerged in the same period and co-circulated with N.9, as observed in the neighboring State of Sao Paulo. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|