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A Potential SARS-CoV-2 Variant of Interest (VOI) Harboring Mutation E484K in the Spike Protein Was Identified within Lineage B.1.1.33 Circulating in Brazil

1
Fiocruz COVID-19 Genomic Surveillance Network, Fiocruz, Rio de Janeiro 21040-360, Brazil
2
Laboratory of Respiratory Viruses and Measles (LVRS), Oswaldo Cruz Institute, Fiocruz, Rio de Janeiro 21045-900, Brazil
3
Plataforma de Vigilância Molecular, Instituto Gonçalo Moniz, Fiocruz-BA, Salvador 40296-710, Brazil
4
Laboratório Central de Saúde Pública do Estado do Maranhão (LACEN-MA), São Luís 65020-904, Brazil
5
Laboratório de Enfermidades Infecciosas Transmitidas por Vetores, Instituto Gonçalo Moniz, Fiocruz-BA, Salvador 40296-710, Brazil
6
Laboratório de Patologia e Biologia Molecular, Instituto Gonçalo Moniz, Fiocruz-BA, Salvador 40296-710, Brazil
7
Laboratório de Vigilância Molecular Aplicada, Escola Técnica de Saúde, Centro de Ciências da Saúde, Universidade Federal da Paraíba, (UFPB), João Pessoa 58051-900, Brazil
8
Laboratório Central de Saúde Pública do Estado da Paraíba (LACEN-PB), João Pessoa 58013-360, Brazil
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Laboratório Central de Saúde Pública do Estado do Paraná (LACEN-PR), São José dos Pinhais 83060-500, Brazil
10
Laboratório Central de Saúde Pública do Estado do Espírito Santo (LACEN-ES), Vitoria 29050-755, Brazil
11
Núcleo de Doenças Infecciosas, Universidade Federal do Espírito Santo, Vitoria 29050-625, Brazil
12
Laboratório Central de Saúde Pública do Estado do Alagoas (LACEN-AL), Maceió 57036-860, Brazil
13
Laboratório Central de Saúde Pública do Estado do Sergipe (LACEN-SE), Aracaju 49020-380, Brazil
14
Laboratório Central de Saúde Pública do Estado do Rio Grande do Sul (LACEN-RS), Porto Alegre 90610-000, Brazil
15
Laboratório Central de Saúde Pública do Estado de Santa Catarina (LACEN-SC), Florianópolis 88010-002, Brazil
16
Laboratório Central de Saúde Pública do Estado de Minas Gerais (LACEN-MG), Belo Horizonte 30510-010, Brazil
17
Laboratório Central de Saúde Pública do Estado do Rio de Janeiro (LACEN-RJ), Rio de Janeiro 20231-092, Brazil
18
Oswaldo Cruz Foundation (Fiocruz), Branch Ceará, Eusebio 61760-000, Brazil
19
Instituto Adolfo Lutz (IAL), São Paulo 01246-000, Brazil
20
Laboratório Central de Saúde Pública do Amazonas, Manaus 69020-040, Brazil
21
Fundação de Vigilância em Saúde do Amazonas, Manaus 69060-000, Brazil
22
Departamento de Biologia, Centro de Ciências Exatas, Naturais e da Saúde, Universidade Federal do Espírito Santo, Alegre 29500-000, Brazil
23
Departamento de Entomologia e Núcleo de Bioinformática, Instituto Aggeu Magalhães (IAM), FIOCRUZ-PE-Recife 50740-465, Brazil
24
Laboratório de Ecologia de Doenças Transmissíveis na Amazônia (EDTA), Leônidas e Maria Deane Institute, Fiocruz-AM, Manaus 69057-070, Brazil
25
Laboratório de AIDS e Imunologia Molecular, Oswaldo Cruz Institute, Fiocruz, Rio de Janeiro 21040-900, Brazil
*
Author to whom correspondence should be addressed.
These authors share the first authorship.
These authors share the senior authorship.
Academic Editors: Burtram C. Fielding and Georgia Schäfer
Viruses 2021, 13(5), 724; https://doi.org/10.3390/v13050724
Received: 18 March 2021 / Revised: 1 April 2021 / Accepted: 6 April 2021 / Published: 21 April 2021
(This article belongs to the Special Issue Coronaviruses Research in BRICS Countries)
The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) epidemic in Brazil was dominated by two lineages designated as B.1.1.28 and B.1.1.33. The two SARS-CoV-2 variants harboring mutations at the receptor-binding domain of the Spike (S) protein, designated as lineages P.1 and P.2, evolved from lineage B.1.1.28 and are rapidly spreading in Brazil. Lineage P.1 is considered a Variant of Concern (VOC) because of the presence of multiple mutations in the S protein (including K417T, E484K, N501Y), while lineage P.2 only harbors mutation S:E484K and is considered a Variant of Interest (VOI). On the other hand, epidemiologically relevant B.1.1.33 deriving lineages have not been described so far. Here we report the identification of a new SARS-CoV-2 VOI within lineage B.1.1.33 that also harbors mutation S:E484K and was detected in Brazil between November 2020 and February 2021. This VOI displayed four non-synonymous lineage-defining mutations (NSP3:A1711V, NSP6:F36L, S:E484K, and NS7b:E33A) and was designated as lineage N.9. The VOI N.9 probably emerged in August 2020 and has spread across different Brazilian states from the Southeast, South, North, and Northeast regions. View Full-Text
Keywords: SARS-CoV-2; E484K; variant of Interest; genomic epidemiology; Brazil SARS-CoV-2; E484K; variant of Interest; genomic epidemiology; Brazil
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Figure 1

MDPI and ACS Style

Resende, P.C.; Gräf, T.; Paixão, A.C.D.; Appolinario, L.; Lopes, R.S.; Mendonça, A.C.d.F.; da Rocha, A.S.B.; Motta, F.C.; Neto, L.G.L.; Khouri, R.; de Oliveira, C.I.; Santos-Muccillo, P.; Bezerra, J.F.; Teixeira, D.L.F.; Riediger, I.; Debur, M.d.C.; Ribeiro-Rodrigues, R.; Leite, A.B.; do Santos, C.A.; Gregianini, T.S.; Fernandes, S.B.; Bernardes, A.F.L.; Cavalcanti, A.C.; Miyajima, F.; Sachhi, C.; Mattos, T.; da Costa, C.F.; Delatorre, E.; Wallau, G.L.; Naveca, F.G.; Bello, G.; Siqueira, M.M. A Potential SARS-CoV-2 Variant of Interest (VOI) Harboring Mutation E484K in the Spike Protein Was Identified within Lineage B.1.1.33 Circulating in Brazil. Viruses 2021, 13, 724. https://doi.org/10.3390/v13050724

AMA Style

Resende PC, Gräf T, Paixão ACD, Appolinario L, Lopes RS, Mendonça ACdF, da Rocha ASB, Motta FC, Neto LGL, Khouri R, de Oliveira CI, Santos-Muccillo P, Bezerra JF, Teixeira DLF, Riediger I, Debur MdC, Ribeiro-Rodrigues R, Leite AB, do Santos CA, Gregianini TS, Fernandes SB, Bernardes AFL, Cavalcanti AC, Miyajima F, Sachhi C, Mattos T, da Costa CF, Delatorre E, Wallau GL, Naveca FG, Bello G, Siqueira MM. A Potential SARS-CoV-2 Variant of Interest (VOI) Harboring Mutation E484K in the Spike Protein Was Identified within Lineage B.1.1.33 Circulating in Brazil. Viruses. 2021; 13(5):724. https://doi.org/10.3390/v13050724

Chicago/Turabian Style

Resende, Paola C., Tiago Gräf, Anna C.D. Paixão, Luciana Appolinario, Renata S. Lopes, Ana C.d.F. Mendonça, Alice S.B. da Rocha, Fernando C. Motta, Lidio G.L. Neto, Ricardo Khouri, Camila I. de Oliveira, Pedro Santos-Muccillo, João F. Bezerra, Dalane L.F. Teixeira, Irina Riediger, Maria d.C. Debur, Rodrigo Ribeiro-Rodrigues, Anderson B. Leite, Cliomar A. do Santos, Tatiana S. Gregianini, Sandra B. Fernandes, André F.L. Bernardes, Andrea C. Cavalcanti, Fábio Miyajima, Claudio Sachhi, Tirza Mattos, Cristiano F. da Costa, Edson Delatorre, Gabriel L. Wallau, Felipe G. Naveca, Gonzalo Bello, and Marilda M. Siqueira 2021. "A Potential SARS-CoV-2 Variant of Interest (VOI) Harboring Mutation E484K in the Spike Protein Was Identified within Lineage B.1.1.33 Circulating in Brazil" Viruses 13, no. 5: 724. https://doi.org/10.3390/v13050724

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