Preprint
The ongoing evolution of variants of concern and interest of SARS-CoV-2 in Brazil revealed by convergent indels in the amino (N)-terminal domain of the Spike protein (preprint)
Registro en:
RESENDE, Paola Cristina et al. The ongoing evolution of variants of concern and interest of SARS-CoV-2 in Brazil revealed by convergent indels in the amino (N)-terminal domain of the Spike protein. Virus Evolution, p. 1-16, 2021.
2057-1577
10.1101/2021.03.19.21253946
Autor
Resende, Paola Cristina
Naveca, Felipe G.
Lins, Roberto D.
Dezordi, Filipe Zimmer
Ferraz, Matheus V. F.
Moreira, Emerson G.
Coêlho, Danilo F.
Motta, Fernando Couto
Paixão, Anna Carolina Dias
Appolinario, Luciana
Lopes, Renata Serrano
Mendonça, Ana Carolina da Fonseca
Rocha, Alice Sampaio Barreto da
Nascimento, Valdinete
Souza, Victor
Silva, George
Nascimento, Fernanda
Lima Neto, Lidio Gonçalves
Riediger, Irina
Debur, Maria do Carmo
Leite, Anderson Brandao
Mattos, Tirza
Costa, Cristiano Fernandes da
Pereira, Felicidade Mota
Cunha, Antonio Ricardo Khouri
Bernardes, André Felipe Leal
Delatorre, Edson
Gräf, Tiago
Siqueira, Marilda Agudo Mendonça Teixeira de
Bello, Gonzalo
Wallau, Gabriel L.
On behalf of Fiocruz COVID-19 Genomic Surveillance Network.
Resumen
A Rede Genômica Fiocruz é formada por especialistas de todas as unidades da Fundação no país e de institutos parceiros que se empenham diariamente em gerar dados mais robustos sobre o comportamento do SARS-Cov-2 e contribuir para um melhor preparo do país no enfrentamento da pandemia em termos de diagnóstico mais precisos e vacinas eficazes. Saiba mais sobre a Rede Genômica Fiocruz em: http://www.genomahcov.fiocruz.br/ Fiocruz
COVID-19 Genomic Surveillance Network (http://www.genomahcov.fiocruz.br/)
members, the Respiratory Viruses Genomic Surveillance Network of the General
Laboratory Coordination (CGLab), Brazilian Ministry of Health (MoH), Brazilian
Central Laboratory States (LACENs) and the Amazonas surveillance teams for the
partnership in the viral surveillance in Brazil. Financial support was provided by
FAPEAM (PCTI-EmergeSaude/AM call 005/2020 and Rede Genômica de Vigilancia
em Saúde - REGESAM); Ministério da Ciência, Tecnologia, Inovações e
Comunicações/Conselho Nacional de Desenvolvimento Científico e Tecnológico -
CNPq/Ministério da Saúde - MS/FNDCT/SCTIE/Decit (grants 402457/2020-9 and
403276/2020-9); Inova Fiocruz/Fundação Oswaldo Cruz (Grants
VPPCB-007-FIO-18-2-30 and VPPCB-005-FIO-20-2-87) and INCT-FCx
(465259/2014-6). Computer allocation was partly granted by the Brazilian National
Scientific Computing Center (LNCC). FGN, GLW, RDL and GB are supported by the
CNPq through their productivity research fellowships (306146/2017-7, 303902/2019-1,
425997/2018-9 and 302317/2017-1 respectively). G.B. is also funded by the Fundação
Carlos Chagas Filho de Amparo à Pesquisa do Estado do Rio de Janeiro – FAPERJ
(Grant number E-26/202.896/2018). Mutations at both the receptor-binding domain (RBD) and the amino (N)-terminal domain (NTD) of the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Spike (S) glycoprotein can alter its antigenicity and promote immune escape. We identified that SARS-CoV-2 lineages circulating in Brazil with mutations of concern in the RBD independently acquired convergent deletions and insertions in the NTD of the S protein, which altered the NTD antigenic-supersite and other predicted epitopes at this region. Importantly, we detected the community transmission of different P.1 lineages bearing NTD indels Δ69-70 (which can impact several SARS-CoV-2 diagnostic protocols), Δ144 and ins214ANRN, and a new VOI N.10 derived from the B.1.1.33 lineage carrying three NTD deletions (Δ141– 144, Δ211, and Δ256–258). These findings support that the ongoing widespread transmission of SARS-CoV-2 in Brazil generates new viral lineages that might be more resistant to antibody neutralization than parental variants of concern.