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Differential epitope prediction across diverse circulating variants of SARS-COV-2 in Brazil.
Cavalcanti-Dantas, Vanessa de Melo; Fernandes, Brenda; Dantas, Pedro Henrique Lopes Ferreira; Uchoa, Glaucielle Ramalho; Mendes, Andrei Félix; Araújo Júnior, Waldecir Oliveira de; Castellano, Lúcio Roberto Cançado; Fernandes, Ana Isabel Vieira; Goulart, Luiz Ricardo; Oliveira, Renato Antônio Dos Santos; Assis, Priscilla Anne Castro de; Souza, Joelma Rodrigues De; Morais, Clarice Neuenschwander Lins de.
Afiliação
  • Cavalcanti-Dantas VM; Department of Virology, Aggeu Magalhães Institute, FIOCRUZ/PE, Brazil.
  • Fernandes B; Medical Sciences Center, Federal University of Paraiba, Brazil.
  • Dantas PHLF; Clinical Virology Unit, Department of Clinical Sciences, Institute of Tropical Medicine, Antwerp, Belgium.
  • Uchoa GR; Medical Sciences Center, Federal University of Paraiba, Brazil.
  • Mendes AF; Department of Virology, Aggeu Magalhães Institute, FIOCRUZ/PE, Brazil.
  • Araújo Júnior WO; Biotechnology Center, Federal University of Paraiba, Brazil.
  • Castellano LRC; Professional and Technological Center of the Technical School of Health. Federal University of Paraiba, Brazil.
  • Fernandes AIV; Health Promotion Department of the Medical Sciences Center and Division for Infectious and Parasitic Diseases, Lauro Wanderley University Hospital, Federal University of Paraiba, Brazil.
  • Goulart LR; Federal University of Uberlândia, Minas Gerais, Brazil.
  • Oliveira RADS; Department of Physiology and Pathology. Federal University of Paraiba, Brazil.
  • Assis PAC; Department of Physiology and Pathology. Federal University of Paraiba, Brazil.
  • Souza JR; Department of Physiology and Pathology. Federal University of Paraiba, Brazil.
  • Morais CNL; Department of Virology, Aggeu Magalhães Institute, FIOCRUZ/PE, Brazil. Electronic address: clarice.lins@fiocruz.br.
Comput Biol Chem ; 112: 108139, 2024 Oct.
Article em En | MEDLINE | ID: mdl-38972100
ABSTRACT
COVID-19, caused by the SARS-COV-2 virus, induces numerous immunological reactions linked to the severity of the clinical condition of those infected. The surface Spike protein (S protein) present in Sars-CoV-2 is responsible for the infection of host cells. This protein presents a high rate of mutations, which can increase virus transmissibility, infectivity, and immune evasion. Therefore, we propose to evaluate, using immunoinformatic techniques, the predicted epitopes for the S protein of seven variants of Sars-CoV-2. MHC class I and II epitopes were predicted and further assessed for their immunogenicity, interferon-gamma (IFN-γ) inducing capacity, and antigenicity. For B cells, linear and structural epitopes were predicted. For class I MHC epitopes, 40 epitopes were found for the clades of Wuhan, Clade 2, Clade 3, and 20AEU.1, Gamma, and Delta, in addition to 38 epitopes for Alpha and 44 for Omicron. For MHC II, there were differentially predicted epitopes for all variants and eight equally predicted epitopes. These were evaluated for differences in the MHC II alleles to which they would bind. Regarding B cell epitopes, 16 were found in the Wuhan variant, 14 in 22AEU.1 and in Clade 3, 15 in Clade 2, 11 in Alpha and Delta, 13 in Gamma, and 9 in Omicron. When compared, there was a reduction in the number of predicted epitopes concerning the Spike protein, mainly in the Delta and Omicron variants. These findings corroborate the need for updates seen today in bivalent mRNA vaccines against COVID-19 to promote a targeted immune response to the main circulating variant, Omicron, leading to more robust protection against this virus and avoiding cases of reinfection. When analyzing the specific epitopes for the RBD region of the spike protein, the Omicron variant did not present a B lymphocyte epitope from position 390, whereas the epitope at position 493 for MHC was predicted only for the Alpha, Gamma, and Omicron variants.
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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Glicoproteína da Espícula de Coronavírus / SARS-CoV-2 / COVID-19 Limite: Humans País/Região como assunto: America do sul / Brasil Idioma: En Revista: Comput Biol Chem Assunto da revista: BIOLOGIA / INFORMATICA MEDICA / QUIMICA Ano de publicação: 2024 Tipo de documento: Article País de afiliação: Brasil País de publicação: Reino Unido
Texto completo
Adicionar na Minha BVS
Imprimir
XML
PubMed Links
Buscar no Google

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Glicoproteína da Espícula de Coronavírus / SARS-CoV-2 / COVID-19 Limite: Humans País/Região como assunto: America do sul / Brasil Idioma: En Revista: Comput Biol Chem Assunto da revista: BIOLOGIA / INFORMATICA MEDICA / QUIMICA Ano de publicação: 2024 Tipo de documento: Article País de afiliação: Brasil País de publicação: Reino Unido