Identification and characterization of previously described epitopes in HIV-1 subtypes B, C, F and BF in Brazil

Artur Trancoso Lopo de Queiroz, Luciane Amorim Santos, Domingos Ramon Moreau, Tulio de Oliveira, David I. Watkins, Bernardo Galvão-Castro, Luiz Carlos Junior Alcantara

Research output: Contribution to journalArticle

1 Scopus citations

Abstract

Genetic analysis of HIV-1 is essential to improve treatment strategies and select epitopes for vaccine programs. The objective of this study was to determine whether known CD4+ and CD8+ epitopes were present in Brazilian HIV-1 strains. We used previously described CD8+ and CD4+ epitopes from the Los Alamos laboratory to search for these epitopes in the Brazilian sequences using the HIVbase program and we compared the frequency results with the analyses using physical-chemical profile tools from Network Protein Sequence Analysis (NPSA), and the SYFPEITHI program. Furthermore, this analysis was carried out with the Prosite tool using the GeneDoc program and ds/dn analyses using the Synonymous Nonsynonymous Analysis Program (SNAP). The HIVbase epitope mapping demonstrated that 30 CD8+ and 6 CD4+ epitopes were present in the Brazilian sequences at a high frequency. Only two of these epitopes were heavily glycosylated. Interestingly, ds/dn analyses showed evidence of purifying selective pressure. These types of analyses could be useful for the assessment of possible vaccine efficiency in populations.

Original languageEnglish (US)
Pages (from-to)27-30
Number of pages4
JournalBrazilian Journal of Infectious Diseases
Volume11
Issue number1
StatePublished - Feb 1 2007
Externally publishedYes

Keywords

  • Env
  • Epitope
  • HIV-1
  • Vaccine

ASJC Scopus subject areas

  • Microbiology (medical)

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