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

By Artur Trancoso Lopo de Queiroz, Luciane Amorim Santos, Domingos Ramon Moreau, Tulio de Oliveira, David I Watkins, Bernardo Galvão Castro Filho and Luiz Carlos Júnior Alcantara

Abstract

Agradecimentos a ATLQ e LAS que contribuíram igualmente para este trabalho, além de Elisabeth Deliège por sua assistência técnica.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

Topics: HIV-1, Vacina, Epitopo, Genes env, HIV-1, Vaccine, Epitope, env, Brasil, Linfócitos T CD4-Positivos, Linfócitos T CD8-Positivos, Epitopos, Produtos do Gene env, Infecções por HIV, HIV-1, Humanos
Publisher: Brazilian Society of Infectious Diseases
Year: 2007
OAI identifier: oai:agregador.ibict.br.RI_FIOCRUZ:oai:localhost:icict/2790
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