Near full-length genome analysis of low prevalent human immunodeficiency virus type 1 subclade F1 in Sao Paulo, Brazil

Autor(es)

Sanabani, Sabri Saeed ^{[1, 2]} ; de Souza Pastena, Evelyn Regina ^[2] ; Kleine Neto, Walter ^[2] ; Barreto, Claudia C. ^[2] ; Ferrari, Kelly T. ^[2] ; Kalmar, Erika M. N. ^{[3, 4]} ; Ferreira, Suzete ^[2] ; Sabino, Ester Cerdeira ^[2]

Afiliação do(s) autor(es)

^[1] Univ Fed Sao Paulo, Retrovirol Lab, Sao Paulo - Brazil

^[2] Fundacao Pro Sangue, Hemoctr, Sao Paulo - Brazil

^[3] STD AIDS Reference & Training Ctr, Sao Paulo - Brazil

^[4] Univ Sao Paulo, Fac Med, Dept Parasit & Infect Dis, Sao Paulo - Brazil

• Tipo de documento: Artigo Científico
• Fonte: VIROLOGY JOURNAL; v. 6, JUN 16 2009.
• Citações Web of Science: 9

Resumo

Background: The genetic diversity of the human immunodeficiency virus type 1 (HIV-1) is critical to lay the groundwork for the design of successful drugs or vaccine. In this study we aimed to characterize and define the molecular prevalence of HIV-1 subclade F1 currently circulating in Sao Paulo, Brazil. Methods: A total of 36 samples were selected from 888 adult patients residing in Sao Paulo who had previously been diagnosed in two independent studies in our laboratory as being infected with subclade F1 based on pol subgenomic fragment sequencing. Proviral DNA was amplified from the purified genomic DNA of all 36 blood samples by 5 fragments overlapping PCR followed by direct sequencing. Sequence data were obtained from the 5 fragments of pure subclade F1 and phylogenetic trees were constructed and compared with previously published sequences. Subclades F1 that exhibited mosaic structure with other subtypes were omitted from any further analysis Results: Our methods of fragment amplification and sequencing confirmed that only 5 sequences inferred from pol region as subclade F1 also holds true for the genome as a whole and, thus, estimated the true prevalence at 0.56%. The results also showed a single phylogenetic cluster of the Brazilian subclade F1 along with non-Brazilian South American isolates in both subgenomic and the full-length genomes analysis with an overall intrasubtype nucleotide divergence of 6.9%. The nucleotide differences within the South American and Central African F1 strains, in the C2-C3 env, were 8.5% and 12.3%, respectively. Conclusion: All together, our findings showed a surprisingly low prevalence rate of subclade F1 in Brazil and suggest that these isolates originated in Central Africa and subsequently introduced to South America. (AU)

• Processo FAPESP: 06/50096-0 - Characterization of Human Immunodeficiency Virus type 1 (HIV-1) in a cohort of recently infected persons from the State of São Paulo by full genome sequencing
• Beneficiário: Sabri Saeed Mohammed Ahmed Al-Sanabani
• Modalidade de apoio: Bolsas no Brasil - Pós-Doutorado