Characterization of Partial and Near Full-Length Genomes of HIV-1 Strains Sampled from Recently Infected Individuals in São Paulo, Brazil

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Date
2011-10-14Author
Sanabani, Sabri Saeed [UNIFESP]
Souza Pastena, Evelyn Regina de
Costa, Antonio Charlys da [UNIFESP]
Martinez, Vanessa Pouza
Kleine-Neto, Walter [UNIFESP]
Oliveira, Ana Carolina Soares de [UNIFESP]
Sauer, Mariana Melillo
Bassichetto, Katia Cristina
Santos Oliveira, Solange Maria
Tomiyama, Helena Tomoko Iwashita
Sabino, Ester Cerdeira
Kallas, Esper Georges [UNIFESP]
Type
ArtigoISSN
1932-6203Is part of
Plos OneDOI
10.1371/journal.pone.0025869Metadata
Show full item recordAbstract
Background: Genetic variability is a major feature of human immunodeficiency virus type 1 (HIV-1) and is considered the key factor frustrating efforts to halt the HIV epidemic. A proper understanding of HIV-1 genomic diversity is a fundamental prerequisite for proper epidemiology, genetic diagnosis, and successful drugs and vaccines design. Here, we report on the partial and near full-length genomic (NFLG) variability of HIV-1 isolates from a well-characterized cohort of recently infected patients in Sao Paul, Brazil.Methodology: HIV-1 proviral DNA was extracted from the peripheral blood mononuclear cells of 113 participants. the NFLG and partial fragments were determined by overlapping nested PCR and direct sequencing. the data were phylogenetically analyzed.Results: of the 113 samples (90.3% male; median age 31 years; 79.6% homosexual men) studied, 77 (68.1%) NFLGs and 32 (29.3%) partial fragments were successfully subtyped. of the successfully subtyped sequences, 88 (80.7%) were subtype B sequences, 12 (11%) BF1 recombinants, 3 (2.8%) subtype C sequences, 2 (1.8%) BC recombinants and subclade F1 each, 1 (0.9%) CRF02 AG, and 1 (0.9%) CRF31 BC. Primary drug resistance mutations were observed in 14/101 (13.9%) of samples, with 5.9% being resistant to protease inhibitors and nucleoside reverse transcriptase inhibitors (NRTI) and 4.9% resistant to non-NRTIs. Predictions of viral tropism were determined for 86 individuals. X4 or X4 dual or mixed-tropic viruses (X4/DM) were seen in 26 (30.2%) of subjects. the proportion of X4 viruses in homosexuals was detected in 19/69 (27.5%).Conclusions: Our results confirm the existence of various HIV-1 subtypes circulating in São Paulo, and indicate that subtype B account for the majority of infections. Antiretroviral (ARV) drug resistance is relatively common among recently infected patients. the proportion of X4 viruses in homosexuals was significantly higher than the proportion seen in other study populations.
Citation
Plos One. San Francisco: Public Library Science, v. 6, n. 10, 11 p., 2011.Sponsorship
Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)Collections
- EPM - Artigos [17701]
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