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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dc.contributor.authorSanabani, Sabri Saeed [UNIFESP]
dc.contributor.authorSouza Pastena, Evelyn Regina de
dc.contributor.authorCosta, Antonio Charlys da [UNIFESP]
dc.contributor.authorMartinez, Vanessa Pouza
dc.contributor.authorKleine-Neto, Walter [UNIFESP]
dc.contributor.authorOliveira, Ana Carolina Soares de [UNIFESP]
dc.contributor.authorSauer, Mariana Melillo
dc.contributor.authorBassichetto, Katia Cristina
dc.contributor.authorSantos Oliveira, Solange Maria
dc.contributor.authorTomiyama, Helena Tomoko Iwashita
dc.contributor.authorSabino, Ester Cerdeira
dc.contributor.authorKallas, Esper Georges [UNIFESP]
dc.contributor.institutionUniversidade de São Paulo (USP)
dc.contributor.institutionUniversidade Federal de São Paulo (UNIFESP)
dc.contributor.institutionFundacao Pro Sangue
dc.contributor.institutionPubl Hlth Dept São Paulo
dc.date.accessioned2016-01-24T14:17:19Z
dc.date.available2016-01-24T14:17:19Z
dc.date.issued2011-10-14
dc.description.abstractBackground: 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.en
dc.description.affiliationUniv São Paulo, Fac Med, Div Clin Immunol & Allergy, São Paulo, Brazil
dc.description.affiliationUniversidade Federal de São Paulo, Dept Translat Med, São Paulo, Brazil
dc.description.affiliationFundacao Pro Sangue, Blood Ctr Sau Paulo, São Paulo, Brazil
dc.description.affiliationUniv São Paulo, Dept Infect Dis, São Paulo, Brazil
dc.description.affiliationPubl Hlth Dept São Paulo, São Paulo, Brazil
dc.description.affiliationUnifespUniversidade Federal de São Paulo, Dept Translat Med, São Paulo, Brazil
dc.description.sourceWeb of Science
dc.description.sponsorshipFundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)
dc.description.sponsorshipIDFAPESP: 04/15856-9
dc.description.sponsorshipIDFAPESP: 2006/50096-0
dc.format.extent11
dc.identifierhttp://dx.doi.org/10.1371/journal.pone.0025869
dc.identifier.citationPlos One. San Francisco: Public Library Science, v. 6, n. 10, 11 p., 2011.
dc.identifier.doi10.1371/journal.pone.0025869
dc.identifier.fileWOS000295981600017.pdf
dc.identifier.issn1932-6203
dc.identifier.urihttp://repositorio.unifesp.br/handle/11600/34145
dc.identifier.wosWOS:000295981600017
dc.language.isoeng
dc.publisherPublic Library Science
dc.relation.ispartofPlos One
dc.rightsinfo:eu-repo/semantics/openAccess
dc.titleCharacterization of Partial and Near Full-Length Genomes of HIV-1 Strains Sampled from Recently Infected Individuals in São Paulo, Brazilen
dc.typeinfo:eu-repo/semantics/article
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