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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

Characterization and frequency of a newly identified HIV-1 BF1 intersubtype circulating recombinant form in Sao Paulo, Brazil

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Author(s):
Sanabani, Sabri Saeed [1, 2] ; de Souza Pastena, Evelyn Regina [1, 2] ; Kleine Neto, Walter [2] ; Martinez, Vanessa Pouza [1, 2] ; Sabino, Ester Cerdeira [2]
Total Authors: 5
Affiliation:
[1] Univ Fed Sao Paulo, Retrovirol Lab, Sao Paulo - Brazil
[2] Hemoctr, Fundacao Prosangue, Sao Paulo - Brazil
Total Affiliations: 2
Document type: Journal article
Source: VIROLOGY JOURNAL; v. 7, APR 16 2010.
Web of Science Citations: 18
Abstract

Background: HIV circulating recombinant forms (CRFs) play an important role in the global and regional HIV epidemics, particularly in regions where multiple subtypes are circulating. To date, several (>40) CRFs are recognized worldwide with five currently circulating in Brazil. Here, we report the characterization of near full-length genome sequences (NFLG) of six phylogenetically related HIV-1 BF1 intersubtype recombinants (five from this study and one from other published sequences) representing CRF46\_BF1. Methods: Initially, we selected 36 samples from 888 adult patients residing in Sao Paulo who had previously been diagnosed as being infected with subclade F1 based on pol subgenomic fragment sequencing. Proviral DNA integrated in peripheral blood mononuclear cells (PBMC) was amplified from the purified genomic DNA of all 36-blood samples by five overlapping PCR fragments followed by direct sequencing. Sequence data were obtained from the five fragments that showed identical genomic structure and phylogenetic trees were constructed and compared with previously published sequences. Genuine subclade F1 sequences and any other sequences that exhibited unique mosaic structures were omitted from further analysis Results: Of the 36 samples analyzed, only six sequences, inferred from the pol region as subclade F1, displayed BF1 identical mosaic genomes with a single intersubtype breakpoint identified at the nef-U3 overlap (HXB2 position 9347-9365; LTR region). Five of these isolates formed a rigid cluster in phylogentic trees from different subclade F1 fragment regions, which we can now designate as CRF46\_BF1. According to our estimate, the new CRF accounts for 0.56% of the HIV-1 circulating strains in Sao Paulo. Comparison with previously published sequences revealed an additional five isolates that share an identical mosaic structure with those reported in our study. Despite sharing a similar recombinant structure, only one sequence appeared to originate from the same CRF46\_BF1 ancestor. Conclusion: We identified a new circulating recombinant form with a single intersubtype breakpoint identified at the nef-LTR U3 overlap and designated CRF46\_BF1. Given the biological importance of the LTR U3 region, intersubtype recombination in this region could play an important role in HIV evolution with critical consequences for the development of efficient genetic vaccines. (AU)

FAPESP's process: 07/04890-0 - Mutation patterns in gag cleavage sites and their associations with protease activity and antiviral therapy in HIV-1 infection
Grantee:Evelyn Regina de Souza Pastena
Support type: Scholarships in Brazil - Scientific Initiation
FAPESP's process: 04/15856-9 - Prospective analysis of the virological and immunological characteristics in individuals with recent HIV-1 infection in the cities of São Paulo and Santos
Grantee:Ricardo Sobhie Diaz
Support type: Research Projects - Thematic Grants
FAPESP's process: 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
Grantee:Sabri Saeed Mohamed Ahmed Al-Sanabani
Support type: Scholarships in Brazil - Post-Doctorate