Characterization and frequency of a newly identified HIV-1 BF1 intersubtype circulating recombinant form in São Paulo, Brazil
| Autor: | Walter Kleine Neto, Vanessa Pouza Martinez, Sabri Saeed Sanabani, Ester Cerdeira Sabino, Évelyn Regina de Souza Pastena |
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| Přispěvatelé: | Hemoctr, Universidade Federal de São Paulo (UNIFESP) |
| Jazyk: | angličtina |
| Rok vydání: | 2010 |
| Předmět: |
Adult
Male Genotype Molecular Sequence Data Human immunodeficiency virus (HIV) Sequence Homology HIV Infections Genome Viral Biology medicine.disease_cause Genome lcsh:Infectious and parasitic diseases law.invention Proviruses law Virology medicine Cluster Analysis Humans lcsh:RC109-216 Dna viral Phylogeny Recombination Genetic Genetics Molecular Epidemiology Molecular epidemiology Research virus diseases Sequence Analysis DNA Middle Aged Infectious Diseases Sequence homology pol Gene Products Human Immunodeficiency Virus DNA Viral HIV-1 Recombinant DNA Female Brazil |
| Zdroj: | Repositório Institucional da UNIFESP Universidade Federal de São Paulo (UNIFESP) instacron:UNIFESP Virology Journal, Vol 7, Iss 1, p 74 (2010) Virology Journal |
| Popis: | Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP) 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 São 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 analysisResults: 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 São 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. Hemoctr, Fundacao Prosangue, São Paulo, Brazil Universidade Federal de São Paulo, Retrovirol Lab, São Paulo, Brazil Universidade Federal de São Paulo, Retrovirol Lab, São Paulo, Brazil FAPESP: 06/50096-0 FAPESP: 2004/15856-9 FAPESP: 2007/04890-0 Web of Science |
| Databáze: | OpenAIRE |
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