Deep Sequencing of HIV-1 near Full-Length Proviral Genomes Identifies High Rates of BF1 Recombinants Including Two Novel Circulating Recombinant Forms (CRF) 70_BF1 and a Disseminating 71_BF1 among Blood Donors in Pernambuco, Brazil

Autor(es)

Pessoa, Rodrigo ^[1] ; Watanabe, Jaqueline Tomoko ^[1] ; Calabria, Paula ^[1] ; Felix, Alvina Clara ^[1] ; Loureiro, Paula ^[2] ; Sabino, Ester C. ^[3] ; Busch, Michael P. ^[4] ; Sanabani, Sabri S. ^[5] ; Recipient, Int Component NHLBI

Afiliação do(s) autor(es)

^[1] Univ Sao Paulo, Sao Paulo Inst Trop Med, Dept Virol, Sao Paulo - Brazil

^[2] Pernambuco State Ctr Hematol & Hemotherapy, Recife, PE - Brazil

^[3] Univ Sao Paulo, Inst Trop Med, Dept Infect Dis, Sao Paulo - Brazil

^[4] Blood Syst Res Inst, San Francisco, CA - USA

^[5] Univ Sao Paulo, Sch Med, Hosp Clin, Clin Lab, Dept Pathol, Sao Paulo - Brazil

• Tipo de documento: Artigo Científico
• Fonte: PLoS One; v. 9, n. 11 NOV 17 2014.
• Citações Web of Science: 13

Resumo

Background: The findings of frequent circulation of HIV-1 subclade F1 viruses and the scarcity of BF1 recombinant viruses based on pol subgenomic fragment sequencing among blood donors in Pernambuco (PE), Northeast of Brazil, were reported recently. Here, we aimed to determine whether the classification of these strains (n = 26) extends to the whole genome sequences. Methods: Five overlapping amplicons spanning the HIV near full-length genomes (NFLGs) were PCR amplified from peripheral blood mononuclear cells (PBMCs) of 26 blood donors. The amplicons were molecularly bar-coded, pooled, and sequenced by Illumina paired-end protocol. The prevalence of viral variants containing drug resistant mutations (DRMs) was compared between plasma and PBMCs. Results: Of the 26 samples studied, 20 NFLGs and 4 partial fragments were de novo assembled into contiguous sequences and successfully subtyped. Two distinct BF1 recombinant profiles designated CRF70\_BF1 and CRF71\_BF1, with 4 samples in profile I and 11 in profile II were detected and thus constitute two novel recombinant forms circulating in PE. Evidence of dual infections was detected in four patients co-infected with distinct HIV-1 subtypes. According to our estimate, the new CRF71\_BF1 accounts for 10% of the HIV-1 circulating strains among blood donors in PE. Discordant data between the plasma and PBMCs-virus were found in 15 of 24 donors. Six of these strains displayed major DRMs only in PBMCs and four of which had detectable DRMs changes at prevalence between 1-20% of the sequenced population. Conclusions: The high percentage of the new RF71\_BF1 and other BF1 recombinants found among blood donors in Pernambuco, coupled with high rates of transmitted DRMs and dual infections confirm the need for effective surveillance to monitor the prevalence and distribution of HIV variants in a variety of settings in Brazil. (AU)

• Processo FAPESP: 11/11090-5 - Caracterização do vírus da imunodeficiência humana (HIV-1) pela análise do genoma completo viral em amostras de doadores de sangue nos estados de Pernambuco, Minas Gerais, Rio de Janeiro e São Paulo
• Beneficiário: Sabri Saeed Mohammed Ahmed Al-Sanabani
• Modalidade de apoio: Auxílio à Pesquisa - Regular
• Processo FAPESP: 11/12297-2 - Análise dos transcritos de miRNAs, REX e tax em células T no curso da infecção pelo HTLV-1, utilizando sequenciamento de nova geração
• Beneficiário: Sabri Saeed Mohammed Ahmed Al-Sanabani
• Modalidade de apoio: Auxílio à Pesquisa - Regular