Diversity of mosaic structures and common ancestry of human immunodeficiency virus type 1 BF intersubtype recombinant viruses from Argentina revealed by analysis of near full-length genome sequences

Department of Viral Pathogenesis, Instituto de Salud Carlos III, Ctra. Majadahonda-Pozuelo, Km. 2, 28220 Majadahonda, Madrid, Spain 1 Author for correspondence: Rafael Nájera. Fax +34 91 5097014. e-mail rafael.najera{at}isciii.es The findings that BF intersubtype recombinant human immunodeficiency t...

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Published in:Journal of general virology 2002-01, Vol.83 (1), p.107-119
Main Authors: Thomson, Michael M, Delgado, Elena, Herrero, Isabel, Villahermosa, Maria Luisa, Vazquez-de Parga, Elena, Cuevas, Maria Teresa, Carmona, Rocio, Medrano, Leandro, Perez-Alvarez, Lucia, Cuevas, Laureano, Najera, Rafael
Format: Article
Language:English
Subjects:
Argentina
Base Sequence
DNA, Viral
Female
gag Gene Products, Human Immunodeficiency Virus
Gene Products, gag - genetics
Gene Products, gag - physiology
Gene Products, rev - genetics
Gene Products, rev - physiology
Genetic Variation
Genome, Viral
HIV Antigens - genetics
HIV Antigens - physiology
HIV Envelope Protein gp41 - genetics
HIV Envelope Protein gp41 - physiology
HIV Infections - virology
HIV Reverse Transcriptase - genetics
HIV Reverse Transcriptase - physiology
HIV-1 - classification
HIV-1 - genetics
Human immunodeficiency virus
Human immunodeficiency virus 1
Human Immunodeficiency Virus Proteins
Humans
Male
Molecular Sequence Data
Mosaicism
Phylogeny
Protein Structure, Tertiary
Recombination, Genetic
rev Gene Products, Human Immunodeficiency Virus
Sequence Analysis, Protein
Sequence Analysis, RNA
Viral Proteins
Viral Regulatory and Accessory Proteins - genetics
Viral Regulatory and Accessory Proteins - physiology
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Summary:Department of Viral Pathogenesis, Instituto de Salud Carlos III, Ctra. Majadahonda-Pozuelo, Km. 2, 28220 Majadahonda, Madrid, Spain 1 Author for correspondence: Rafael Nájera. Fax +34 91 5097014. e-mail rafael.najera{at}isciii.es The findings that BF intersubtype recombinant human immunodeficiency type 1 viruses (HIV-1) with coincident breakpoints in pol are circulating widely in Argentina and that non-recombinant F subtype viruses have failed to be detected in this country were reported recently. To analyse the mosaic structures of these viruses and to determine their phylogenetic relationship, near full-length proviral genomes of eight of these recombinant viruses were amplified by PCR and sequenced. Intersubtype breakpoints were analysed by bootscanning and examining the signature nucleotides. Phylogenetic relationships were determined with neighbour-joining trees. Five viruses, each with predominantly subtype F genomes, exhibited mosaic structures that were highly similar. Two intersubtype breakpoints were shared by all viruses and seven by the majority. Of the consensus breakpoints, all nine were present in two viruses, which exhibited identical recombinant structures, and four to eight breakpoints were present in the remaining viruses. Phylogenetic analysis of partial sequences supported both a common ancestry, at least in part of their genomes, for all recombinant viruses and the phylogenetic relationship of F subtype segments with F subtype viruses from Brazil. A common ancestry of the recombinants was supported also by the presence of shared signature amino acids and nucleotides, either unreported or highly unusual in F and B subtype viruses. These results indicate that HIV-1 BF recombinant viruses with diverse mosaic structures, including a circulating recombinant form (which are widespread in Argentina) derive from a common recombinant ancestor and that F subtype segments of these recombinants are related phylogenetically to the F subtype viruses from Brazil.
ISSN:0022-1317
1465-2099
DOI:10.1099/0022-1317-83-1-107