High frequency of recombinant genomes in HIV type 1 samples from Brazilian southeastern and southern regions

AIDS Res Hum Retroviruses. 2002 Nov 20;18(17):1261-9. doi: 10.1089/088922202320886307.

Abstract

We describe the genetic variability of HIV-1 subtypes and recombinant genomes in samples from southeastern and southern Brazilian regions. Phylogenetic analysis of a subset of 34 samples (8F, 7B, 7C, 2D, 1A, and 9 B" variant) based on the DNA sequencing of the env gp120 and gp41, gag p17, and nef regions confirmed the presence of nine (26.5%) potentially HIV-1 recombinant genomes. From the eight C2-V3 gp120 subtype F samples, only two seem to be pure F. One of the samples, classified as B" in the C2-V3 gp120 and as B in gp41 had the gag and nef regions clustering with subtype C. Two of seven C2-V3 subtype C samples presented distinct recombinant patterns as Bgag/Cenv/Bnef and Bgag/Cenv/Cnef. Putative recombinant breakpoints were obtained for three samples presenting discordant subtypes (F/B) between gp120 and gp41 env fragments showing that similar breakpoints could be observed between two unlinked samples (95BRRJ014 and 96BRRJ101). A higher degree of polymorphism was verified in the analysis of a subtype A sample (98BRRS058) in the C2-V3/gp41 env fragment. The intrasubtype C distance was found to be lower than that found for the other subtypes for all genomic regions. These data confirm that distinct HIV-1 subtypes and recombinant forms are actively participating in the Brazilian AIDS epidemic, and that the subtype C was introduced more recently into southern Brazil.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Base Sequence
  • Brazil
  • Gene Frequency
  • Genome, Viral*
  • HIV Envelope Protein gp120 / genetics
  • HIV Envelope Protein gp41 / genetics
  • HIV-1 / classification*
  • HIV-1 / genetics*
  • Molecular Sequence Data
  • Phylogeny
  • Recombination, Genetic*

Substances

  • HIV Envelope Protein gp120
  • HIV Envelope Protein gp41

Associated data

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