Molecular and phylogenetic analysis of HIV type 1 vpr sequences of South African strains

AIDS Res Hum Retroviruses. 2009 Mar;25(3):357-62. doi: 10.1089/aid.2008.0251.

Abstract

HIV-1 subtype C is the prevalent subtype in South Africa, with non-C subtypes being sporadically detected. The accessory genes of subtype C have not been well studied in South Africa. In this study the HIV-1 vpr region of 58 strains was amplified, sequenced, and subtyped. Phylogenetic analysis characterized 54 strains as HIV-1 subtype C and 4 strains as HIV-1 subtype B. The amino acid sequence of the protein was also investigated. The overall amino acid sequence of Vpr was conserved as well as the motifs FPRPWL (34-39: IH1) and TYGDTW (49-54: IH2). The C-terminal was more variable. The importance of these motifs and variability needs to be addressed.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Motifs
  • Cluster Analysis
  • Conserved Sequence
  • Genotype
  • HIV Infections / virology*
  • HIV-1 / classification*
  • HIV-1 / genetics*
  • HIV-1 / isolation & purification
  • Humans
  • Molecular Sequence Data
  • Mutation, Missense
  • Phylogeny*
  • Sequence Analysis, DNA
  • Sequence Homology, Amino Acid
  • South Africa
  • vpr Gene Products, Human Immunodeficiency Virus / genetics*

Substances

  • vpr Gene Products, Human Immunodeficiency Virus
  • vpr protein, Human immunodeficiency virus 1

Associated data

  • GDB/FJ039723
  • GDB/FJ039724
  • GDB/FJ039725
  • GDB/FJ039726
  • GDB/FJ039727
  • GDB/FJ039728
  • GDB/FJ039729
  • GDB/FJ039730
  • GDB/FJ039731
  • GDB/FJ039732
  • GDB/FJ039733
  • GDB/FJ039734
  • GDB/FJ039735
  • GDB/FJ039736
  • GDB/FJ039737
  • GDB/FJ039738
  • GDB/FJ039739
  • GDB/FJ039740
  • GDB/FJ039741
  • GDB/FJ039742
  • GDB/FJ039743
  • GDB/FJ039744
  • GDB/FJ039745
  • GDB/FJ039746
  • GDB/FJ039747
  • GDB/FJ039748
  • GDB/FJ039749
  • GDB/FJ039750
  • GDB/FJ039751
  • GDB/FJ039752
  • GDB/FJ039753
  • GDB/FJ039754
  • GDB/FJ039755
  • GDB/FJ039756
  • GDB/FJ039757
  • GDB/FJ039758
  • GDB/FJ039759
  • GDB/FJ039760
  • GDB/FJ039761
  • GDB/FJ039762
  • GDB/FJ039763
  • GDB/FJ039764
  • GDB/FJ039765
  • GDB/FJ039766
  • GDB/FJ039767
  • GDB/FJ039768
  • GDB/FJ039769
  • GDB/FJ039770
  • GDB/FJ039771
  • GDB/FJ039772
  • GDB/FJ039773
  • GDB/FJ039774
  • GDB/FJ039775
  • GDB/FJ039776
  • GDB/FJ039777
  • GDB/FJ039778
  • GDB/FJ039779
  • GDB/FJ039780