HIV type 1 A/J recombinant with a pronounced pol gene mosaicism

Vladimir A. Novitsky, Sarah Gaolekwe, Mary F. McLane, Thumbi P. Ndung'u, Brian T. Foley, Fredrik Vannberg, Richard Marlink, Max Essex

Research output: Contribution to journalArticlepeer-review

19 Scopus citations


A nearly full-length genome sequence of a novel HIV-1 A/J recombinant with a complex structure of the pol gene has been analyzed. This virus was isolated in 1998 from a 35-year-old female from Botswana. The virus demonstrated a dual pattern for CXCR4/CCR5 coreceptor utilization. Using short-term enrichment of the donor's PBMCs, the 98BW21 isolate was long-range amplified, cloned, and sequenced. The sequence of the clone 98BW21.17 spanned 9103 bp from the PBS site to the U5 region of the 3' LTR. The phylogenetic relationship of the 98BW21.17 clone to HIV-1 sequences represented by M, N, and O groups and A-K subtypes of the M group was examined across the entire vital genome. The 98BW21.17 clone demonstrated a unique phylogenetic topology clustering within subtype A or subtype J reference sequences. However, the subtype origin of two regions within the pol gene (p51 RT and integrase) could not be identified. Recombination patterns of the 98BW21.17 clone were different from known AGJ/AGIJ-type viruses such as isolates BFP90 and 95ML84. This study demonstrated the existence and replication competence of a new dual-tropic X4/R5 recombinant form of HIV-1 on the subtype J backbone. The nucleotide sequence of the 98BW21.17 clone was submitted to GenBank under accession number AF192135.

Original languageEnglish (US)
Pages (from-to)1015-1020
Number of pages6
JournalAIDS research and human retroviruses
Issue number10
StatePublished - Jul 1 2000
Externally publishedYes

All Science Journal Classification (ASJC) codes

  • Immunology
  • Virology
  • Infectious Diseases


Dive into the research topics of 'HIV type 1 A/J recombinant with a pronounced pol gene mosaicism'. Together they form a unique fingerprint.

Cite this