McCutchan F, Carr JK, Robb M, Mascola J, Yu XF, Janssens W, Salminen M, Albert J, Burke D, Unadis P, Birx D; International Conference on AIDS.
Int Conf AIDS. 2000 Jul 9-14; 13: abstract no. MoOrA165.
F. McCutchan, Henry M. Jackson Foundation, 1 Taft Court, Rockville, MD, 20850, United States, Tel.: +1 301 251 5065, Fax: +1 301 294 1898, E-mail: fmccutchan@hiv.hjf.org
The HIV-1 pandemic is caused by multiple genetic subtypes and inter-subtype recombinants, and characterization of strains provides a framework for vaccine design and evaluation. Few studies of HIV-1 variation have employed full-genome sequencing, but this is necessary to distinguish subtypes from recombinants. Here the database of 145 full-genome HIV-1 sequences is reviewed, including 65 newly derived, previously unreported sequences. DNA was extracted from primary PBMC or from virus cultures and nearly full length HIV-1 genomes were amplified using nested PCR and sequenced. Analysis was by neighbor joining or parsimony, with bootstrapping. Available full-genome HIV-1group M sequences include 14 subtype A, 8 AGIbNG recombinant, 17 subtype B, 21 subtype C, 17 Subtype D, 9 AECM240 recombinant, 2 subtype F, 3 sub-subtype F2, 3 subtype G, 3 subtype H, 2 subtype J, 2 subtype K, 9AC and 10AD recombinants, each having a different structure and none found in more than one individual to date, 4 BC recombinants with two different forms, 9 other recombinants, and 9 unclassified strains, among which are two pairs of strains that may be new subtypes. Two widely circulating recombinant forms (CRF), AECM240 and AGIbNG, have maintained their structure through many cycles of transmission and extensive geographic spread, but have occasionally recombined with other subtypes. The full genetic complexity of HIV-1 is higher than anticipated based on partial sequences, which may mis-represent proportions of subtypes and will not be sufficient to determine vaccine coverage against different subtypes. When possible, full genome sequencing should support vaccine evaluations.
Publication Types:
Keywords:
- Acquired Immunodeficiency Syndrome
- Base Sequence
- HIV Infections
- HIV-1
- Polymerase Chain Reaction
- genetics
Other ID:
UI: 102237504
From Meeting Abstracts