Document Detail


Intrapatient sequence variation of the gag gene of human immunodeficiency virus type 1 plasma virions.
MedLine Citation:
PMID:  8971017     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Because certain regions of the gag gene, such as p24, are highly conserved among human immunodeficiency virus (HIV) isolates, many therapeutic strategies have been directed at gag gene targets. Although intrapatient variation of segments of gag have been determined, little is known about the variability of the full-length gag gene for HIV isolated from a single individual. To evaluate intrapatient full-length gag variability, we derived the nucleotide sequences of at least 10 cDNA gag clones of virion RNA isolated from plasma for each of four asymptomatic HIV type 1-infected patients with relatively high CD4+ T-cell counts (300 to 450 cells per mm3). Mean values of intrapatient gag nucleotide variation obtained by pairwise comparisons ranged from 0.55 to 2.86%. For three subjects, this value was equivalent to that reported for intrapatient full-length env variation. The greatest range of intrapatient mean nucleotide variation for individual protein-coding regions was observed for p7. We did not detect any G-to-A hypermutation, as A-to-G and G-to-A transitions occurred at similar frequencies, accounting for 29 and 25%, respectively, of the changes. Mean variation values and phylogenetic analysis suggested that the extent of nucleotide variation correlated with the length of viral infection. Furthermore, no distinct subpopulations of quasispecies were detectable within an individual. The predicted amino acid sequences indicated that there were no regions within a gag protein that were comprised of clustered changes.
Authors:
F K Yoshimura; K Diem; G H Learn; S Riddell; L Corey
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Publication Detail:
Type:  Journal Article; Research Support, U.S. Gov't, P.H.S.    
Journal Detail:
Title:  Journal of virology     Volume:  70     ISSN:  0022-538X     ISO Abbreviation:  J. Virol.     Publication Date:  1996 Dec 
Date Detail:
Created Date:  1997-01-23     Completed Date:  1997-01-23     Revised Date:  2009-11-18    
Medline Journal Info:
Nlm Unique ID:  0113724     Medline TA:  J Virol     Country:  UNITED STATES    
Other Details:
Languages:  eng     Pagination:  8879-87     Citation Subset:  IM; X    
Affiliation:
Department of Biological Structure, University of Washington, Seattle 98195, USA. fyoshi@med.wayne.edu
Data Bank Information
Bank Name/Acc. No.:
GENBANK/U29242;  U29246;  U29247;  U29248;  U29249;  U29250;  U29251;  U29252;  U29253;  U29254;  U29255;  U29256;  U29257;  U29258;  U29259;  U29260;  U29261;  U29262;  U29263;  U29264;  U29265;  U29403;  U29404;  U29405;  U29406;  U29407;  U29408;  U29409;  U29410;  U29411
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MeSH Terms
Descriptor/Qualifier:
Amino Acid Sequence
Base Sequence
DNA, Viral
Genes, gag*
Genetic Variation*
HIV Infections / blood,  virology*
HIV-1 / classification,  genetics*,  isolation & purification
Humans
Molecular Sequence Data
Phylogeny
Sequence Homology, Amino Acid
Virion
Grant Support
ID/Acronym/Agency:
AI05065/AI/NIAID NIH HHS; AI27757/AI/NIAID NIH HHS; AI36613/AI/NIAID NIH HHS
Chemical
Reg. No./Substance:
0/DNA, Viral
Comments/Corrections

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