Document Detail


Human immunodeficiency virus type 1 reverse-transcriptase and protease subtypes: classification, amino acid mutation patterns, and prevalence in a northern California clinic-based population.
MedLine Citation:
PMID:  11574914     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Phylogenetic analysis of the reverse transcriptase (RT) and protease of 117 published complete human immunodeficiency virus (HIV) type 1 genome sequences demonstrated that these genes cluster into distinct subtypes. There was a slightly higher proportion of informative sites in the RT (40.4%) than in the protease (34.8%; P= .03). Although most variation between subtypes was due to synonymous nucleotide substitutions, several subtype-specific amino acid patterns were observed. In the protease, the subtype-specific variants included 7 positions associated with drug resistance. Variants at positions 10, 20, 36, and 82 were more common in non-B isolates, whereas variants at positions 63, 77, and 93 were more common in subtype B isolates. In the RT, the subtype-specific mutations did not include positions associated with anti-retroviral drug resistance. RT and protease sequences from 2246 HIV-infected persons in northern California were also examined: 99.4% of the sequences clustered with subtype B, whereas 0.6% clustered with subtype A, C, or D.
Authors:
M J Gonzales; R N Machekano; R W Shafer
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Publication Detail:
Type:  Journal Article; Research Support, U.S. Gov't, P.H.S.     Date:  2001-09-10
Journal Detail:
Title:  The Journal of infectious diseases     Volume:  184     ISSN:  0022-1899     ISO Abbreviation:  J. Infect. Dis.     Publication Date:  2001 Oct 
Date Detail:
Created Date:  2001-09-27     Completed Date:  2001-12-07     Revised Date:  2011-09-26    
Medline Journal Info:
Nlm Unique ID:  0413675     Medline TA:  J Infect Dis     Country:  United States    
Other Details:
Languages:  eng     Pagination:  998-1006     Citation Subset:  AIM; IM    
Affiliation:
Division of Infectious Diseases, Stanford University Medical Center, Stanford, California 94305, USA.
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MeSH Terms
Descriptor/Qualifier:
Amino Acid Sequence
Genome, Viral
HIV Protease / genetics*
HIV Reverse Transcriptase / genetics*
HIV-1 / genetics*
Humans
Mutation*
North Carolina
Phylogeny
Sequence Alignment
Sequence Homology, Amino Acid
Grant Support
ID/Acronym/Agency:
AI-46148/AI/NIAID NIH HHS; R01 AI046148-08/AI/NIAID NIH HHS
Chemical
Reg. No./Substance:
EC 2.7.7.49/HIV Reverse Transcriptase; EC 3.4.23.-/HIV Protease
Comments/Corrections

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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