Document Detail


Characterization of the South African HIV type 1 subtype C complete 5' long terminal repeat, nef, and regulatory genes.
MedLine Citation:
PMID:  11839148     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Human immunodeficiency virus type 1 (HIV-1) subtype C has become the major etiological agent in the global and especially African epidemic. To gain better understanding of the genetic diversity and rapid transmission of HIV-1 subtype C, we have characterized the complete 5' long terminal repeat (LTR) region along with the regulatory genes tat and rev as well as the accessory gene nef of 14 South African HIV-1 subtype C isolates. Phylogenetic analysis revealed a subtype C 5' LTR cluster, as well as subclustering of our nef sequences with various subtype C strains separate from the India and China subclusters. At least 3 NF-kappaB sites were present in the 5' LTR of most isolates and 13 isolates had the subtype C-specific Rev truncation. Some length variation in exon 2 and the absence of a critical cysteine were found in Tat. Residue variation in the myristoylation signal and motifs involved in CD4 and MHC-I downregulation was recorded in our nef gene sequences.
Authors:
Thomas J Scriba; Tania de Villiers; Florette K Treurnicht; Jan zur Megede; Susan W Barnett; Susan Engelbrecht; Estrelita Janse van Rensburg
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't    
Journal Detail:
Title:  AIDS research and human retroviruses     Volume:  18     ISSN:  0889-2229     ISO Abbreviation:  AIDS Res. Hum. Retroviruses     Publication Date:  2002 Jan 
Date Detail:
Created Date:  2002-02-12     Completed Date:  2002-05-08     Revised Date:  2006-11-15    
Medline Journal Info:
Nlm Unique ID:  8709376     Medline TA:  AIDS Res Hum Retroviruses     Country:  United States    
Other Details:
Languages:  eng     Pagination:  149-59     Citation Subset:  IM; X    
Affiliation:
Department of Medical Virology, University of Stellenbosch, Tygerberg 7505, South Africa.
Data Bank Information
Bank Name/Acc. No.:
GENBANK/AY047230;  AY047231;  AY047232;  AY047233;  AY047234;  AY047235;  AY047236;  AY047237;  AY047238;  AY047239;  AY047240;  AY047241;  AY047242;  AY047243;  AY047244;  AY047245;  AY047246;  AY047247;  AY047248;  AY047249;  AY047250;  AY047251;  AY047252;  AY047253;  AY047254;  AY047255;  AY047256;  AY047257;  AY047258;  AY047259;  AY047260;  AY047261;  AY047262;  AY047263;  AY047264;  AY047265;  AY047266;  AY047267;  AY047268;  AY047269;  AY047270;  AY047271;  AY047272;  AY047273;  AY047274;  AY047275;  AY047276;  AY047277;  AY047278;  AY047279;  AY047280;  AY047281;  AY047282;  AY047283;  AY047284;  AY047285;  AY047286;  AY047287;  AY047288;  AY047289;  AY047290;  AY047291;  AY047292;  AY047293;  AY047294;  AY047295;  AY047296;  AY047297;  AY047298;  AY047299;  AY047300;  AY047301;  AY047302;  AY047303;  AY047304;  AY047305;  AY047306;  AY047307;  AY047308;  AY047309;  AY047310;  AY047311;  AY047312;  AY047313;  AY047314;  AY047315
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MeSH Terms
Descriptor/Qualifier:
Africa, Southern / epidemiology
Amino Acid Sequence
Genes, nef*
Genes, rev*
Genes, tat*
HIV Infections / epidemiology,  virology*
HIV Long Terminal Repeat*
HIV-1 / classification,  genetics*
Humans
Molecular Sequence Data
Sequence Alignment
Sequence Homology, Amino Acid

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