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Characterization of the South African HIV type 1 subtype C complete 5′ long terminal repeat, nef, and regulatory genes

dc.contributor.authorScriba T.J.
dc.contributor.authorDe Villiers T.
dc.contributor.authorTreurnicht F.K.
dc.contributor.authorZur Megede J.
dc.contributor.authorBarnett S.W.
dc.contributor.authorEngelbrecht S.
dc.contributor.authorVan Rensburg E.J.
dc.date.accessioned2011-05-15T16:03:21Z
dc.date.available2011-05-15T16:03:21Z
dc.date.issued2002
dc.identifier.citationAIDS Research and Human Retroviruses
dc.identifier.citation18
dc.identifier.citation2
dc.identifier.issn8892229
dc.identifier.other10.1089/08892220252779692
dc.identifier.urihttp://hdl.handle.net/10019.1/12589
dc.description.abstractHuman 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 genestat andrev as well as the accessory genenef of 14 South African HIV-1 subtype C isolates. Phylogenetic analysis revealed a subtype C 5′ LTR cluster, as well as subclustering of ournef sequences with various subtype C strains separate from the India and China subclusters. At least 3 NF-κB 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 myris-toylation signal and motifs involved in CD4 and MHC-I downregulation was recorded in our nef gene sequences.
dc.subjectCD4 antigen
dc.subjectcysteine
dc.subjectimmunoglobulin enhancer binding protein
dc.subjectarticle
dc.subjectChina
dc.subjectcontrolled study
dc.subjectdown regulation
dc.subjectexon
dc.subjectgene sequence
dc.subjectHuman immunodeficiency virus 1
dc.subjectIndia
dc.subjectlong terminal repeat
dc.subjectmajor histocompatibility complex
dc.subjectmyristylation
dc.subjectnonhuman
dc.subjectnucleotide sequence
dc.subjectphylogeny
dc.subjectpriority journal
dc.subjectregulator gene
dc.subjectSouth Africa
dc.subjectvirus characterization
dc.subjectvirus gene
dc.subjectvirus isolation
dc.subjectvirus strain
dc.subjectAfrica, Southern
dc.subjectAmino Acid Sequence
dc.subjectGenes, nef
dc.subjectGenes, rev
dc.subjectGenes, tat
dc.subjectHIV Infections
dc.subjectHIV Long Terminal Repeat
dc.subjectHIV-1
dc.subjectHumans
dc.subjectMolecular Sequence Data
dc.subjectSequence Alignment
dc.subjectSequence Homology, Amino Acid
dc.titleCharacterization of the South African HIV type 1 subtype C complete 5′ long terminal repeat, nef, and regulatory genes
dc.typeArticle
dc.description.versionArticle


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