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Cell Host Microbe","volume":"3","author":"MH Malim","year":"2008"},{"key":"ref5","first-page":"125","article-title":"Causes of HIV diversity. Nature","volume":"13","author":"S Bonhoeffer","year":"1995"},{"key":"ref6","first-page":"878","article-title":"The fastest genome evolution ever described: HIV variation in situ. Curr. Opin. Genet. Dev","volume":"3","author":"S Wain-Hobson","year":"1993"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"323","DOI":"10.1006\/viro.1994.1130","article-title":"Fidelity of HIV-1 reverse transcriptase copying a hypervariable region of the HIV-1 env gene","volume":"199","author":"J Ji","year":"1994","journal-title":"Virology"},{"key":"ref8","first-page":"8757","article-title":"Clustering patterns of cytotoxic T-lymphocyte epitopes in human immunodeficiency virus type 1 (HIV-1) proteins reveal imprints of immune evasion on HIV-1 global variation. J Virol","volume":"76","author":"K Yusim","year":"2002"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"1221","DOI":"10.1126\/science.3261888","article-title":"A novel gene of HIV-1, vpu, and its 16-kilodalton product","volume":"241","author":"K Strebel","year":"1988","journal-title":"Science"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"532","DOI":"10.1038\/334532a0","article-title":"Identification of a protein encoded by the vpu gene of HIV-1","volume":"334","author":"EA Cohen","year":"1988","journal-title":"Nature"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"6968","DOI":"10.1073\/pnas.85.18.6968","article-title":"Human immunodeficiency virus type 1 has an additional coding sequence in the central region of the genome","volume":"85","author":"Z Matsuda","year":"1988","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref12","first-page":"78","article-title":"Lack of adaptation to human tetherin in HIV-1 group O and P. Retrovirology","volume":"8","author":"SJ Yang","year":"2011"},{"key":"ref13","first-page":"7931","article-title":"Vpu Directs the Degradation of the Human Immunodeficiency Virus Restriction Factor BST-2\/Tetherin via a \u03b2TrCP-Dependent Mechanism. J Virol","volume":"83","author":"JL Douglas","year":"2009"},{"key":"ref14","first-page":"565","article-title":"A novel human WD protein, h-beta TrCp, that interacts with HIV-1 Vpu connects CD4 to the ER degradation pathway through an F-box motif. Mol Cell","volume":"1","author":"F Margottin","year":"1998"},{"key":"ref15","first-page":"16","article-title":"The human immunodeficiency virus type 1 encoded Vpu protein is phosphorylated by casein kinase-2 (CK-2) at positions Ser52 and Ser56 within a predicted alpha-helix-turn-alpha-helix-motif. J Mol Biol","volume":"236","author":"U Schubert","year":"1994"},{"key":"ref16","first-page":"1299","article-title":"The Human Immunodeficiency Virus Type 1 Accessory Protein Vpu Induces Apoptosis by Suppressing the Nuclear Factor {kappa}\u03b2-dependent Expression of Antiapoptotic Factors. J Exp Med","volume":"194","author":"H Akari","year":"2001"},{"key":"ref17","first-page":"6600","article-title":"Inhibition of \u03b2-TrcP\u2013dependent ubiquitination of p53 by HIV-1 Vpu promotes p53\u2013mediated apoptosis in human T cells. Blood","volume":"117","author":"S Verma","year":"2011"},{"key":"ref18","first-page":"809","article-title":"The two biological activities of human immunodeficiency virus type 1 Vpu protein involve two separable structural domains. J Virol","volume":"70","author":"U Schubert","year":"1996"},{"key":"ref19","first-page":"379","article-title":"Identification of a region within the cytoplasmic domain of the subtype B Vpu protein of human immunodeficiency virus type 1 (HIV-1) that is responsible for retention in the golgi complex and its absence in the Vpu protein from a subtype C HIV-1. AIDS Res Hum Retroviruses","volume":"21","author":"E Pacyniak","year":"2005"},{"key":"ref20","first-page":"81","article-title":"Oligomerization of the human immunodeficiency virus type 1 (HIV-1) Vpu protein \u2013 a genetic, biochemical and biophysical analysis. Virol J","volume":"4","author":"A Hussain","year":"2007"},{"key":"ref21","first-page":"2468","article-title":"Determination of Human Immunodeficiency Virus Type 1 Subtypes in Taiwan by vpu Gene Analysis. J. Clin. Microbiol","volume":"38","author":"CN Lee","year":"2000"},{"key":"ref22","first-page":"775","article-title":"Characterization and Phylogenetic Analysis of South African HIV-1 Subtype C Accessory Gene. Aids Research and Human Retroviruses","volume":"8","author":"T Jens","year":"2001"},{"key":"ref23","first-page":"86","article-title":"Modulation of the severe CD4+ T-cell loss caused by a pathogenic simian-human immunodeficiency virus by replacement of the subtype B vpu with the vpu from a subtype C HIV-1 clinical isolate. Virology","volume":"371","author":"MS Hill","year":"2008"},{"key":"ref24","first-page":"284","article-title":"Production of acquired immunodeficiency syndrome-associated retrovirus in human and nonhuman cells transfected with an infectious molecular clone. J Virol","volume":"59","author":"A Adachi","year":"1986"},{"key":"ref25","doi-asserted-by":"crossref","first-page":"e104","DOI":"10.1371\/journal.ppat.0030104","article-title":"Regulated Degradation of the HIV-1 Vpu Protein through a \u03b2TrCP-Independent Pathway Limits the Release of Viral Particles","volume":"7","author":"E Estrabaud","year":"2007","journal-title":"PLoS Pathogens"},{"key":"ref26","first-page":"757","article-title":"Transmembrane domain determinants of CD4 Downregulation by HIV-1 Vpu. J Virol","volume":"86","author":"JG Magad\u00e1n","year":"2012"},{"key":"ref27","first-page":"58","article-title":"HIV-1 Vpu protein antagonizes innate restriction factor BST-2 via lipid-embedded helix-helix interactions. J Biol Chem","volume":"287","author":"M Skasko","year":"2012"},{"key":"ref28","doi-asserted-by":"crossref","first-page":"e20890","DOI":"10.1371\/journal.pone.0020890","article-title":"Polarity changes in the transmembrane domain core of HIV-1 Vpu inhibits its anti-tetherin activity","volume":"6","author":"M Lv","year":"2011","journal-title":"PLoS One"},{"key":"ref29","doi-asserted-by":"crossref","first-page":"2868","DOI":"10.1073\/pnas.0813223106","article-title":"Vpu enhances HIV-1 virus release in the absence of BST-2 cell surface down-modulation and intracellular depletion. Proc. Natl. Acad. Sci","volume":"106","author":"E Miyagi","year":"2009","journal-title":"USA"},{"key":"ref30","first-page":"1270","article-title":"Mutational Analysis of the Human Immunodeficiency Virus Type 1 Vpu Transmembrane Domain That Promotes the Enhanced Release of Virus-Like Particles from the Plasma Membrane of Mammalian Cells. J. Virol","volume":"72","author":"M Paul","year":"1998"},{"key":"ref31","first-page":"2768","article-title":"Genetic and functional characterization of human immunodeficiency virus type 1 VprC variants from north India: presence of unique recombinants with mosaic genomes from B, C and D subtypes within the open reading frame of Vpr. J Gen Virol","volume":"90","author":"AS Bano","year":"2009"},{"key":"ref32","first-page":"4673","article-title":"CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Res","volume":"22","author":"JD Thompson","year":"1994"},{"key":"ref33","first-page":"406","article-title":"The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol Biol Evol","volume":"4","author":"N Saitou","year":"1987"},{"key":"ref34","first-page":"111","article-title":"A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol","volume":"16","author":"M Kimura","year":"1980"},{"key":"ref35","first-page":"1596","article-title":"MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol","volume":"24","author":"K Tamura","year":"2007"},{"key":"ref36","first-page":"55","article-title":"HIV Signature and Sequence Variation Analysis","volume":"4","author":"B Korber","year":"2000","journal-title":"Computational Analysis of HIV Molecular Sequences"},{"key":"ref37","first-page":"259","article-title":"Viral replication is enhanced by an HIV-1 intersubtype recombination-derived Vpu protein. Virol J","volume":"7","author":"C De Candia","year":"2010"},{"key":"ref38","first-page":"5690","article-title":"Regulation of Mdm-2 directed degradation by the C terminus of p53. Mol Cell Biol","volume":"18","author":"MH Kubbutat","year":"1998"},{"key":"ref39","first-page":"90","article-title":"A novel, rapid method to detect infectious HIV-1 from plasma of persons infected with HIV-1. 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