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Volumn 66, Issue 6, 2008, Pages 598-604

Positive selection on HIV accessory proteins and the analysis of molecular adaptation after interspecies transmission

Author keywords

Accessory protein; Adaptive evolution; Human immunodeficiency virus; Primate lentivirus

Indexed keywords

ARTICLE; EVOLUTIONARY ADAPTATION; HUMAN IMMUNODEFICIENCY VIRUS; INTRASPECIFIC COMPETITION; NUCLEOTIDE SEQUENCE; SEQUENCE ANALYSIS; VIRUS TRANSMISSION;

EID: 46649087123     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00239-008-9112-6     Document Type: Article
Times cited : (6)

References (42)
  • 1
    • 0034897709 scopus 로고    scopus 로고
    • Accuracy and power of the likelihood ratio test in detecting adaptive molecular evolution
    • Anisimova M, Bielawski JP, Yang ZH (2001) Accuracy and power of the likelihood ratio test in detecting adaptive molecular evolution. Mol Biol Evol 18:1585-1592
    • (2001) Mol Biol Evol , vol.18 , pp. 1585-1592
    • Anisimova, M.1    Bielawski, J.P.2    Yang, Z.H.3
  • 2
    • 0036272936 scopus 로고    scopus 로고
    • Accuracy and power of Bayes prediction of amino acid sites under positive selection
    • Anisimova M, Bielawski JP, Yang ZH (2002) Accuracy and power of Bayes prediction of amino acid sites under positive selection. Mol Biol Evol 19:950-958
    • (2002) Mol Biol Evol , vol.19 , pp. 950-958
    • Anisimova, M.1    Bielawski, J.P.2    Yang, Z.H.3
  • 3
    • 0042208362 scopus 로고    scopus 로고
    • Effect of recombination on the accuracy of the likelihood method for detecting positive selection at amino acid sites
    • Anisimova M, Nielsen R, Yang ZH (2003) Effect of recombination on the accuracy of the likelihood method for detecting positive selection at amino acid sites. Genetics 164:1229-1236
    • (2003) Genetics , vol.164 , pp. 1229-1236
    • Anisimova, M.1    Nielsen, R.2    Yang, Z.H.3
  • 4
    • 0842326022 scopus 로고    scopus 로고
    • Comparative study of adaptive molecular evolution in different human immunodeficiency virus groups and subtypes
    • Choisy M, Woelk CH, Guegan JF, Robertson DL (2004) Comparative study of adaptive molecular evolution in different human immunodeficiency virus groups and subtypes. J Virol 78:1962-1970
    • (2004) J Virol , vol.78 , pp. 1962-1970
    • Choisy, M.1    Woelk, C.H.2    Guegan, J.F.3    Robertson, D.L.4
  • 9
    • 33746629789 scopus 로고    scopus 로고
    • Origins of HIV and the evolution of resistance to AIDS
    • Heeney JL, Dalgleish AG, Weiss RA (2006) Origins of HIV and the evolution of resistance to AIDS. Science 313:462-466
    • (2006) Science , vol.313 , pp. 462-466
    • Heeney, J.L.1    Dalgleish, A.G.2    Weiss, R.A.3
  • 11
    • 0034877976 scopus 로고    scopus 로고
    • Simultaneous positive and purifying selection on overlapping reading frames of the tat and vpr genes of simian immunodeficiency virus
    • Hughes AL, Westover K, Da Silva J, O'Connor DH, Watkins DI (2001) Simultaneous positive and purifying selection on overlapping reading frames of the tat and vpr genes of simian immunodeficiency virus. J Virol 75:7966-7972
    • (2001) J Virol , vol.75 , pp. 7966-7972
    • Hughes, A.L.1    Westover, K.2    Da Silva, J.3    O'Connor, D.H.4    Watkins, D.I.5
  • 13
    • 0034899286 scopus 로고    scopus 로고
    • Human immunodeficiency virus type I Vif protein is packaged into the nucleoprotein complex through an interaction with viral genomic RNA
    • Khan MA, Aberham C, Kao S, Akari H, Gorelick R, Bour S, Strebel K (2001) Human immunodeficiency virus type I Vif protein is packaged into the nucleoprotein complex through an interaction with viral genomic RNA. J Virol 75:7252-7265
    • (2001) J Virol , vol.75 , pp. 7252-7265
    • Khan, M.A.1    Aberham, C.2    Kao, S.3    Akari, H.4    Gorelick, R.5    Bour, S.6    Strebel, K.7
  • 15
    • 18144379557 scopus 로고    scopus 로고
    • The Vpr protein from HIV-1: Distinct roles along the viral life cycle
    • Available at:
    • Le Rouzic E, Benichou S (2005) The Vpr protein from HIV-1: distinct roles along the viral life cycle. Retrovirology 2:11. Available at: http://www.retrovirology.com/content/2/1/11
    • (2005) Retrovirology , vol.2 , pp. 11
    • Le Rouzic, E.1    Benichou, S.2
  • 16
    • 0344845196 scopus 로고    scopus 로고
    • HIV-1 Vif protein binds the editing enzyme APOBEC3G and induces its degradation.
    • Marin M, Rose KM, Kozak SL, Kabat D (2003) HIV-1 Vif protein binds the editing enzyme APOBEC3G and induces its degradation. Nature Med 9:1398-1403
    • (2003) Nature Med , vol.9 , pp. 1398-1403
    • Marin, M.1    Rose, K.M.2    Kozak, S.L.3    Kabat, D.4
  • 18
    • 14544275616 scopus 로고    scopus 로고
    • A genetic algorithm approach to detecting lineage-specific variation in selection pressure.
    • Pond SLK, Frost SDW (2005a) A genetic algorithm approach to detecting lineage-specific variation in selection pressure. Mol Biol Evol 22:478-485
    • (2005) Mol Biol Evol , vol.22 , pp. 478-485
    • Pond, S.L.K.1    Frost, S.D.W.2
  • 19
    • 12344314451 scopus 로고    scopus 로고
    • A simple hierarchical approach to modeling distributions of substitution rates
    • Pond SLK, Frost SDW (2005b) A simple hierarchical approach to modeling distributions of substitution rates. Mol Biol Evol 22:223-234
    • (2005) Mol Biol Evol , vol.22 , pp. 223-234
    • Pond, S.L.K.1    Frost, S.D.W.2
  • 20
    • 27844569825 scopus 로고    scopus 로고
    • Site-to-site variation of synonymous substitution rates.
    • Pond SK, Muse SV (2005) Site-to-site variation of synonymous substitution rates. Mol Biol Evol 22:2375-2385
    • (2005) Mol Biol Evol , vol.22 , pp. 2375-2385
    • Pond, S.K.1    Muse, S.V.2
  • 23
    • 0031773680 scopus 로고    scopus 로고
    • MODELTEST: Testing the model of DNA substitution.
    • Posada D, Crandall KA (1998) MODELTEST: testing the model of DNA substitution. Bioinformatics 14:817-818
    • (1998) Bioinformatics , vol.14 , pp. 817-818
    • Posada, D.1    Crandall, K.A.2
  • 24
    • 33749827106 scopus 로고    scopus 로고
    • Robust inference of positive selection from recombining coding sequences
    • Scheffler K, Martin DP, Seoighe C (2006) Robust inference of positive selection from recombining coding sequences. Bioinformatics 22:2493-2499
    • (2006) Bioinformatics , vol.22 , pp. 2493-2499
    • Scheffler, K.1    Martin, D.P.2    Seoighe, C.3
  • 25
    • 0030602182 scopus 로고    scopus 로고
    • Identification of an ion channel activity of the Vpu transmembrane domain and its involvement in the regulation of virus release from HIV-1-infected cells
    • Schubert U, FerrerMontiel AV, OblattMontal M, Henklein P, Strebel K, Montal M (1996) Identification of an ion channel activity of the Vpu transmembrane domain and its involvement in the regulation of virus release from HIV-1-infected cells. FEBS Lett 398:12-18
    • (1996) FEBS Lett , vol.398 , pp. 12-18
    • Schubert, U.1    Ferrermontiel, A.V.2    Oblattmontal, M.3    Henklein, P.4    Strebel, K.5    Montal, M.6
  • 27
    • 15244350550 scopus 로고    scopus 로고
    • Simian immunodeficiency virus infection of chimpanzees
    • Sharp PM, Shaw GM, Hahn BH (2005) Simian immunodeficiency virus infection of chimpanzees. J Virol 79:3891-3902
    • (2005) J Virol , vol.79 , pp. 3891-3902
    • Sharp, P.M.1    Shaw, G.M.2    Hahn, B.H.3
  • 30
    • 0037230001 scopus 로고    scopus 로고
    • Pervasive adaptive evolution in mammalian fertilization proteins.
    • Swanson WJ, Nielsen R, Yang QF (2003) Pervasive adaptive evolution in mammalian fertilization proteins. Mol Biol Evol 20:18-20
    • (2003) Mol Biol Evol , vol.20 , pp. 18-20
    • Swanson, W.J.1    Nielsen, R.2    Yang, Q.F.3
  • 32
    • 0027968068 scopus 로고
    • Clustal-W-improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • Thompson JD, Higgins DG, Gibson TJ (1994) Clustal-W-improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673-4680
    • (1994) Nucleic Acids Res , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 33
    • 0026739866 scopus 로고
    • Evolution of the primate lentiviruses-evidence from Vpx and Vpr
    • Tristem M, Marshall C, Karpas A, Hill F (1992) Evolution of the primate lentiviruses-evidence from Vpx and Vpr. EMBO J 11:3405-3412
    • (1992) EMBO J , vol.11 , pp. 3405-3412
    • Tristem, M.1    Marshall, C.2    Karpas, A.3    Hill, F.4
  • 36
    • 8544225780 scopus 로고    scopus 로고
    • Accuracy and power of statistical methods for detecting adaptive evolution in protein coding sequences and for identifying positively selected sites
    • Wong WSW, Yang ZH, Goldman N, Nielsen R (2004) Accuracy and power of statistical methods for detecting adaptive evolution in protein coding sequences and for identifying positively selected sites. Genetics 168:1041-1051
    • (2004) Genetics , vol.168 , pp. 1041-1051
    • Wong, W.S.W.1    Yang, Z.H.2    Goldman, N.3    Nielsen, R.4
  • 37
    • 0041884768 scopus 로고    scopus 로고
    • Widespread adaptive evolution in the human immunodeficiency virus type 1 genome.
    • Yang W, Bielawski JP, Yang ZH (2003) Widespread adaptive evolution in the human immunodeficiency virus type 1 genome. J Mol Evol 57:212-221
    • (2003) J Mol Evol , vol.57 , pp. 212-221
    • Yang, W.1    Bielawski, J.P.2    Yang, Z.H.3
  • 38
    • 34547803197 scopus 로고    scopus 로고
    • PAML 4: Phylogenetic analysis by maximum likelihood
    • Yang ZH (2007) PAML 4: phylogenetic analysis by maximum likelihood. Mol Biol Evol 24:1586-1591
    • (2007) Mol Biol Evol , vol.24 , pp. 1586-1591
    • Yang, Z.H.1
  • 39
    • 0034097381 scopus 로고    scopus 로고
    • Codon-substitution models for heterogeneous selection pressure at amino acid sites
    • Yang ZH, Nielsen R, Goldman N, Pedersen AMK (2000) Codon-substitution models for heterogeneous selection pressure at amino acid sites. Genetics 155:431-449
    • (2000) Genetics , vol.155 , pp. 431-449
    • Yang, Z.H.1    Nielsen, R.2    Goldman, N.3    Pedersen, A.M.K.4
  • 40
    • 16344378246 scopus 로고    scopus 로고
    • Bayes empirical Bayes inference of amino acid sites under positive selection.
    • Yang ZH, Wong WSW, Nielsen R (2005) Bayes empirical Bayes inference of amino acid sites under positive selection. Mol Biol Evol 22:1107-1118
    • (2005) Mol Biol Evol , vol.22 , pp. 1107-1118
    • Yang, Z.H.1    Wong, W.S.W.2    Nielsen, R.3
  • 41
    • 0032737463 scopus 로고    scopus 로고
    • Genealogical evidence for positive selection in the nef gene of HIV-1
    • Zanotto PMD, Kallas EG, de Souza RF, Holmes EC (1999) Genealogical evidence for positive selection in the nef gene of HIV-1. Genetics 153:1077-1089
    • (1999) Genetics , vol.153 , pp. 1077-1089
    • Zanotto, P.M.D.1    Kallas, E.G.2    De Souza, R.F.3    Holmes, E.C.4
  • 42
    • 0033863969 scopus 로고    scopus 로고
    • Human immunodeficiency virus type 1 Vif protein is an integral component of an mRNP complex of viral RNA and could be involved in the viral RNA folding and packaging process
    • Zhang H, Pomerantz RJ, Dornadula G, Sun Y (2000) Human immunodeficiency virus type 1 Vif protein is an integral component of an mRNP complex of viral RNA and could be involved in the viral RNA folding and packaging process. J Virol 74:8252-8261
    • (2000) J Virol , vol.74 , pp. 8252-8261
    • Zhang, H.1    Pomerantz, R.J.2    Dornadula, G.3    Sun, Y.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.