메뉴 건너뛰기




Volumn 4, Issue 3, 2009, Pages

Extensive HIV-1 intra-host recombination is common in tissues with abnormal histopathology

Author keywords

[No Author keywords available]

Indexed keywords

CD68 ANTIGEN; GAG PROTEIN; GLYCOPROTEIN GP 120;

EID: 63749110947     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0005065     Document Type: Article
Times cited : (44)

References (52)
  • 1
    • 0029075130 scopus 로고
    • Lower in vivo mutation rate of human immunodeficiency virus type 1 than that predicted from the fidelity of purified reverse transcriptase
    • Mansky L, Temin H (1995) Lower in vivo mutation rate of human immunodeficiency virus type 1 than that predicted from the fidelity of purified reverse transcriptase. Journal of Virology 69: 5087-5094.
    • (1995) Journal of Virology , vol.69 , pp. 5087-5094
    • Mansky, L.1    Temin, H.2
  • 2
    • 0028874048 scopus 로고
    • Rapid turnover of plasma virions and CD4 lymphocytes in HIV-1 infection
    • Ho D, Neumann A, Perelson A, Chen W, Leonard J, et al. (1995) Rapid turnover of plasma virions and CD4 lymphocytes in HIV-1 infection. Nature 373: 123-126.
    • (1995) Nature , vol.373 , pp. 123-126
    • Ho, D.1    Neumann, A.2    Perelson, A.3    Chen, W.4    Leonard, J.5
  • 4
    • 0028811974 scopus 로고
    • Viral dynamics in human immunodeficiency virus type 1 infection
    • Wei X, Ghosh SK, Taylor ME, Johnson VA, Emini EA, et al. (1995) Viral dynamics in human immunodeficiency virus type 1 infection. Nature 373: 117-122.
    • (1995) Nature , vol.373 , pp. 117-122
    • Wei, X.1    Ghosh, S.K.2    Taylor, M.E.3    Johnson, V.A.4    Emini, E.A.5
  • 5
    • 0030913366 scopus 로고    scopus 로고
    • Quantification of latent tissue reservoirs and total body viral load in HIV-1 infection
    • Chun T-W, Carruth L, Finzi D, Shen X, Digiuseppe J, et al. (1997) Quantification of latent tissue reservoirs and total body viral load in HIV-1 infection. Nature 387: 183-188.
    • (1997) Nature , vol.387 , pp. 183-188
    • Chun, T.-W.1    Carruth, L.2    Finzi, D.3    Shen, X.4    Digiuseppe, J.5
  • 6
    • 0037062939 scopus 로고    scopus 로고
    • Recombination: Multiply infected spleen cells in HIV patients
    • Jung A, Maier R, Vartanian J-P, Bocharov G, Jung V, et al. (2002) Recombination: multiply infected spleen cells in HIV patients. Nature 418: 144.
    • (2002) Nature , vol.418 , pp. 144
    • Jung, A.1    Maier, R.2    Vartanian, J.-P.3    Bocharov, G.4    Jung, V.5
  • 7
    • 0032844935 scopus 로고    scopus 로고
    • Mosaic structure of the human immunodeficiency virus type 1 genome infecting lymphoid cells and the brain: Evidence for frequent in vivo recombination events in the evolution of regional populations
    • Morris A, Marsden M, Halcrow K, Hughes E, Brettle R, et al. (1999) Mosaic structure of the human immunodeficiency virus type 1 genome infecting lymphoid cells and the brain: evidence for frequent in vivo recombination events in the evolution of regional populations. Journal of Virology 73: 8720-8731.
    • (1999) Journal of Virology , vol.73 , pp. 8720-8731
    • Morris, A.1    Marsden, M.2    Halcrow, K.3    Hughes, E.4    Brettle, R.5
  • 8
    • 0036827628 scopus 로고    scopus 로고
    • Human immunodeficiency virus type 1 recombination: Rate, fidelity, and putative hot spots
    • Zhuang J, Jetzt A, Sun G, Yu H, Klarmann G, et al. (2002) Human immunodeficiency virus type 1 recombination: rate, fidelity, and putative hot spots. Journal of Virology 76: 11273-11282.
    • (2002) Journal of Virology , vol.76 , pp. 11273-11282
    • Zhuang, J.1    Jetzt, A.2    Sun, G.3    Yu, H.4    Klarmann, G.5
  • 9
    • 4644245699 scopus 로고    scopus 로고
    • Pervasive genomic recombination of HIV-1 in vivo
    • Shriner D, Rodrigo A, Nickle D, Mullins J (2004) Pervasive genomic recombination of HIV-1 in vivo. Genetics 167: 1573-1583.
    • (2004) Genetics , vol.167 , pp. 1573-1583
    • Shriner, D.1    Rodrigo, A.2    Nickle, D.3    Mullins, J.4
  • 10
    • 0025635705 scopus 로고
    • Retroviral recombination and reverse transcription
    • Hu WS, Temin HM (1990) Retroviral recombination and reverse transcription. Science 250: 1227-1233.
    • (1990) Science , vol.250 , pp. 1227-1233
    • Hu, W.S.1    Temin, H.M.2
  • 14
    • 33144487829 scopus 로고    scopus 로고
    • Extensive recombination among human immunodeficiency virus type 1 quasispecies makes an important contribution to viral diversity in individual patients
    • Charpentier C, Nora T, Tenaillon O, Clavel F, Hance A (2006) Extensive recombination among human immunodeficiency virus type 1 quasispecies makes an important contribution to viral diversity in individual patients. Journal of Virology 80: 2472-2482.
    • (2006) Journal of Virology , vol.80 , pp. 2472-2482
    • Charpentier, C.1    Nora, T.2    Tenaillon, O.3    Clavel, F.4    Hance, A.5
  • 16
    • 34249693632 scopus 로고    scopus 로고
    • Recombination favors the evolution of drug resistance in HIV-1 during antiretroviral therapy
    • Carvajal-Rodriguez A, Crandall KA, Posada D (2007) Recombination favors the evolution of drug resistance in HIV-1 during antiretroviral therapy. Infection, Genetics and Evolution 7: 476-483.
    • (2007) Infection, Genetics and Evolution , vol.7 , pp. 476-483
    • Carvajal-Rodriguez, A.1    Crandall, K.A.2    Posada, D.3
  • 17
    • 33947381341 scopus 로고    scopus 로고
    • Frequent intrapatient recombination between human immunodeficiency virus type 1 R5 and X4 envelopes: Implications for coreceptor switch
    • Mild M, Esbjornsson J, Fenyo E, Medstrand P (2007) Frequent intrapatient recombination between human immunodeficiency virus type 1 R5 and X4 envelopes: implications for coreceptor switch. Journal of Virology 81: 3369-3376.
    • (2007) Journal of Virology , vol.81 , pp. 3369-3376
    • Mild, M.1    Esbjornsson, J.2    Fenyo, E.3    Medstrand, P.4
  • 20
    • 46949095793 scopus 로고    scopus 로고
    • Evidence for a pathogenic determinant in HIV-1 Nef involved in B cell dysfunction in HIV/AIDS
    • Swingler S, Zhou J, Swingler C, Dauphin A, Greenough T, et al. (2008) Evidence for a pathogenic determinant in HIV-1 Nef involved in B cell dysfunction in HIV/AIDS. Cell Host & Microbe 4: 63-76.
    • (2008) Cell Host & Microbe , vol.4 , pp. 63-76
    • Swingler, S.1    Zhou, J.2    Swingler, C.3    Dauphin, A.4    Greenough, T.5
  • 22
    • 55049120771 scopus 로고    scopus 로고
    • An exploratory algorithm to identify intrahost recombinant viral sequences
    • Salemi M, Goodenow MM (2008) An exploratory algorithm to identify intrahost recombinant viral sequences. Molecular Phylogenetics and Evolution 49: 618-628.
    • (2008) Molecular Phylogenetics and Evolution , vol.49 , pp. 618-628
    • Salemi, M.1    Goodenow, M.M.2
  • 23
    • 1542347067 scopus 로고    scopus 로고
    • Neighbor-net: An agglomerative method for the construction of phylogenetic networks
    • Bryant D, Moulton V (2004) Neighbor-net: an agglomerative method for the construction of phylogenetic networks. Molecular Biology and Evolution 21: 255-265.
    • (2004) Molecular Biology and Evolution , vol.21 , pp. 255-265
    • Bryant, D.1    Moulton, V.2
  • 24
    • 33646167864 scopus 로고    scopus 로고
    • A simple and robust statistical test for detecting the presence of recombination
    • Bruen T, Philippe H, Bryant D (2006) A simple and robust statistical test for detecting the presence of recombination. Genetics 172: 2665-2681.
    • (2006) Genetics , vol.172 , pp. 2665-2681
    • Bruen, T.1    Philippe, H.2    Bryant, D.3
  • 25
    • 13144283628 scopus 로고    scopus 로고
    • A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints
    • Martin DP, Posada D, Crandall KA, Williamson C (2005b) A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints. AIDS Research and Human Retroviruses 21: 98-102.
    • (2005) AIDS Research and Human Retroviruses , vol.21 , pp. 98-102
    • Martin, D.P.1    Posada, D.2    Crandall, K.A.3    Williamson, C.4
  • 27
    • 0033590220 scopus 로고    scopus 로고
    • Possible emergence of new geminiviruses by frequent recombination
    • Padidam M, Sawyer S, Fauquet CM (1999) Possible emergence of new geminiviruses by frequent recombination. Virology 265: 218-225.
    • (1999) Virology , vol.265 , pp. 218-225
    • Padidam, M.1    Sawyer, S.2    Fauquet, C.M.3
  • 28
    • 0024356449 scopus 로고
    • Statistical tests for detecting gene conversion
    • Sawyer S (1989) Statistical tests for detecting gene conversion. Molecular Biology and Evolution 6: 526-538.
    • (1989) Molecular Biology and Evolution , vol.6 , pp. 526-538
    • Sawyer, S.1
  • 29
    • 0035923699 scopus 로고    scopus 로고
    • Evaluation of methods for detecting recombination from DNA sequences: Computer simulations
    • Posada D, Crandall K (2001) Evaluation of methods for detecting recombination from DNA sequences: Computer simulations. Proceedings of the National Academy of Sciences, USA 98: 13757-13762.
    • (2001) Proceedings of the National Academy of Sciences, USA , vol.98 , pp. 13757-13762
    • Posada, D.1    Crandall, K.2
  • 30
    • 0026708873 scopus 로고
    • Analyzing the mosaic structure of genes
    • Smith JM (1992) Analyzing the mosaic structure of genes. Journal of Molecular Evolution 34: 126-129.
    • (1992) Journal of Molecular Evolution , vol.34 , pp. 126-129
    • Smith, J.M.1
  • 31
    • 0033753825 scopus 로고    scopus 로고
    • Sister-scanning: A Monte Carlo procedure for assessing signals in recombinant sequences
    • Gibbs MJ, Armstrong JS, Gibbs AJ (2000) Sister-scanning: a Monte Carlo procedure for assessing signals in recombinant sequences. Bioinformatics 16: 573-582.
    • (2000) Bioinformatics , vol.16 , pp. 573-582
    • Gibbs, M.J.1    Armstrong, J.S.2    Gibbs, A.J.3
  • 32
    • 34250757252 scopus 로고    scopus 로고
    • An exact nonparametric method for inferring mosaic structure in sequence triplets
    • Boni MF, Posada D, Feldman MW (2007) An exact nonparametric method for inferring mosaic structure in sequence triplets. Genetics 176: 1035-1047.
    • (2007) Genetics , vol.176 , pp. 1035-1047
    • Boni, M.F.1    Posada, D.2    Feldman, M.W.3
  • 33
    • 13444251528 scopus 로고    scopus 로고
    • RDP2: Recombination detection and analysis from sequence alignments
    • Martin DP, Williamson C, Posada D (2005a) RDP2: recombination detection and analysis from sequence alignments. Bioinformatics 21: 260-262.
    • (2005) Bioinformatics , vol.21 , pp. 260-262
    • Martin, D.P.1    Williamson, C.2    Posada, D.3
  • 34
    • 0032889281 scopus 로고    scopus 로고
    • Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination
    • Lole K, Bollinger R, Paranjape R, Gadkari D, Kulkarni S, et al. (1999) Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. Journal of Virology 73: 152-160.
    • (1999) Journal of Virology , vol.73 , pp. 152-160
    • Lole, K.1    Bollinger, R.2    Paranjape, R.3    Gadkari, D.4    Kulkarni, S.5
  • 35
    • 50349086231 scopus 로고    scopus 로고
    • Different sliding window sizes and inappropriate subtype references result in discordant mosaic maps and breakpoint locations of HIV-1 CRFs
    • Zhang C, Ding N, Wei JF (2008) Different sliding window sizes and inappropriate subtype references result in discordant mosaic maps and breakpoint locations of HIV-1 CRFs. Infection, Genetics and Evolution 8: 693-697.
    • (2008) Infection, Genetics and Evolution , vol.8 , pp. 693-697
    • Zhang, C.1    Ding, N.2    Wei, J.F.3
  • 36
    • 0038502359 scopus 로고    scopus 로고
    • HIV insertions within and proximal to host cell genes are a common finding in tissues containing high levels of HIV DNA and macrophage-associated p24 antigen
    • Mack KD, Jin X, Yu S, Wei R, Kapp L, et al. (2003) HIV insertions within and proximal to host cell genes are a common finding in tissues containing high levels of HIV DNA and macrophage-associated p24 antigen. Journal of Acquired Immune Deficiency Syndromes 33: 308-320.
    • (2003) Journal of Acquired Immune Deficiency Syndromes , vol.33 , pp. 308-320
    • Mack, K.D.1    Jin, X.2    Yu, S.3    Wei, R.4    Kapp, L.5
  • 38
    • 33750730628 scopus 로고    scopus 로고
    • Endothelial dysfunction in HIV infection
    • 3: 126-131
    • Cotter BR (2006) Endothelial dysfunction in HIV infection. Current HIV/ AIDS Reports 3: 126-131.
    • (2006) Current HIV/ AIDS Reports
    • Cotter, B.R.1
  • 39
    • 33645962511 scopus 로고    scopus 로고
    • Pronounced lipoatrophy in HIV-infected men receiving HAART for more than 6 years compared with the background population
    • Hansen AB, Lindegaard B, Obel N, Andersen O, Nielsen H, et al. (2006) Pronounced lipoatrophy in HIV-infected men receiving HAART for more than 6 years compared with the background population. HIV Medicine 7: 38-45.
    • (2006) HIV Medicine , vol.7 , pp. 38-45
    • Hansen, A.B.1    Lindegaard, B.2    Obel, N.3    Andersen, O.4    Nielsen, H.5
  • 40
    • 33846023702 scopus 로고    scopus 로고
    • Prevalence of metabolic syndrome in HIV-infected patients receiving highly active antiretroviral therapy using International Diabetes Foundation and Adult Treatment Panel III criteria: Associations with insulin resistance, disturbed body fat compartmentalization, elevated C-reactive protein, and [corrected] hypoadiponectinemia
    • Samaras K, Wand H, Law M, Emery S, Cooper D, et al. (2007) Prevalence of metabolic syndrome in HIV-infected patients receiving highly active antiretroviral therapy using International Diabetes Foundation and Adult Treatment Panel III criteria: associations with insulin resistance, disturbed body fat compartmentalization, elevated C-reactive protein, and [corrected] hypoadiponectinemia. Diabetes Care 30: 113-119.
    • (2007) Diabetes Care , vol.30 , pp. 113-119
    • Samaras, K.1    Wand, H.2    Law, M.3    Emery, S.4    Cooper, D.5
  • 41
    • 23844484143 scopus 로고    scopus 로고
    • Phylodynamic analysis of human immunodeficiency virus type 1 in distinct brain compartments provides a model for the neuropathogenesis of AIDS
    • Salemi M, Lamers S, Yu S, de Oliveira T, Fitch W, et al. (2005) Phylodynamic analysis of human immunodeficiency virus type 1 in distinct brain compartments provides a model for the neuropathogenesis of AIDS. Journal of Virology 79: 11343-11352.
    • (2005) Journal of Virology , vol.79 , pp. 11343-11352
    • Salemi, M.1    Lamers, S.2    Yu, S.3    de Oliveira, T.4    Fitch, W.5
  • 42
    • 34848893294 scopus 로고    scopus 로고
    • Apoptotic killing of HIV-1-infected macrophages is subverted by the viral envelope glycoprotein
    • Swingler S, Mann AM, Zhou J, Swingler C, Stevenson M (2007) Apoptotic killing of HIV-1-infected macrophages is subverted by the viral envelope glycoprotein. PLoS Pathogens 3: 1281-1290.
    • (2007) PLoS Pathogens , vol.3 , pp. 1281-1290
    • Swingler, S.1    Mann, A.M.2    Zhou, J.3    Swingler, C.4    Stevenson, M.5
  • 43
    • 0030860537 scopus 로고    scopus 로고
    • Macrophages as a source of HIV during opportunistic infections
    • Orenstein JM, Fox C, Wahl SM (1997) Macrophages as a source of HIV during opportunistic infections. Science 276: 1857-1861.
    • (1997) Science , vol.276 , pp. 1857-1861
    • Orenstein, J.M.1    Fox, C.2    Wahl, S.M.3
  • 44
    • 0018304892 scopus 로고
    • Structure, replication, and recombination of retrovirus genomes: Dome unifying hypotheses
    • Coffin J (1979) Structure, replication, and recombination of retrovirus genomes: dome unifying hypotheses. Journal of General Virology 42: 1-26.
    • (1979) Journal of General Virology , vol.42 , pp. 1-26
    • Coffin, J.1
  • 45
    • 21644466790 scopus 로고    scopus 로고
    • Comparison of the genetic recombination rates of human immunodeficiency virus type 1 in macrophages and T Cells
    • Chen J, Rhodes T, Hu W-S (2005) Comparison of the genetic recombination rates of human immunodeficiency virus type 1 in macrophages and T Cells. Journal of Virology 79: 9337-9340.
    • (2005) Journal of Virology , vol.79 , pp. 9337-9340
    • Chen, J.1    Rhodes, T.2    Hu, W.-S.3
  • 46
    • 34247583931 scopus 로고    scopus 로고
    • Human immunodeficiency virus type 1: Resistance to nucleoside analogues and replicative capacity in primary human macrophages
    • Perez-Bercoff D, Wurtzer S, Compain S, Benech H, Clavel F (2007) Human immunodeficiency virus type 1: resistance to nucleoside analogues and replicative capacity in primary human macrophages. Journal of Virology 81: 4540-4550.
    • (2007) Journal of Virology , vol.81 , pp. 4540-4550
    • Perez-Bercoff, D.1    Wurtzer, S.2    Compain, S.3    Benech, H.4    Clavel, F.5
  • 48
    • 1342287974 scopus 로고    scopus 로고
    • HIVbase: A PC/ Windows-based software offering storage and querying power for locally held HIV-1 genetic, experimental and clinical data
    • Lamers S, Beason S, Dunlap L, Compton R, Salemi M (2004) HIVbase: a PC/ Windows-based software offering storage and querying power for locally held HIV-1 genetic, experimental and clinical data. Bioinformatics 20: 436.
    • (2004) Bioinformatics , vol.20 , pp. 436
    • Lamers, S.1    Beason, S.2    Dunlap, L.3    Compton, R.4    Salemi, M.5
  • 50
    • 0029842064 scopus 로고    scopus 로고
    • A model for alignment of env V1 and V2 hypervariable domains from human and simian immunodeficiency viruses
    • Lamers SL, Sleasman JW, Goodenow MM (1996) A model for alignment of env V1 and V2 hypervariable domains from human and simian immunodeficiency viruses. AIDS Research and Human Retroviruses 12: 1169-1178.
    • (1996) AIDS Research and Human Retroviruses , vol.12 , pp. 1169-1178
    • Lamers, S.L.1    Sleasman, J.W.2    Goodenow, M.M.3
  • 52
    • 33744460571 scopus 로고    scopus 로고
    • eds () The Phylogenetic Handbook, a practical approach to DNA and protein phylogeny. New York: Cambridge University Press. pp
    • Salemi M (2003) Detecting recombination in viral sequences. In: Salemi M, Vandamme AM, eds (2003) The Phylogenetic Handbook - a practical approach to DNA and protein phylogeny. New York: Cambridge University Press. pp 348-377.
    • (2003) Detecting recombination in viral sequences , pp. 348-377
    • Salemi, M.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.