메뉴 건너뛰기




Volumn 8, Issue 1, 2013, Pages

The Genotypic False Positive Rate Determined by V3 Population Sequencing Can Predict the Burden of HIV-1 CXCR4-using Species Detected by Pyrosequencing

Author keywords

[No Author keywords available]

Indexed keywords

CHEMOKINE RECEPTOR CXCR4; ENFUVIRTIDE; MARAVIROC; VIRUS RNA;

EID: 84872364157     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0053603     Document Type: Article
Times cited : (15)

References (28)
  • 2
    • 20344399376 scopus 로고    scopus 로고
    • The HIV coreceptor switch: a population dynamical perspective
    • S0966-842X(05)00110-1 [pii];10.1016/j.tim.2005.04.005 [doi]
    • Regoes RR, Bonhoeffer S (2005) The HIV coreceptor switch: a population dynamical perspective. Trends Microbiol 13: 269-277. S0966-842X(05)00110-1 [pii];10.1016/j.tim.2005.04.005 [doi].
    • (2005) Trends Microbiol , vol.13 , pp. 269-277
    • Regoes, R.R.1    Bonhoeffer, S.2
  • 3
    • 43249097018 scopus 로고    scopus 로고
    • The impact of HIV tropism on decreases in CD4 cell count, clinical progression, and subsequent response to a first antiretroviral therapy regimen
    • 10.1086/587660 [doi]
    • Waters L, Mandalia S, Randell P, Wildfire A, Gazzard B, et al. (2008) The impact of HIV tropism on decreases in CD4 cell count, clinical progression, and subsequent response to a first antiretroviral therapy regimen. Clin Infect Dis 46: 1617-1623. 10.1086/587660 [doi].
    • (2008) Clin Infect Dis , vol.46 , pp. 1617-1623
    • Waters, L.1    Mandalia, S.2    Randell, P.3    Wildfire, A.4    Gazzard, B.5
  • 4
    • 77957223314 scopus 로고    scopus 로고
    • CXCR4-using viruses in plasma and peripheral blood mononuclear cells during primary HIV-1 infection and impact on disease progression
    • 10.1097/QAD.0b013e32833e50bb [doi]
    • Raymond S, Delobel P, Mavigner M, Cazabat M, Encinas S, et al. (2010) CXCR4-using viruses in plasma and peripheral blood mononuclear cells during primary HIV-1 infection and impact on disease progression. AIDS 24: 2305-2312. 10.1097/QAD.0b013e32833e50bb [doi].
    • (2010) AIDS , vol.24 , pp. 2305-2312
    • Raymond, S.1    Delobel, P.2    Mavigner, M.3    Cazabat, M.4    Encinas, S.5
  • 5
    • 46349097362 scopus 로고    scopus 로고
    • Reviews of anti-infective agents: maraviroc: the first of a new class of antiretroviral agents
    • 10.1086/589289 [doi]
    • Macarthur RD, Novak RM (2008) Reviews of anti-infective agents: maraviroc: the first of a new class of antiretroviral agents. Clin Infect Dis 47: 236-241. 10.1086/589289 [doi].
    • (2008) Clin Infect Dis , vol.47 , pp. 236-241
    • Macarthur, R.D.1    Novak, R.M.2
  • 6
    • 79955483926 scopus 로고    scopus 로고
    • European guidelines on the clinical management of HIV-1 tropism testing
    • S1473-3099(10)70319-4 [pii];10.1016/S1473-3099(10)70319-4 [doi]
    • Vandekerckhove LP, Wensing AM, Kaiser R, Brun-Vezinet F, Clotet B, et al. (2011) European guidelines on the clinical management of HIV-1 tropism testing. Lancet Infect Dis 11: 394-407. S1473-3099(10)70319-4 [pii];10.1016/S1473-3099(10)70319-4 [doi].
    • (2011) Lancet Infect Dis , vol.11 , pp. 394-407
    • Vandekerckhove, L.P.1    Wensing, A.M.2    Kaiser, R.3    Brun-Vezinet, F.4    Clotet, B.5
  • 7
    • 34247214426 scopus 로고    scopus 로고
    • Structural basis for coreceptor selectivity by the HIV type 1 V3 loop
    • 10.1089/aid.2006.0130 [doi]
    • Cardozo T, Kimura T, Philpott S, Weiser B, Burger H, et al. (2007) Structural basis for coreceptor selectivity by the HIV type 1 V3 loop. AIDS Res Hum Retroviruses 23: 415-426. 10.1089/aid.2006.0130 [doi].
    • (2007) AIDS Res Hum Retroviruses , vol.23 , pp. 415-426
    • Cardozo, T.1    Kimura, T.2    Philpott, S.3    Weiser, B.4    Burger, H.5
  • 8
    • 0032904012 scopus 로고    scopus 로고
    • HIV-1 envelope determinants for cell tropism and chemokine receptor use
    • Hoffman TL, Doms RW, (1999) HIV-1 envelope determinants for cell tropism and chemokine receptor use. Mol Membr Biol 16: 57-65.
    • (1999) Mol Membr Biol , vol.16 , pp. 57-65
    • Hoffman, T.L.1    Doms, R.W.2
  • 9
    • 37849007571 scopus 로고    scopus 로고
    • Effects of partial deletions within the human immunodeficiency virus type 1 V3 loop on coreceptor tropism and sensitivity to entry inhibitors
    • JVI.01793-07 [pii];10.1128/JVI.01793-07 [doi]
    • Nolan KM, Jordan AP, Hoxie JA (2008) Effects of partial deletions within the human immunodeficiency virus type 1 V3 loop on coreceptor tropism and sensitivity to entry inhibitors. J Virol 82: 664-673. JVI.01793-07 [pii];10.1128/JVI.01793-07 [doi].
    • (2008) J Virol , vol.82 , pp. 664-673
    • Nolan, K.M.1    Jordan, A.P.2    Hoxie, J.A.3
  • 10
    • 79952439156 scopus 로고    scopus 로고
    • Detection of quasispecies variants predicted to use CXCR4 by ultra-deep pyrosequencing during early HIV infection
    • 10.1097/QAD.0b013e328343489e [doi]
    • Abbate I, Vlassi C, Rozera G, Bruselles A, Bartolini B, et al. (2011) Detection of quasispecies variants predicted to use CXCR4 by ultra-deep pyrosequencing during early HIV infection. AIDS 25: 611-617. 10.1097/QAD.0b013e328343489e [doi].
    • (2011) AIDS , vol.25 , pp. 611-617
    • Abbate, I.1    Vlassi, C.2    Rozera, G.3    Bruselles, A.4    Bartolini, B.5
  • 11
    • 80052229865 scopus 로고    scopus 로고
    • Deep Sequencing of Plasma and Proviral HIV-1 to Establish Coreceptor Usage: What Is the Clinical Impact of the Quasispecies Distribution?
    • jir427 [pii];10.1093/infdis/jir427 [doi]
    • Abbate I, Rozera G, Giombini E, D'Offizi G, Nicastri E, et al. (2011) Deep Sequencing of Plasma and Proviral HIV-1 to Establish Coreceptor Usage: What Is the Clinical Impact of the Quasispecies Distribution? J Infect Dis 204: 971-973. jir427 [pii];10.1093/infdis/jir427 [doi].
    • (2011) J Infect Dis , vol.204 , pp. 971-973
    • Abbate, I.1    Rozera, G.2    Giombini, E.3    D'Offizi, G.4    Nicastri, E.5
  • 12
    • 79953891689 scopus 로고    scopus 로고
    • Analysis of co-receptor usage of circulating viral and proviral HIV genome quasispecies by ultra-deep pyrosequencing in patients who are candidates for CCR5 antagonist treatment
    • CLM3350 [pii];10.1111/j.1469-0691.2010.03350.x [doi]
    • Abbate I, Rozera G, Tommasi C, Bruselles A, Bartolini B, et al. (2011) Analysis of co-receptor usage of circulating viral and proviral HIV genome quasispecies by ultra-deep pyrosequencing in patients who are candidates for CCR5 antagonist treatment. Clin Microbiol Infect 17: 725-731. CLM3350 [pii];10.1111/j.1469-0691.2010.03350.x [doi].
    • (2011) Clin Microbiol Infect , vol.17 , pp. 725-731
    • Abbate, I.1    Rozera, G.2    Tommasi, C.3    Bruselles, A.4    Bartolini, B.5
  • 13
    • 65649150328 scopus 로고    scopus 로고
    • Improvement in the determination of HIV-1 tropism using the V3 gene sequence and a combination of bioinformatic tools
    • 10.1002/jmv.21425 [doi]
    • Chueca N, Garrido C, Alvarez M, Poveda E, de Dios LJ, et al. (2009) Improvement in the determination of HIV-1 tropism using the V3 gene sequence and a combination of bioinformatic tools. J Med Virol 81: 763-767. 10.1002/jmv.21425 [doi].
    • (2009) J Med Virol , vol.81 , pp. 763-767
    • Chueca, N.1    Garrido, C.2    Alvarez, M.3    Poveda, E.4    de Dios, L.J.5
  • 15
    • 80055120891 scopus 로고    scopus 로고
    • Genotypic inference of HIV-1 tropism using population-based sequencing of V3
    • [pii];10.3791/2531 [doi]
    • McGovern RA, Harrigan PR, Swenson LC (2010) Genotypic inference of HIV-1 tropism using population-based sequencing of V3. J Vis Exp. 2531 [pii];10.3791/2531 [doi].
    • (2010) J Vis Exp , vol.2531
    • McGovern, R.A.1    Harrigan, P.R.2    Swenson, L.C.3
  • 16
    • 64649102626 scopus 로고    scopus 로고
    • Design and validation of new genotypic tools for easy and reliable estimation of HIV tropism before using CCR5 antagonists
    • dkp063 [pii];10.1093/jac/dkp063 [doi]
    • Poveda E, Seclen E, Gonzalez MM, Garcia F, Chueca N, et al. (2009) Design and validation of new genotypic tools for easy and reliable estimation of HIV tropism before using CCR5 antagonists. J Antimicrob Chemother 63: 1006-1010. dkp063 [pii];10.1093/jac/dkp063 [doi].
    • (2009) J Antimicrob Chemother , vol.63 , pp. 1006-1010
    • Poveda, E.1    Seclen, E.2    Gonzalez, M.M.3    Garcia, F.4    Chueca, N.5
  • 17
    • 63549147504 scopus 로고    scopus 로고
    • Massively parallel pyrosequencing highlights minority variants in the HIV-1 env quasispecies deriving from lymphomonocyte sub-populations
    • 1742-4690-6-15 [pii];10.1186/1742-4690-6-15 [doi]
    • Rozera G, Abbate I, Bruselles A, Vlassi C, D'Offizi G, et al. (2009) Massively parallel pyrosequencing highlights minority variants in the HIV-1 env quasispecies deriving from lymphomonocyte sub-populations. Retrovirology 6: 15. 1742-4690-6-15 [pii];10.1186/1742-4690-6-15 [doi].
    • (2009) Retrovirology , vol.6 , pp. 15
    • Rozera, G.1    Abbate, I.2    Bruselles, A.3    Vlassi, C.4    D'Offizi, G.5
  • 18
    • 77957050584 scopus 로고    scopus 로고
    • Performance of genotypic tropism testing in clinical practice using the enhanced sensitivity version of Trofile as reference assay: results from the OSCAR Study Group
    • Svicher V, D'Arrigo R, Alteri C, Andreoni M, Angarano G, et al. (2010) Performance of genotypic tropism testing in clinical practice using the enhanced sensitivity version of Trofile as reference assay: results from the OSCAR Study Group. New Microbiol 33: 195-206.
    • (2010) New Microbiol , vol.33 , pp. 195-206
    • Svicher, V.1    D'Arrigo, R.2    Alteri, C.3    Andreoni, M.4    Angarano, G.5
  • 19
    • 79953714840 scopus 로고    scopus 로고
    • HIV-1 dual/mixed tropic isolates show different genetic and phenotypic characteristics and response to maraviroc in vitro
    • S0166-3542(11)00033-7 [pii];10.1016/j.antiviral.2011.02.005 [doi]
    • Svicher V, Balestra E, Cento V, Sarmati L, Dori L, et al. (2011) HIV-1 dual/mixed tropic isolates show different genetic and phenotypic characteristics and response to maraviroc in vitro. Antiviral Res 90: 42-53. S0166-3542(11)00033-7 [pii];10.1016/j.antiviral.2011.02.005 [doi].
    • (2011) Antiviral Res , vol.90 , pp. 42-53
    • Svicher, V.1    Balestra, E.2    Cento, V.3    Sarmati, L.4    Dori, L.5
  • 20
    • 79851502517 scopus 로고    scopus 로고
    • Deep sequencing to infer HIV-1 co-receptor usage: application to three clinical trials of maraviroc in treatment-experienced patients
    • jiq030 [pii];10.1093/infdis/jiq030 [doi]
    • Swenson LC, Mo T, Dong WW, Zhong X, Woods CK, et al. (2011) Deep sequencing to infer HIV-1 co-receptor usage: application to three clinical trials of maraviroc in treatment-experienced patients. J Infect Dis 203: 237-245. jiq030 [pii];10.1093/infdis/jiq030 [doi].
    • (2011) J Infect Dis , vol.203 , pp. 237-245
    • Swenson, L.C.1    Mo, T.2    Dong, W.W.3    Zhong, X.4    Woods, C.K.5
  • 21
    • 79956303092 scopus 로고    scopus 로고
    • Concordance between two phenotypic assays and ultradeep pyrosequencing for determining HIV-1 tropism
    • AAC.00091-11 [pii];10.1128/AAC.00091-11 [doi]
    • Saliou A, Delobel P, Dubois M, Nicot F, Raymond S, et al. (2011) Concordance between two phenotypic assays and ultradeep pyrosequencing for determining HIV-1 tropism. Antimicrob Agents Chemother 55: 2831-2836. AAC.00091-11 [pii];10.1128/AAC.00091-11 [doi].
    • (2011) Antimicrob Agents Chemother , vol.55 , pp. 2831-2836
    • Saliou, A.1    Delobel, P.2    Dubois, M.3    Nicot, F.4    Raymond, S.5
  • 22
    • 60849085862 scopus 로고    scopus 로고
    • Correlation between genotypic predictions based on V3 sequences and phenotypic determination of HIV-1 tropism
    • 10.1097/QAD.0b013e32830ebcd4 [doi]
    • Raymond S, Delobel P, Mavigner M, Cazabat M, Souyris C, et al. (2008) Correlation between genotypic predictions based on V3 sequences and phenotypic determination of HIV-1 tropism. AIDS 22: F11-F16. 10.1097/QAD.0b013e32830ebcd4 [doi].
    • (2008) AIDS , vol.22
    • Raymond, S.1    Delobel, P.2    Mavigner, M.3    Cazabat, M.4    Souyris, C.5
  • 23
    • 0027154014 scopus 로고
    • A single amino acid substitution in the V1 loop of human immunodeficiency virus type 1 gp120 alters cellular tropism
    • Boyd MT, Simpson GR, Cann AJ, Johnson MA, Weiss RA, (1993) A single amino acid substitution in the V1 loop of human immunodeficiency virus type 1 gp120 alters cellular tropism. J Virol 67: 3649-3652.
    • (1993) J Virol , vol.67 , pp. 3649-3652
    • Boyd, M.T.1    Simpson, G.R.2    Cann, A.J.3    Johnson, M.A.4    Weiss, R.A.5
  • 24
    • 79955820877 scopus 로고    scopus 로고
    • Selected amino acid mutations in HIV-1 B subtype gp41 are associated with specific gp120v(3) signatures in the regulation of co-receptor usage
    • 1742-4690-8-33 [pii];10.1186/1742-4690-8-33 [doi]
    • Dimonte S, Mercurio F, Svicher V, D'Arrigo R, Perno CF, et al. (2011) Selected amino acid mutations in HIV-1 B subtype gp41 are associated with specific gp120v(3) signatures in the regulation of co-receptor usage. Retrovirology 8: 33. 1742-4690-8-33 [pii];10.1186/1742-4690-8-33 [doi].
    • (2011) Retrovirology , vol.8 , pp. 33
    • Dimonte, S.1    Mercurio, F.2    Svicher, V.3    D'Arrigo, R.4    Perno, C.F.5
  • 25
    • 0028950499 scopus 로고
    • Simple determination of human immunodeficiency virus type 1 syncytium-inducing V3 genotype by PCR
    • Fouchier RA, Brouwer M, Broersen SM, Schuitemaker H, (1995) Simple determination of human immunodeficiency virus type 1 syncytium-inducing V3 genotype by PCR. J Clin Microbiol 33: 906-911.
    • (1995) J Clin Microbiol , vol.33 , pp. 906-911
    • Fouchier, R.A.1    Brouwer, M.2    Broersen, S.M.3    Schuitemaker, H.4
  • 26
    • 0028817533 scopus 로고
    • Small amino acid sequence changes within the V2 domain can affect the function of a T-cell line-tropic human immunodeficiency virus type 1 envelope gp120
    • S0042-6822(85)71010-0 [pii];10.1006/viro.1995.1010 [doi]
    • Koito A, Stamatatos L, Cheng-Mayer C (1995) Small amino acid sequence changes within the V2 domain can affect the function of a T-cell line-tropic human immunodeficiency virus type 1 envelope gp120. Virology 206: 878-884. S0042-6822(85)71010-0 [pii];10.1006/viro.1995.1010 [doi].
    • (1995) Virology , vol.206 , pp. 878-884
    • Koito, A.1    Stamatatos, L.2    Cheng-Mayer, C.3
  • 27
    • 30344443665 scopus 로고    scopus 로고
    • Human immunodeficiency virus type 1 coreceptor switching: V1/V2 gain-of-fitness mutations compensate for V3 loss-of-fitness mutations
    • 80/2/750 [pii];10.1128/JVI.80.2.750-758.2006 [doi]
    • Pastore C, Nedellec R, Ramos A, Pontow S, Ratner L, et al. (2006) Human immunodeficiency virus type 1 coreceptor switching: V1/V2 gain-of-fitness mutations compensate for V3 loss-of-fitness mutations. J Virol 80: 750-758. 80/2/750 [pii];10.1128/JVI.80.2.750-758.2006 [doi].
    • (2006) J Virol , vol.80 , pp. 750-758
    • Pastore, C.1    Nedellec, R.2    Ramos, A.3    Pontow, S.4    Ratner, L.5
  • 28
    • 80052473737 scopus 로고    scopus 로고
    • Deep V3 sequencing for HIV type 1 tropism in treatment-naive patients: a reanalysis of the MERIT trial of maraviroc
    • cir493 [pii];10.1093/cid/cir493 [doi]
    • Swenson LC, Mo T, Dong WW, Zhong X, Woods CK, et al. (2011) Deep V3 sequencing for HIV type 1 tropism in treatment-naive patients: a reanalysis of the MERIT trial of maraviroc. Clin Infect Dis 53: 732-742. cir493 [pii];10.1093/cid/cir493 [doi].
    • (2011) Clin Infect Dis , vol.53 , pp. 732-742
    • Swenson, L.C.1    Mo, T.2    Dong, W.W.3    Zhong, X.4    Woods, C.K.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.