메뉴 건너뛰기




Volumn 89, Issue 24, 2015, Pages 12341-12348

Contribution of epidemiological predictors in unraveling the phylogeographic history of HIV-1 subtype C in Brazil

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BRAZIL; EPIDEMIC; GENE SEQUENCE; GEOGRAPHIC DISTRIBUTION; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS 1 INFECTION; HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 SUBTYPE C; MAJOR CLINICAL STUDY; MICROBIAL POPULATION DYNAMICS; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PHYLOGEOGRAPHY; PRIORITY JOURNAL; SAMPLING BIAS; STATISTICAL MODEL; UNINDEXED SEQUENCE; FEMALE; GENETICS; HIV INFECTIONS; HUMAN IMMUNODEFICIENCY VIRUS 1; MALE;

EID: 84949921491     PISSN: 0022538X     EISSN: 10985514     Source Type: Journal    
DOI: 10.1128/JVI.01681-15     Document Type: Article
Times cited : (25)

References (48)
  • 2
    • 78650235515 scopus 로고    scopus 로고
    • Tracking a century of global expansion and evolution of HIV to drive understanding and to combat disease
    • Tebit DM, Arts EJ. 2011. Tracking a century of global expansion and evolution of HIV to drive understanding and to combat disease. Lancet Infect Dis 11:45-56. http://dx.doi.org/10.1016/S1473-3099(10)70186-9.
    • (2011) Lancet Infect Dis , vol.11 , pp. 45-56
    • Tebit, D.M.1    Arts, E.J.2
  • 3
    • 33846502673 scopus 로고    scopus 로고
    • Is HIV-1 evolving to a less virulent form in humans?
    • Ariën KK, Vanham G, Arts EJ. 2007. Is HIV-1 evolving to a less virulent form in humans? Nat Rev Microbiol 5:141-151. http://dx.doi.org/10.1038/nrmicro1594.
    • (2007) Nat Rev Microbiol , vol.5 , pp. 141-151
    • Ariën, K.K.1    Vanham, G.2    Arts, E.J.3
  • 4
    • 84870765716 scopus 로고    scopus 로고
    • The increasing prevalence of HIV-1 subtype C in Southern Brazil and its dispersion through the continent
    • Gräf T, Pinto AR. 2013. The increasing prevalence of HIV-1 subtype C in Southern Brazil and its dispersion through the continent. Virology 435: 170-178. http://dx.doi.org/10.1016/j.virol.2012.08.048.
    • (2013) Virology , vol.435 , pp. 170-178
    • Gräf, T.1    Pinto, A.R.2
  • 6
    • 84946753566 scopus 로고    scopus 로고
    • Brazilian Ministry of Health, Brasília, Brazil
    • Brazilian Ministry of Health. 2014. AIDS epidemiological bulletin July 2013-June 2014. Brazilian Ministry of Health, Brasília, Brazil.
    • (2014) AIDS epidemiological bulletin July 2013-June 2014
  • 7
    • 79959294130 scopus 로고    scopus 로고
    • High-resolution phylogenetics and phylogeography of human immunodeficiency virus type 1 subtype C epidemic in South America
    • Veras NMC, Gray RR, de Macedo Brigido LF, Rodrigues R, Salemi M. 2011. High-resolution phylogenetics and phylogeography of human immunodeficiency virus type 1 subtype C epidemic in South America. J Gen Virol 92:1698-1709. http://dx.doi.org/10.1099/vir.0.028951-0.
    • (2011) J Gen Virol , vol.92 , pp. 1698-1709
    • Veras, N.M.C.1    Gray, R.R.2    de Macedo Brigido, L.F.3    Rodrigues, R.4    Salemi, M.5
  • 11
    • 75449083430 scopus 로고    scopus 로고
    • HIV-1 primary and secondary antiretroviral drug resistance and genetic diversity among pregnant women from central Brazil
    • Cardoso LPV, Pereira GAS, Viegas AA, Schmaltz LEPR, Martins de Araújo SM. 2010. HIV-1 primary and secondary antiretroviral drug resistance and genetic diversity among pregnant women from central Brazil. J Med Virol 82:351-357. http://dx.doi.org/10.1002/jmv.21722.
    • (2010) J Med Virol , vol.82 , pp. 351-357
    • Cardoso, L.P.V.1    Pereira, G.A.S.2    Viegas, A.A.3    Schmaltz, L.E.P.R.4    Martins de Araújo, S.M.5
  • 12
    • 79959277685 scopus 로고    scopus 로고
    • Moderate prevalence of transmitted drug resistance and interiorization of HIV type 1 subtype C in the inland north state of Tocantins, Brazil
    • Carvalho BC, Cardoso LPV, Damasceno S, Martins de Araújo SM. 2011. Moderate prevalence of transmitted drug resistance and interiorization of HIV type 1 subtype C in the inland north state of Tocantins, Brazil. AIDS ResHumRetroviruses 27:1081-1087. http://dx.doi.org/10.1089/aid.2010.0334.
    • (2011) AIDS ResHumRetroviruses , vol.27 , pp. 1081-1087
    • Carvalho, B.C.1    Cardoso, L.P.V.2    Damasceno, S.3    Martins de Araújo, S.M.4
  • 13
    • 79959201984 scopus 로고    scopus 로고
    • Moderate prevalence of transmitted drug resistance and high HIV-1 genetic diversity in patients from Mato Grosso state, Central Western Brazil
    • Ferreira AS, Cardoso LPV, Martins de Araújo SM. 2011. Moderate prevalence of transmitted drug resistance and high HIV-1 genetic diversity in patients from Mato Grosso state, Central Western Brazil. J Med Virol 83:1301-1307. http://dx.doi.org/10.1002/jmv.22128.
    • (2011) J Med Virol , vol.83 , pp. 1301-1307
    • Ferreira, A.S.1    Cardoso, L.P.V.2    Martins de Araújo, S.M.3
  • 14
    • 84858140938 scopus 로고    scopus 로고
    • HIV type 1 molecular epidemiology in pol and gp41 genes among naive patients from Mato Grosso do Sul State, Central Western Brazil
    • da Silveira AA, Cardoso LPV, Francisco RBL, Martins de Araújo SM. 2012. HIV type 1 molecular epidemiology in pol and gp41 genes among naive patients from Mato Grosso do Sul State, Central Western Brazil. AIDS ResHum Retroviruses 28:304-307. http://dx.doi.org/10.1089/aid.2011.0128.
    • (2012) AIDS ResHum Retroviruses , vol.28 , pp. 304-307
    • da Silveira, A.A.1    Cardoso, L.P.V.2    Francisco, R.B.L.3    Martins de Araújo, S.M.4
  • 15
  • 17
    • 0034044313 scopus 로고    scopus 로고
    • Estimating the rate of molecular evolution: incorporating non-contemporaneous sequences into maximum likelihood phylogenies
    • Rambaut A. 2000. Estimating the rate of molecular evolution: incorporating non-contemporaneous sequences into maximum likelihood phylogenies. Bioinformatics 16:395-399. http://dx.doi.org/10.1093/bioinformatics/16.4.395.
    • (2000) Bioinformatics , vol.16 , pp. 395-399
    • Rambaut, A.1
  • 18
    • 33344465800 scopus 로고    scopus 로고
    • Relaxed phylogenetics and dating with confidence
    • Drummond AJ, Ho SYW, Phillips MJ, Rambaut A. 2006. Relaxed phylogenetics and dating with confidence. PLoS Biol 4:e88. http://dx.doi.org/10.1371/journal.pbio.0040088.
    • (2006) PLoS Biol , vol.4
    • Drummond, A.J.1    Ho, S.Y.W.2    Phillips, M.J.3    Rambaut, A.4
  • 19
    • 0033911330 scopus 로고    scopus 로고
    • An integrated framework for the inference of viral population history from reconstructed genealogies
    • Pybus OG, Rambaut A, Harvey PH. 2000. An integrated framework for the inference of viral population history from reconstructed genealogies. Genetics 155:1429-1437.
    • (2000) Genetics , vol.155 , pp. 1429-1437
    • Pybus, O.G.1    Rambaut, A.2    Harvey, P.H.3
  • 20
    • 0035211479 scopus 로고    scopus 로고
    • Exploring the demographic history of DNAsequences using the generalized skyline plot
    • Strimmer K, Pybus OG. 2001. Exploring the demographic history of DNAsequences using the generalized skyline plot. Mol Biol Evol 18:2298-2305.http://dx.doi.org/10.1093/oxfordjournals.molbev.a003776.
    • (2001) Mol Biol Evol , vol.18 , pp. 2298-2305
    • Strimmer, K.1    Pybus, O.G.2
  • 21
    • 0036021407 scopus 로고    scopus 로고
    • Estimating mutation parameters, population history and genealogy simultaneously from temporally spaced sequence data
    • Drummond AJ, Nicholls GK, Rodrigo AG, Solomon W. 2002. Estimating mutation parameters, population history and genealogy simultaneously from temporally spaced sequence data. Genetics 161:1307-1320.
    • (2002) Genetics , vol.161 , pp. 1307-1320
    • Drummond, A.J.1    Nicholls, G.K.2    Rodrigo, A.G.3    Solomon, W.4
  • 23
    • 77955011960 scopus 로고    scopus 로고
    • Phylogeography takes a relaxed random walk in continuous space and time
    • Lemey P, Rambaut A, Welch JJ, Suchard MA. 2010. Phylogeography takes a relaxed random walk in continuous space and time. Mol Biol Evol 27:1877-1885. http://dx.doi.org/10.1093/molbev/msq067.
    • (2010) Mol Biol Evol , vol.27 , pp. 1877-1885
    • Lemey, P.1    Rambaut, A.2    Welch, J.J.3    Suchard, M.A.4
  • 24
    • 84906255301 scopus 로고    scopus 로고
    • Efficient Bayesian inference under the structured coalescent
    • Vaughan TG, Kuhnert D, Popinga A, Welch D, Drummond AJ. 2014. Efficient Bayesian inference under the structured coalescent. Bioinformatics 30:2272-2279. http://dx.doi.org/10.1093/bioinformatics/btu201.
    • (2014) Bioinformatics , vol.30 , pp. 2272-2279
    • Vaughan, T.G.1    Kuhnert, D.2    Popinga, A.3    Welch, D.4    Drummond, A.J.5
  • 25
    • 0037358963 scopus 로고    scopus 로고
    • The epidemiology and iatrogenic transmission of hepatitisCvirus in Egypt: a Bayesian coalescent approach
    • Pybus OG, Drummond AJ, Nakano T, Robertson BH, Rambaut A. 2003. The epidemiology and iatrogenic transmission of hepatitisCvirus in Egypt: a Bayesian coalescent approach. Mol Biol Evol 20:381-387. http://dx.doi.org/10.1093/molbev/msg043.
    • (2003) Mol Biol Evol , vol.20 , pp. 381-387
    • Pybus, O.G.1    Drummond, A.J.2    Nakano, T.3    Robertson, B.H.4    Rambaut, A.5
  • 26
    • 44449164435 scopus 로고    scopus 로고
    • The genomic and epidemiological dynamics of human influenza A virus
    • Rambaut A, Pybus OG, Nelson MI, Viboud C, Taubenberger JK, Holmes EC. 2008. The genomic and epidemiological dynamics of human influenza A virus. Nature 453:615-619. http://dx.doi.org/10.1038/nature06945.
    • (2008) Nature , vol.453 , pp. 615-619
    • Rambaut, A.1    Pybus, O.G.2    Nelson, M.I.3    Viboud, C.4    Taubenberger, J.K.5    Holmes, E.C.6
  • 29
    • 84933041206 scopus 로고    scopus 로고
    • HIV-1 epidemiology and circulating subtypes in the countryside of South Brazil
    • Librelotto CS, Gräf T, Simon D, Almeida SEM, Lunge VR. 2015. HIV-1 epidemiology and circulating subtypes in the countryside of South Brazil. Rev Soc Bras Med Trop 48:249-257. http://dx.doi.org/10.1590/0037-8682-0083-2015.
    • (2015) Rev Soc Bras Med Trop , vol.48 , pp. 249-257
    • Librelotto, C.S.1    Gräf, T.2    Simon, D.3    Almeida, S.E.M.4    Lunge, V.R.5
  • 32
    • 0028884471 scopus 로고
    • A computer program designed to screen rapidly for HIV type 1 intersubtype recombinant sequences
    • Siepel AC, Halpern AL, Macken C, Korber BTM. 1995. A computer program designed to screen rapidly for HIV type 1 intersubtype recombinant sequences. AIDS Res Hum Retroviruses 11:1413-1416. http://dx.doi.org/10.1089/aid.1995.11.1413.
    • (1995) AIDS Res Hum Retroviruses , vol.11 , pp. 1413-1416
    • Siepel, A.C.1    Halpern, A.L.2    Macken, C.3    Korber, B.T.M.4
  • 33
    • 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 KS, Bollinger RC, Paranjape RS, Gadkari D, Kulkarni SS, Novak NG, Ingersoll R, Sheppard HW, Ray SC. 1999. Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. J Virol 73:152-160.
    • (1999) J Virol , vol.73 , pp. 152-160
    • Lole, K.S.1    Bollinger, R.C.2    Paranjape, R.S.3    Gadkari, D.4    Kulkarni, S.S.5    Novak, N.G.6    Ingersoll, R.7    Sheppard, H.W.8    Ray, S.C.9
  • 35
    • 84864530626 scopus 로고    scopus 로고
    • Bayesian phylogenetics with BEAUti and the BEAST 1.7
    • Drummond AJ, Suchard MA, Xie D, Rambaut A. 2012. Bayesian phylogenetics with BEAUti and the BEAST 1.7. Mol Biol Evol 29:1969-1973. http://dx.doi.org/10.1093/molbev/mss075.
    • (2012) Mol Biol Evol , vol.29 , pp. 1969-1973
    • Drummond, A.J.1    Suchard, M.A.2    Xie, D.3    Rambaut, A.4
  • 37
    • 45849122039 scopus 로고    scopus 로고
    • Smooth skyride through a rough skyline: Bayesian coalescent-based inference of population dynamics
    • Minin VN, Bloomquist EW, Suchard MA. 2008. Smooth skyride through a rough skyline: Bayesian coalescent-based inference of population dynamics. Mol Biol Evol 25:1459-1471. http://dx.doi.org/10.1093/molbev/msn090.
    • (2008) Mol Biol Evol , vol.25 , pp. 1459-1471
    • Minin, V.N.1    Bloomquist, E.W.2    Suchard, M.A.3
  • 39
    • 42649136257 scopus 로고    scopus 로고
    • Correlating viral phenotypes with phylogeny: accounting for phylogenetic uncertainty
    • Parker J, Rambaut A, Pybus OG. 2008. Correlating viral phenotypes with phylogeny: accounting for phylogenetic uncertainty. Infect Genet Evol 8:239-246. http://dx.doi.org/10.1016/j.meegid.2007.08.001.
    • (2008) Infect Genet Evol , vol.8 , pp. 239-246
    • Parker, J.1    Rambaut, A.2    Pybus, O.G.3
  • 40
    • 84865475040 scopus 로고    scopus 로고
    • Improving the accuracy of demographic and molecular clock model comparison while accommodating phylogenetic uncertainty
    • Baele G, Lemey P, Bedford T, Rambaut A, Suchard MA, Alekseyenko AV. 2012. Improving the accuracy of demographic and molecular clock model comparison while accommodating phylogenetic uncertainty. Mol Biol Evol 29:2157-2167. http://dx.doi.org/10.1093/molbev/mss084.
    • (2012) Mol Biol Evol , vol.29 , pp. 2157-2167
    • Baele, G.1    Lemey, P.2    Bedford, T.3    Rambaut, A.4    Suchard, M.A.5    Alekseyenko, A.V.6
  • 41
    • 84877663836 scopus 로고    scopus 로고
    • Accurate model selection of relaxed molecular clocks in Bayesian phylogenetics
    • Baele G, Li WLS, Drummond AJ, Suchard MA, Lemey P. 2013. Accurate model selection of relaxed molecular clocks in Bayesian phylogenetics. Mol Biol Evol 30:239-243. http://dx.doi.org/10.1093/molbev/mss243.
    • (2013) Mol Biol Evol , vol.30 , pp. 239-243
    • Baele, G.1    Li, W.L.S.2    Drummond, A.J.3    Suchard, M.A.4    Lemey, P.5
  • 42
    • 80053959139 scopus 로고    scopus 로고
    • SPREAD: spatial phylogenetic reconstruction of evolutionary dynamics
    • Bielejec F, Rambaut A, Suchard MA, Lemey P. 2011. SPREAD: spatial phylogenetic reconstruction of evolutionary dynamics. Bioinformatics 27: 2910-2912. http://dx.doi.org/10.1093/bioinformatics/btr481.
    • (2011) Bioinformatics , vol.27 , pp. 2910-2912
    • Bielejec, F.1    Rambaut, A.2    Suchard, M.A.3    Lemey, P.4
  • 43
    • 62349114870 scopus 로고    scopus 로고
    • Learning to count: robust estimates for labeled distances between molecular sequences
    • O'Brien JD, Minin VN, Suchard MA. 2009. Learning to count: robust estimates for labeled distances between molecular sequences. Mol Biol Evol 26:801-814. http://dx.doi.org/10.1093/molbev/msp003.
    • (2009) Mol Biol Evol , vol.26 , pp. 801-814
    • O'Brien, J.D.1    Minin, V.N.2    Suchard, M.A.3
  • 47
    • 79959253276 scopus 로고    scopus 로고
    • HIV-1 genetic diversity and drug resistance among treatment naïve patients from Southern Brazil: an association of HIV-1 subtypes with exposure categories
    • Gräf T, Passaes CPB, Ferreira LGE, Grisard EC, Morgado MG, Bello G, Pinto AR. 2011. HIV-1 genetic diversity and drug resistance among treatment naïve patients from Southern Brazil: an association of HIV-1 subtypes with exposure categories. J Clin Virol 51:186-191. http://dx.doi.org/10.1016/j.jcv.2011.04.011.
    • (2011) J Clin Virol , vol.51 , pp. 186-191
    • Gräf, T.1    Passaes, C.P.B.2    Ferreira, L.G.E.3    Grisard, E.C.4    Morgado, M.G.5    Bello, G.6    Pinto, A.R.7


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.