Molecular analysis of the dengue virus type 1 and 2 in Brazil based on sequences of the genomic envelope-nonstructural protein 1 junction region (original) (raw)

Revista do Instituto de Medicina Tropical de São Paulo

Abstract

The genomic sequences of the Envelope-Non-Structural protein 1 junction region (E/NS1) of 84 DEN-1 and 22 DEN-2 isolates from Brazil were determined. Most of these strains were isolated in the period from 1995 to 2001 in endemic and regions of recent dengue transmission in São Paulo State. Sequence data for DEN-1 and DEN-2 utilized in phylogenetic and split decomposition analyses also include sequences deposited in GenBank from different regions of Brazil and of the world. Phylogenetic analyses were done using both maximum likelihood and Bayesian approaches. Results for both DEN-1 and DEN-2 data are ambiguous, and support for most tree bipartitions are generally poor, suggesting that E/NS1 region does not contain enough information for recovering phylogenetic relationships among DEN-1 and DEN-2 sequences used in this study. The network graph generated in the split decomposition analysis of DEN-1 does not show evidence of grouping sequences according to country, region and clades. Wh...

Loading...

Loading Preview

Sorry, preview is currently unavailable. You can download the paper by clicking the button above.

References (40)

  1. AVILÉS, G.; ROWE, J.; MEISSNER, J. et al. -Phylogenetic relationships of dengue-1 viruses from Argentina and Paraguay. Arch. Virol., 147: 2075-2087, 2002.
  2. BANDELT, H.-J. & DRESS, A. W. M. -Split decomposition: a new and useful approach to phylogenetic analysis of distance data. Molec. Phylogenet. Evol., 1: 242-252, 1992.
  3. CHOMCZYNSKI, P. & SACCHI, N. -Single step method of RNA isolation by acid guanidinium thiocyanate-phenol-chloroform extraction. Analyt. Biochem., 162: 156- 159, 1987.
  4. CHUNGUE, E.; CASSAR, O.; DROUET, M.T. et al. -Molecular epidemiology of dengue -1 and dengue-4 viruses. J. gen. Virol., 76: 1877-1884, 1995.
  5. DESPRÈZ, P.; FRENKIEL, M.P. & DEUBEL, V. -Differences between cell membrane fusion activities of two dengue type 1 isolates reflect modifications of viral structure. Virology, 196: 209-219, 1993.
  6. DOPAZO, J.; DRESS, A. & HAESELER, A. VON -Split decomposition: a technique to analyze viral evolution. Proc. nat. Acad. Sci. (Wash.), 90: 10320-10324, 1993.
  7. FIGUEIREDO, L.T.M. -History, present and future of dengue fever in Brazil. In : TRAVASSOS DA ROSA, A.P.A.; VASCONCELOS, P.F.C. & TRAVASSOS DA ROSA, J.F.S., ed. An overview of arbovirology in Brazil and neighbouring countries. Belém, Instituto Evandro Chagas, 1998. p. 155-163.
  8. GONÇALVEZ, A.P.; ESCALANTE, A.A.; PUJOL, F.H. et al. -Diversity and evolution of the envelope gene of dengue virus type 1. Virology, 303: 110-119, 2002.
  9. GUBLER, D. J.; REED, D.; ROSEN, L. & HITCHOCK Jr., J.R. -Epidemiologic, clinical, and virologic observations on dengue in the Kingdom of Tonga. Amer. J. trop. Med. Hyg., 27: 581-589, 1978.
  10. GUBLER, D.J. -The global pandemic of dengue/dengue haemorrhagic fever: current status and prospects for the future. Ann. Acad. Med. Singapore, 27: 227-234, 1998a.
  11. GUBLER, D.J. -Dengue and dengue hemorrhagic fever. Clin. Microbiol. Rev., 11: 480-496, 1998b.
  12. GUBLER, D.J. -The global emergence/resurgence of arboviral diseases as public health problems. Arch. med. Res., 33: 330-342, 2002.
  13. GUBLER, D.J.; KUNO, G.; SATHER, G.E.; VELEZ, M. & OLIVER, A. -Mosquito cell cultures and specific monoclonal antibodies in surveillance for dengue viruses. Amer. J. trop. Med. Hyg., 33: 158-165, 1984.
  14. HALSTEAD, S.B. -Pathogenesis of dengue: challenges to molecular biology. Science, 239: 476-481, 1988.
  15. HOLMES, E.C. & TWIDDY, S.S. -The origin, emergence and evolutionary genetics of dengue virus. Infect. Genet. Evol., 3: 19-28, 2003.
  16. HUELSENBECK, J.P. & RONQUIST, F. -MrBayes: Bayesian inference of phylogeny. Rochester, Department of Biology, University of Rochester, 2002. (Distributed by the author).
  17. HUSON, D.H. -SplitsTree: analyzing and visualizing evolutionary data. Bioinformatics, 14: 68-73, 1998.
  18. KIMURA, M. -A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. molec. Evol., 16: 111-120, 1980.
  19. LEWIS, J.G.; CHANG, G.J.; LANCIOTTI, R.S. et al. -Phylogenetic relationships of dengue-2 viruses. Virology, 197: 216-224, 1993.
  20. McCORMACK, G.P. & CLEWLEY, J.P. -The application of molecular phylogenetics to the analysis of viral genome diversity and evolution. Rev. med. Virol., 12: 221-238, 2002.
  21. MIAGOSTOVICH, M.P.; SEQUEIRA, P.C.; DOS SANTOS, F.B. et al. -Molecular typing of dengue virus type 2 in Brazil. Rev. Inst. Med. trop. S. Paulo, 45: 17-21, 2003.
  22. NOGUEIRA, R.M.R.; MIAGOSTOVICH, M.P.; FILIPPIS, A.M.B. et al. -Dengue virus type 3 in Rio de Janeiro, Brazil. Mem. Inst. Oswaldo Cruz, 96: 925-926, 2001.
  23. POSADA, D. & CRANDALL, K.A. -Modeltest: testing the model of DNA substitution. Bioinformatics, 14: 817-818, 1998.
  24. RICO-HESSE, R. -Molecular evolution and distribution of dengue viruses type 1 and 2 in nature. Virology, 174: 479-493, 1990.
  25. RICO-HESSE, R.; HARRISON, L.M.; SALAS, R.A. et al. -Origins of dengue type 2 viruses associated with increased pathogenicity in the Americas. Virology, 230: 244- 251, 1997.
  26. ROCCO, I.M.; KAVAKAMA, B.B. & SANTOS, C.L.S. -First isolation of dengue 3 in Brazil from an imported case. Rev. Inst. Med. trop. S. Paulo, 43: 55-57, 2001.
  27. RODRIGUEZ, F.; OLIVER, J.L.; MARIN, A. & MADINA, J.R. -The general stochastic model of nucleotide substitution. J. theor. Biol., 142: 485-501, 1990.
  28. ROSEN, L. -The Emperor's New Clothes revisited, or reflections on the pathogenesis of dengue hemorrhagic fever. Amer. J. trop. Med. Hyg., 26: 337-343, 1977.
  29. SANTOS, C.L.S.; BASTOS, M.A.A.; SALLUM, M.A.M. & ROCCO, I.M. -Molecular characterization of dengue viruses type 1 and 2 isolated from a concurrent human infection. Rev. Inst. Med. trop. S. Paulo, 45: 11-16, 2003.
  30. SCOTT, R.M. -Shock syndrome in primary dengue infections. Amer. J. trop. Med. Hyg., 25: 866-874, 1976.
  31. SWOFFORD, D.L. -PAUP*. Phylogenetic Analysis Using Parsimony (*and Other Methods), Version 4. Sunderland, Sinauer Associates, 2002.
  32. SWOFFORD, D.L.; OLSEN, G.J.; WADELL, P.J. & HILLIS, D.M. -Phylogenetic inference. In: HILLIS, D.M.; MORITZ, C. & MABLE, B.K., ed. Molecular systematics. 2. ed. Sunderland, Sinauer Associates, 1996. p. 407-514.
  33. TAMURA, K. & NEI, M. -Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Molec. Biol. Evol., 10: 512-526, 1993.
  34. THOMPSON, J.D.; GIBSON, T.J.; PLEWNIAK, F. et al. -The CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality tools. Nucleic Acids Res., 24: 4876-4882, 1997.
  35. TOLOU, H.J.; COUSSINIER-PARIS, P.; DURAND, J.P. et al. -Evidence for recombination in natural populations of dengue virus type 1 based on the analysis of complete genome sequences. J. gen. Virol., 82: 1283-1290, 2001.
  36. TWIDDY, S.S. & HOLMES, E.C. -The extent of homologous recombination in members of the genus Flavivirus. J. gen. Virol., 84: 429-440, 2003.
  37. TWIDDY, S.S.; HOLMES, E.C. & RAMBAUT, A. -Inferring the rate and time-scale of dengue virus evolution. Mol. Biol. Evol., 20: 122-129, 2003.
  38. WANG, E.; NI, H.; XU, R. et al. -Evolutionary relationships of endemic/epidemic and sylvatic dengue viruses. J. Virol., 74: 3227-3234, 2000.
  39. WOROBEY, M.; RAMBAUT, A. & HOLMES, E.C. -Widespread intra-sorotype recombination in natural populations of dengue virus. Proc. nat. Acad. Sci. (Wash.), 96: 7352-7357, 1999.
  40. ZHARKIKH, A. -Estimation of evolutionary distances between nucleotide sequences. J. Molec. Evol., 39: 315-329, 1994. Received: 30 September 2003 Accepted: 7 june 2004