Global phylogeography of Dengue type 1 and 2 viruses reveals the role of India

Infection, Genetics and Evolution

Volumn 22, Issue , 2014, Pages 30-39

  Walimbe, Atul M ^a   Lotankar, Mrunalini ^a   Cecilia, D ^a   Cherian, Sarah S ^a  

^a NATIONAL INSTITUTE OF VIROLOGY   (India)

Author keywords

Bayesian phylogeny; DENV 1; DENV 2; India; Migration patterns; Phylogeography

Indexed keywords

AFRICA; ARTICLE; ASIA; BAYES THEOREM; CENTRAL AMERICA; CLADISTICS; DENGUE VIRUS 1; DENGUE VIRUS 2; EAST ASIA; EVOLUTION; GENE SEQUENCE; GENETIC VARIABILITY; GENOTYPE; GEOGRAPHIC ORIGIN; INDIA; MICROBIAL DIVERSITY; MIGRATION; NONHUMAN; PHYLOGENY; PHYLOGEOGRAPHY; PRIORITY JOURNAL; SEROTYPE; SOUTHEAST ASIA; SRI LANKA; GEOGRAPHIC DISTRIBUTION; MONTE CARLO METHOD; NUCLEOTIDE SEQUENCE; POPULATION DISPERSAL; PROBABILITY;

BAYESIAN PHYLOGENY; DENV-1; DENV-2; INDIA; MIGRATION PATTERNS; PHYLOGEOGRAPHY;

BAYES THEOREM; DENGUE; DENGUE VIRUS; HUMANS; INDIA; PHYLOGEOGRAPHY; WORLD HEALTH;

EID: 84893063831     PISSN: 15671348     EISSN: 15677257     Source Type: Journal    
DOI: 10.1016/j.meegid.2014.01.001     Document Type: Article

References (52)

1. Allicock O.M., Lemey P., Tatem A.J., Pybus O.G., Bennett S.N., Mueller C.V.F., Suchard M.A., Foster J.E., Rambaut A., Carrington B.A. Phylogeography and population dynamics of Dengue viruses in the Americas. Mol. Biol. Evol. 2012, 29(6):1533-1534.
2. Araújo J.M.G., Nogueira R.M.R., Schatzmayr H.G., Zanotto P.M.de A., Bello G. Phylogeography and evolutionary history of dengue virus type 3. Infect. Genet. Evol. 2009, 9:716-725.
3. Bennett S.N. Evolutionary dynamics of dengue virus. Frontiers in Dengue Virus Research 2010, SBN 978-1-904455-50-9. Caister Academic Press, Norfolk, UK. K.A. Hanley, S.C. Weaver (Eds.).
4. Bielejec F., Rambaut A., Suchard M.A., Lemey P. SPREAD: spatial phylogenetic reconstruction of evolutionary dynamics. Bioinformatics 2011, 27(20):2910-2912.
5. Bush K.F., Luber G., Kotha S.R., Dhaliwal R.S., Kapil V., Pascual M., Brown D.G., Frumkin H., Dhiman R.C., Hess J., Wilson M.L., Balakrishnan K., Eisenberg J., Kaur T., Rood R., Batterman S., Joseph A., Gronlund C.J., Agrawal A., Hu H. Impacts of climate change on public health in India: future research directions. Environ Health Perspect. 2011, 119(6):765-770.
6. Cardosa J., Ooi M.H., Tio P.H., Perera D., Holmes E.C., Bibi K., Manap Z.A. Dengue virus serotype 2 from a sylvatic lineage isolated from a patient with dengue hemorrhagic fever. PLoS Negl. Trop. Dis. 2009, 3(4):e423. 10.1371/journal.pntd.0000423.
7. Chen R., Vasilakis N. Dengue-quo tu et quo vadis?. Viruses 2011, 3(9):1562-1608.
8. Cruz C.D., Forsheya B.M., Juareza D.S., Guevaraa C., Leguiaa M., Kochelc T.J., Halseya E.S. Molecular epidemiology of American/Asian genotype DENV-2 in Peru. Infect. Genet. Evol. 2013, 18:220-228.
9. de A Zanotto P.M., Gould E.A., Gao G.F., Harvey P.H., Holmes E.C. Population dynamics of flaviviruses revealed by molecular phylogenies. Proc. Natl. Acad. Sci. USA 1996, 93:548-553.
10. Domingo C., Palacios G., Jabado O., Reyes N., Niedrig M., Gascó n J., Cabrerizo M., Lipkin W.I., Tenorio A. Use of a short fragment of the C-terminal E gene for detection and characterization of two new lineages of dengue virus 1 in India. J. Clin. Microbiol. 2006, 44(4):1519-1529.
11. Drummond A.J., Rambaut A. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 2007, 7:214.
12. Drummond A.J., Ho S.Y.W., Phillips M.J., Rambaut A. Relaxed phylogenetics and dating with confidence. PLoS Biol. 2006, 4:e88.
13. Drumond B.P., Mondini A., Schmidt D.J., Bosch I., Nogueira M.L. Population dynamics of DENV-1 genotype V in Brazil is characterized by cocirculation and strain/lineage replacement. Arch. Virol. 2012, 157:2061-2073.
14. Drumond B.P., Mondini A., Schmidt D.J., De M Bronzoni R.V., Bosch I., Nogueira M.L. Circulation of different lineages of dengue virus 2, genotype American/Asian in Brazil: dynamics and molecular and phylogenetic characterization. PLoS ONE 2013, 8(3):e59422. 10.1371/journal.pone.0059422.
15. Foster J.E., Bennett S.N., Carrington C.V., Vaughn H., McMillan W.O. Phylogeography and molecular evolution of dengue 2 in the Caribbean basin, 1981-2000. Virology 2004, 324:48-59.
16. Gaunt M.W., Sall A.A., de Lamballerie X., Falconar A.K.I., Dzhivanian T.I., Gould E.A. Phylogenetic relationships of flaviviruses correlate with their epidemiology, disease association and biogeography. J. Gen. Virol. 2001, 82:1867-1876.
17. Goncalvez A.P., Escalante A.A., Pujol F.H., Ludert J.E., Tovar D., Salas R.A., Liprandi F. Diversity and evolution of the envelope gene of dengue virus Type 1. Virology 2002, 303:110-119.
18. Gubler D.J. Dengue and dengue hemorrhagic fever. Clin. Microbiol. Rev. 1998, 11(3):480-496.
19. Gubler D.J. The global pandemic of dengue/dengue haemorrhagic fever: current status and prospects for the future. Ann. Acad. Med. Singapore 1998, 27(2):227-234.
20. Gubler D.J. Dengue/dengue haemorrhagic fever: history and current status. Novartis Found Symp. 2006, 277:3-16. (discussion 16-22, 71-73, 251-253).
21. Gupta N., Srivastava S., Jain A., Chaturvedi U.C. Dengue in India. Indian J. Med. Res. 2012, 136(3):373-390.
22. Hare F.E. The 1897 epidemic of dengue in North Queensland. Australas Med. Gaz. 1898, 17:98-107.
23. Henchal E.A., Putnak J.A. The dengue viruses. Clin. Microbiol. Rev. 1990, 3:376-396.
24. Kumar S.R.P., Patil J.A., Cecilia D., Cherian S.S., Barde P.V., Walimbe A.M., Yadav P.D., Yergolkar P.N., Shah P.S., Padbidri V.S., Mishra A.C., Mourya D.T. Evolution, dispersal and replacement of American genotype dengue type 2 viruses I India (1956-2005): selection pressure and molecular clock analysis. J. Gen. Virol. 2010, 91:707-720.
25. Lemey P., Rambaut A., Drummond J.A., Suchard M.A. Bayesian phylogeography finds its roots. PLoS Comput. Biol. 2009, 5(9):e1000520. (Epub 2009 Sep 25).
26. Lewis J.A., Chang G.J., Lanciotti R.S., Kinney R.M., Mayer L.W., Trent D.W. Phylogenetic relationships of dengue-2 viruses. Virology 1993, 197:216-224.
27. Messer W.B., Vitarana U.T., Sivananthan K., Elvtigala J., Preethimala L.D., Ramesh R., Withana N., Gubler D.J., De Silva A.M. Epidemiology of dengue in Sri Lanka before and after the emergence of epidemic dengue hemorrhagic fever. Am. J. Trop. Med. Hyg. 2002, 66(6):765-773.
28. Messer W.B., Gubler D.J., Harris E., Sivananthan K., de Silva A.M. Emergence and global spread of a dengue serotype 3, subtype III virus. Emerg. Infect. Dis. 2003, 9(7):800-809.
29. Moore M., Sylla M., Goss L., Burugu M.W., Sang R., Kamau L.W., Kenya E.U., Bosio C., Munoz M.d.L., Sharakova M., Black W.C. Dual African origins of global Aedes aegypti s.l. populations revealed by Mitochondrial DNA. PLoS Negl. Trop. Dis. 2013, 7(4):e2175. 10.1371/journal.pntd.0002175.
30. Parker J., Rambaut A.R., Pybus O.G. Correlating viral phenotypes with phylogeny: accounting for phylogenetic uncertainty. MEEGID 2008, 8(3):239-246.
31. Patil J.A., Cherian S., Walimbe A.M., Patil B.R., Sathe P.S., Shah P.S., Cecilia D. Evolutionary dynamics of the American African genotypes of dengue type 1 virus in India (1962-2005). Infect. Genet. Evol. 2011, 11:1443-1448.
32. Patil J.A., Cherian S., Walimbe A.M., Bhagat A., Vallentyne J., Kakade M., Shah P.S., Cecilia D. Influence of evolutionary events on the Indian subcontinent on the phylogeography of dengue type 3 and 4 viruses. Infect. Genet. Evol. 2012, 12(8):1759-1769.
33. Pires Neto R.J., Lima D.M., de Paula S.O., Lima C.M., Rocco I.M., Fonseca B.A. Molecular epidemiology of type 1 and 2 dengue viruses in Brazil from 1988 to 2001. Braz. J. Med. Biol. Res. 2005, 38(6):843-852.
34. Posada D., Crandall K.A. ModelTest: testing the model of DNA substitution. Bioinformatics 1998, 14:817-818.
35. Rabaa M.A., Hang V.T., Willis B., Farrar J., Simmons C.P., Holmes E.C. Phylogeography of recently emerged DENV-2 in Southern Viet Nam. PLoS Negl. Trop. Dis. 2010, 4(7):e766. 10.1371/journal.pntd.0000766.
36. Raheel U., Faheem M., Riaz M.N., Kanwal N., Javed F., Zaidi, Nu, Qadri I. Dengue fever in the Indian Subcontinent: an overview. J. Infect. Dev. Ctries. 2011, 5(4):, 239-47.
37. Rahman M., Rahman K., Siddque A.K., Shoma S., Kamal A.H., Ali K.S., Nisaluk A., Breiman R.F. First outbreak of dengue hemorrhagic fever Bangladesh. Emerg. Infect. Dis. 2002, 8(7):738-740.
38. Rao T.R. Distribution, density and seasonal prevalence of Aedes aegypti in the Indian Subcontinent and South-East Asia. Bull. World Health Org. 1967, 36:547-551.
39. Rico-Hesse R. Molecular evolution and distribution of Dengue viruses type 1 and 2 in nature. Virology 1990, 174(2):479-493.
40. Rico-Hesse R., Harrison L.M., Salas R.A., Tovar D., Nisalak A., Ramos C., Boshell J., de Mesa M.T., Nogueira R.M., da Rosa A.T. Origins of dengue type 2 viruses associated with increased pathogenicity in the Americas. Virology 1997, 230(2):244-251.
41. Singh P.K., Dhiman R.C. Climate change and human health: Indian context. J. Vector Borne Dis. 2012, 49(2):55-60.
42. Suchard M.A., Weiss R.E., Sinsheimer J.S. Bayesian selection of continuous-time Markov chain evolutionary models. Mol. Biol. Evol. 2001, 18(6):1001-1013.
43. Sun Y., Meng S. Evolutionary history and spatiotemporal dynamics of dengue virus type 1 in Asia. Infect. Genet. Evol. 2013, 16:19-26.
44. Swofford D.L. Phylogenetic Analysis using Parsimony (and Other Methods) 1998, Sinauers Associates, Sunderland.
45. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 2011, 28:2731-2739.
46. Twiddy S.S., Holmes E.C., Rambaut A. Inferring the rate and time-scale of dengue virus evolution. Mol. Biol. Evol. 2003, 20(1):122-129.
47. Villabona-Arenas C.J., Zanotto P.M.de A. Evolutionary history of Dengue virus type 4: insights into genotype phylodynamics. Infect. Genet. Evol. 2011, 11:878-885.
48. Villabona-Arenas C.J., Zanotto P.M.de A. Worldwide spread of dengue virus type 1. PLoS ONE 2013, 8(5):e62649. 10.1371/journal.pone.0062649.
49. Wang E., Ni H., Xu R., Barrett A.D.T., Watowich S.J., Gubler D.J., Weaver S.C. Evolutionary relationships of endemic/epidemic and sylvatic dengue viruses. J. Virol. 2000, 74(7):3227-3234.
50. Weaver S.C., Vasilakis N. Molecular evolution of dengue viruses: contributions of phylogenetics to understanding the history and epidemiology of the preeminent arboviral disease. Infect. Genet. Evol. 2009, 9:523-540.
51. World Health Organization, 2013. Dengue and severe dengue. Fact sheet No. 117. World Health Organization, Geneva, Switzerland.
52. Zaki A., Perera D., Jahan S.S., Cardosa M.J. Phylogeny of dengue viruses circulating in Jeddah, Saudi Arabia: 1994 to 2006. Trop. Med. Int. Health 2008, 13(4):584-592.