Abstract
Japanese encephalitis virus (JEV) isolates from India phylogenetically belong to two genotypes, III and I. We used envelope gene sequences from GenBank, representing different states of India and other countries, to study the spatiotemporal transmission histories of these two JEV genotypes separately. Genotype III was found to have been successively introduced in the 1930s, 1950s and 1960s, followed by genotype I twice around 2003-2006. Changes in JEV disease patterns in India over the last five decades could thus be attributed to multiple introductions of JEV strains from neighboring Asian countries along with increased transmission potential due to altered ecological settings.
References
Vaughn DW, Hoke CH Jr (1992) The epidemiology of Japanese encephalitis: prospects for prevention. Epidemiol Rev 14:197–221
Tiwari S, Singh RK, Tiwari R, Dhole TN (2012) Japanese encephalitis: a review of the Indian perspective. Braz J Infect Dis 16(6):564–573
Kabilan L, Rajendran R, Arunachalam N, Ramesh S, Srinivasan S, Samuel PP, Dash AP (2004) Japanese encephalitis in India: an overview. Indian J Pediatr 71:609–615
Erlanger TE, Weiss S, Keiser J, Utzinger J, Wiedenmayer K (2009) Past, present, and future of Japanese encephalitis. Emerg Infect Dis. 15:1–7
Monath TP, Heinz FX (1996) Flaviviruses. In: BN Fields, DM Knipe, PM Howley (eds) Fields virology. Lippincott-Raven, Philadelphia, pp 961–1034
Kanojia PC, Shetty PS, Geevarghese G (2003) A long-term study on vector abundance and seasonal prevalence in relation to the occurrence of Japanese encephalitis in Gorakhpur district, Uttar Pradesh. Indian J Med Res 117:104–110
Solomon T, Ni H, Beasley DWC, Ekkelenkamp M, Cardosa MJ, Barrett AD (2003) Origin and evolution of Japanese encephalitis virus in southeast Asia. J Virol 77(5):3091–3098
Schuh AJ, Ward MJ, Leigh Brown AJL, Barrett ADT (2013) Phylogeography of Japanese encephalitis virus: Genotype is associated with climate. PLoS Negl Trop Dis 7(8):e2411. doi:10.1371/journal.pntd.0002411
Nam JH, Chae SL, Won SY, Kim EJ, Yoon KS, Kim BI, Jeong YS, Cho HW (2001) Short report: genetic heterogeneity of Japanese encephalitis virus assessed via analysis of the full-length genome sequence of a Korean isolate. Am J Trop Med Hyg 65(4):388–392
Nga PT, del Carmen Parquet M, Cuong VD, Ma SP, Hasebe F, Inoue S, Makino Y, Takagi M, Nam VS, Morita K (2004) Shift in Japanese encephalitis virus (JEV) genotype circulating in northern Vietnam: implications for frequent introductions of JEV from Southeast Asia to East Asia. J Gen Virol 85(Pt 6):1625–1631
Schuh AJ, Ward MJ, Leigh Brown AJ, Barrett AD (2014) Dynamics of the emergence and establishment of a newly dominant genotype of Japanese encephalitis virus throughout Asia. J Virol 88(8):4522–4532
Fulmali PV, Sapkal GN, Athawale S, Gore MM, Mishra AC, Bondre VP (2011) Introduction of Japanese encephalitis virus genotype I. India. Emerg Infect Dis 17(2):319–321
Sarkar A, Taraphdar D, Mukhopadhyay SK, Chakrabarti S, Chatterjee S (2012) Molecular evidence for the occurrence of Japanese encephalitis virus genotype I and III infection associated with acute Encephalitis in Patients of West Bengal, India, 2010. Virology J 9:271
Khan SA, Borah J, Chowdhury P, Dutta P, Mahanta J (2015) Characterization of Japanese encephalitis virus (JEV) genotype III clinical isolates in northeast India. Trans R Soc Trop Med Hyg. doi:10.1093/trstmh/trv045
Drummond AJ, Rambaut A (2007) BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol Biol 7:214
Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739
Drummond AJ, Ho SYW, Phillips MJ, Rambaut A (2006) Relaxed phylogenetics and dating with confidence. PLoS Biol 4:e88
Lemey P, Rambaut A, Drummond JA, Suchard MA (2009) Bayesian phylogeography finds its roots. PLoS Comput Biol 5(9):e1000520
Bielejec F, Rambaut A, Suchard MA, Lemey P (2011) SPREAD: spatial phylogenetic reconstruction of evolutionary dynamics. Bioinformatics 27(20):2910–2912
Do LP, Bui TM, Hasebe F, Morita K, Phan NT (2015) Molecular epidemiology of Japanese encephalitis in northern Vietnam, 1964–2011: genotype replacement. Virol J 12:51. doi:10.1186/s12985-015-0278-4
Pan X-L, Liu H, Wang H-Y et al (2011) Emergence of genotype I of Japanese encephalitis virus as the dominant genotype in Asia. JVI 85(19):9847–9853
Gao X, Liu H, Wang H, Fu S, Guo Z, Liang G (2013) Southernmost Asia is the source of Japanese encephalitis virus (Genotype 1) diversity from which the viruses disperse and evolve throughout Asia. PLoS Negl Trop Dis 7(9):e2459. doi:10.1371/journal.pntd.0002459
Namachivayam V, Umayal K (1982) Proceedings of the national conference on Japanese encephalitis. New Delhi: Indian Council of Medical Research, pp. 30–33
Webb JKG, Pereira SM (1956) Clinical diagnosis of an arthropod borne type viral encephalitis in children in North Arcot district, Madras state, India. Indian J Med Sci 10:572
Uchil PD, Satchidanandam (2001) Phylogenetic analysis of Japanese encephalitis virus: Envelope gene based analysis reveals a fifth genotype, geographic clustering and multiple introductions of the virus into the Indian subcontinent. Am J Trop Med 65(3):242–251
NVBDC P. Directorate General of Health services Ministry of Health and Family Welfare. New Delhi. Available at http://nvbdcp.gov.in/je-cd.html. Accessed 14 May 2015
Kuwayama M, Ito M, Takao S, Shimazu Y, Fukuda S, Miyazaki K, Kurane I, Takasaki T (2005) Japanese encephalitis virus in meningitis patients, Japan. Emerg Infect Dis 11:471–473
Wang L, Fu S, Zhang H, Ye X, Yu D, Deng Z, Yuan J, Zhai Y, Li M, Lv Z, Chen W, Jiang H, Gao X, Cao Y, Wang H, Tang Q, Liang G (2010) Identification and isolation of Genotype-I Japanese encephalitis virus from encephalitis patients. Virol J 7:345
Zhang JS, Zhao QM, Guo XF, Zuo SQ, Cheng JX, Jia N, Wu C, Dai PF, Zhao JY (2011) Isolation and genetic characteristics of human genotype 1 Japanese encephalitis virus, China, 2009. PLoS ONE 6:e16418
Walimbe AM, Lotankar M, Cecilia D, Cherian SS (2014) Global phylogeography of Dengue type 1 and 2 viruses reveals the role of India. Infect Genet Evol 22:30–39
Reuben R, Thenmozhi V, Samuel P, Gajanana A, Mani T (1992) Mosquito blood feeding patterns as a factor in the epidemiology of Japanese encephalitis in Southern India. Amer J Trop Med Hyg 46:654–663
Kumari R, Kumar K, Rawat A, Singh G, Yadav NK, Chauhan LS (2013) First indigenous transmission of Japanese encephalitis in urban areas of national capital territory of Delhi, India. Trop Med Int Health 18(6):743–749
Online Technical Appendix, supplementary reference 41 and 42. Available at www.cdc.gov/EID/content/15/1/1-Techapp.pdf
Sarkar A, Banik A, Pathak BK, Mukhopadhyay SK, Chatterjee S (2013) Envelope protein gene based molecular characterization of Japanese encephalitis virus clinical isolates from West Bengal, India: a comparative approach with respect to SA14-14-2 live attenuated vaccine strain. BMC Infect Dis 13:368. doi:10.1186/1471-2334-13-368
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The authors are grateful to the Director, National Institute of Virology, Pune, and the Indian Council of Medical Research, New Delhi, for constant support.
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Cherian, S.S., Walimbe, A.M. Phylogeographic analysis of Japanese encephalitis virus in India (1956-2012). Arch Virol 160, 3097–3104 (2015). https://doi.org/10.1007/s00705-015-2599-4
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DOI: https://doi.org/10.1007/s00705-015-2599-4