Archives of Virology

, Volume 158, Issue 1, pp 113–122 | Cite as

Complete genome sequence analysis of Japanese encephalitis virus isolated from a horse in India

  • Harisankar Singha
  • Baldev R. Gulati
  • Prabhat Kumar
  • Birendra K. Singh
  • Nitin Virmani
  • Raj K. Singh
Original Article


The complete genome of the Japanese encephalitis virus (JEV) strain JEV/eq/India/H225/2009(H225), isolated from an infected horse in India, was sequenced and compared to previously published JEV genomes. H225 genome was 10,977-nucleotides long, comprising a single ORF of 10,299-nucleotides, a 5′-UTR of 95 nucleotides and a 3′-UTR of 582 nucleotides. The H225 genome showed high levels of sequence identity with 47 fully sequenced JEV genomes, ranging from 99.3 % to 75.5 % for nucleotides and 99.2 % to 91.5 % for amino acid sequences. Phylogenetic analysis of the full-length sequence indicated that the H225 strain belongs to genotype III and is closely related to the Indian JEV strain Vellore P20778. A comparison of amino acids associated with neurovirulence in the E proteins and non-structural proteins of known virulent and attenuated JEV strains suggested H225 to be a highly virulent strain. This is the first report of whole-genome sequencing of a genotype III JEV genome isolated from equines.


Japanese Encephalitis Virus Japanese Encephalitis H225 Strain Japanese Encephalitis Virus Murray Valley Encephalitis Virus 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.



We thank the Indian Council of Agricultural Research, New Delhi, for providing necessary financial assistance. The technical assistance of Mr. P. P. Choudhury (T-5), National Research Centre on Equines, Hisar, India, is also highly appreciated.


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Copyright information

© Springer-Verlag 2012

Authors and Affiliations

  • Harisankar Singha
    • 1
  • Baldev R. Gulati
    • 1
  • Prabhat Kumar
    • 1
  • Birendra K. Singh
    • 1
  • Nitin Virmani
    • 1
  • Raj K. Singh
    • 1
  1. 1.Equine Health UnitNational Research Centre on EquinesHisarIndia

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