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Open Access Research

Isolation and molecular characterization of genotype 1 Japanese encephalitis virus, SX09S-01, from pigs in China

Qi S Cao1, Xiang M Li12*, Qiao Y Zhu1, Dan D Wang1, Huan C Chen12 and Ping Qian12*

Author Affiliations

1 State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan city 430070, Hubei Province, P. R. China

2 Laboratory of Animal Virology, College of Veterinary Medicine, Huazhong Agricultural University, Wuhan city 430070, Hubei Province, P. R. China

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Virology Journal 2011, 8:472  doi:10.1186/1743-422X-8-472

Published: 14 October 2011



Pigs play a critical role in Japanese encephalitis virus (JEV) transmission between mosquitos and humans. In 2009, lots of piglets developed symptom of viral encephalitis in a pig farm in Yunchen, Shanxi province.


Virus isolation was carried out in BHK-21 cells. Immunohistochemistry, RT-PCR and indirect immunofluorescent assay were used to identify the newly isolated virus. The complete genome of one isolate (SX09S-01 strain) was sequenced and analyzed. Two phylogenetic trees were constructed on the basis of the 24 full-length JEV genomes and 62 E genes mostly selected from China.


JEV SX09S-01 strain was isolated from piglets. Sequence analysis indicates that the completed genome sequences of this strain consists of 10965 nucleotides and there are 13 nucleotides deletion in the 3' nontranslated variable region. Compared with other JEV strains, homology ranges from 99.1% (XJ69) to 74.1% (XZ0934) and 99.6% (XJ69) to 91.1% (XZ0934) on the level of nucleotide and amino acid sequences, respectively. Phylogenetic trees show that SX09S-01 strain belongs to genotype I and it is most closely related to the XJ69 strain.


Genotype I of JEV still circulates in Yuncheng and it is thus important for active surveillance on genotype I of JEV from the swine population.