Molecular characterization of full-length genome of Japanese encephalitis virus (KV1899) isolated from pigs in Korea.
We have determined the complete nucleotide and deduced amino acid sequences of the Japanese encephalitis virus (JEV) strain KV1899, isolated from a fattening pig in Korea. In comparison with 22 fully sequenced JEV genomes currently available, we found that the 10,963-nucleotide RNA genome of KV1899 has a 13-nucleotide deletion in the 3' non-translated variable region and 53 unique nucleotide sequences including 3' non-translated region (NTR). Its single open reading frame has a total of 28 amino acid substitutions. Comparison of the KV1899 genomic sequence with those of the 21 fully sequenced JEV strains in published databases showed nucleotide homology ranging from 97.4% (Ishikawa strain) to 87.0% (CH2195 strain). Amino acid homology with KV1899 strain ranged from 96.4% (K94P05) to 91.0% (GP78). The KV1899 showed the highest nucleotide homology with Ishikawa strain and the highest amino acid homology with K94P05. We performed an extensive E gene based phylogenetic analysis on a selection of 41 JEV isolates available from the GenBank. Compared with Anyang strain, isolated from a pig in 1969, that is current live vaccine strain for swine in Korea, the homology of nucleotide sequence in envelope gene was only 87.1%. The prM gene of the isolate was closely related with those of Ishikawa and K94P05 strains, which were grouped into genotype I of JEV.
Yang
Dong Kun
DK
National Veterinary Research and Quarantine Service, Ministry of Agriculture and Forestry, Anyang 430-824, Korea. yangdk@nvrqs.go.kr
Kim
Byoung Han
BH
Kweon
Chang Hee
CH
Kwon
Jun Hun
JH
Lim
Seong In
SI
Han
Hong Ryul
HR
D020413:3' Untranslated Regions / Q000737:chemistry / Q000235:genetics; D000595:Amino Acid Sequence; D000818:Animals; D001483:Base Sequence; D009033:Culicidae / Q000821:virology; D004664:Encephalitis Virus, Japanese / Q000235:genetics*; D004672:Encephalitis, Japanese / Q000662:veterinary* / Q000821:virology; D016679:Genome, Viral; D006801:Humans; D007723:Korea; D008562:Membrane Glycoproteins / Q000737:chemistry / Q000235:genetics; D008969:Molecular Sequence Data; D010802:Phylogeny; D012367:RNA, Viral / Q000737:chemistry / Q000235:genetics; D020133:Reverse Transcriptase Polymerase Chain Reaction / Q000662:veterinary; D016415:Sequence Alignment; D013552:Swine; D013553:Swine Diseases / Q000821:virology*; D014759:Viral Envelope Proteins / Q000737:chemistry / Q000235:genetics
D020413:3' Untranslated Regions; D008562:Membrane Glycoproteins; D012367:RNA, Viral; D014759:Viral Envelope Proteins; C080628:glycoprotein E, Japanese encephalitis virus