Sun Xiao-Hong, Wang Huan-Yu, Pan Xiao-Ling, Fu Shi-Hong, Feng Yun, Meng Wei-Shan, Liang Guo-Dong
Institute for Viral Diseases Control and Prevention, Chinese Center for Diseases Control and Prevention, Beijing, China.
Zhonghua Liu Xing Bing Xue Za Zhi. 2009 Jun;30(6):606-10.
To analyze the molecular characteristics of Japanese encephalitis virus (JEV) isolated in Northwestern Yunnan province, and to clarify the differences between the strains isolated in Northwestern and other parts of Yunnan province.
PrM, E and 3' untranslated region nucleotide acid sequences of the isolates were amplified by RT-PCR and then sequenced. Sequence alignment and phylogenetic analysis were performed by using Clustal 1.8X, DNASTAR, GENEDOC and Mega 3.1 programs.
12 of the 13 isolates of JEV obtained in Northwestern Yunnan were identified as genotype I, only one strain was genotype III of JEV. The 12 strains of genotype I were clustered in different branches with other isolates obtained in other parts of Yunnan province. Data from sequence analysis on E gene found that the nucleotide identity was 0.2%-13.9% between the Northwestern isolates and other Yunnan strains. There were two kinds of nucleotides deletion patterns at 3' untranslated region with three and one deletions was found after termination codon in genotype I and III isolates, respectively.
There were two genotypes of I and III in 13 strains of JEV in this study and genotype I isolates were predominant (12/13). There were no apparent differences in E gene sequence between isolates obtained in the Northwestern and other parts of Yunnan. Three deletions were found in 3' untranslated region in genotypes I isolates and one deletion was in genotypes III.
分析滇西北分离的日本脑炎病毒（JEV）的分子特征，阐明滇西北分离株与云南省其他地区分离株之间的差异。
通过RT-PCR扩增分离株的PrM、E和3'非翻译区核苷酸序列，然后进行测序。使用Clustal 1.8X、DNASTAR、GENEDOC和Mega 3.1程序进行序列比对和系统发育分析。
滇西北获得的13株JEV中，12株被鉴定为基因型I，仅1株为JEV基因型III。12株基因型I与云南省其他地区获得的其他分离株聚集在不同分支。E基因序列分析数据显示，滇西北分离株与云南省其他菌株之间的核苷酸同一性为0.2%-13.9%。在3'非翻译区有两种核苷酸缺失模式，基因型I和III分离株分别在终止密码子后发现3个和1个缺失。
本研究中13株JEV存在基因型I和III两种基因型，基因型I分离株占主导（12/13）。滇西北与云南省其他地区获得的分离株在E基因序列上无明显差异。基因型I分离株在3'非翻译区发现3个缺失，基因型III有1个缺失。
