摘要
目前有多种方法对丙型肝炎病毒进行基因分型,但尚无一个"金标准".为确定丙型肝炎病毒基因分型的最佳区域,从GenBank中筛选出15条对各成熟肽区域有注释,来源于不同国家地区的丙型肝炎病毒全基因组序列,分别对5′UTR区、core区、E1区、E2区及NS5B区建系统进化树.结果发现,以5′UTR区建树基因分型不完全正确,而以core区、E1区、E2区及NS5B区建树,基因分型均完全正确,但同一基因型间的核苷酸演化距离存在差异.计算5条1a型序列的core区、E1区、E2区、NS5B区的核苷酸演化距离并和全基因组序列核苷酸演化距离比较,结果发现,NS5B蛋白区基因分型最能反映病毒株间的演化关系.同时分析各序列的core区的分子演化,为发明针对core区的新的PCR-RFLP基因分型方法提供新思路.
At present, there are many methods for genotype of hepatitis C virus, but not a gold standard. In order to establish the rationale for genotypic determination of optimal region sequence, fifteen complete genome sequences of hepatitis C which had been given the annotation about every region and derived from different country were downloaded from GenBank. Phylogenetic trees on 5′ UTR, core, E1, E2 and NS5B region were established. The results demonstrated that genotyping group was not all correct on 5′ UTR region while genotyping groups were wholly correct on core, E1, E2 and NS5B region. Comparing phylogenetic distances on core, E1, E2 and NS5B region with that on complete genome sequence demonstrated that the NS5B area was the best genotyping region instead of the complete genome sequence. In addition, analysis of the molecular evolution on each core region could supply some clues for creating novel genotyping method based on PCR-RFLP.
出处
《生物化学与生物物理进展》
SCIE
CAS
CSCD
北大核心
2008年第8期964-968,共5页
Progress In Biochemistry and Biophysics
关键词
丙型肝炎病毒
基因型
分子演化
核心蛋白
hepatitis C virus, genotype, molecular evolution, core protein
