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目的建立中国肠道病毒71型(EV71)全基因参照序列,为疫苗设计和分析碱基或(和)氨基酸变异进化规律提供参考。方法从NCBI/GenBank中获得来源于中国不同地区的EV71病毒株全基因序列,通过基因分型和序列比对,以相同位置出现频率最高碱基作为参照碱基建立序列。将获得的参照序列与国内外的参照序列进行比较,分析其全长序列及编码P1蛋白和VP1蛋白的核苷酸序列的相似性,并对结构蛋白区的氨基酸序列进行比较。结果中国已获得81株EV71C4基因亚型的全基因序列。这些毒株分离于1998-2010年,其中以2008年分离的最多,共45株(占55.6%);调查地区中,广东省分离的最多,共23株(占28.4%);通过序列比对获得了中国EV71C4基因亚型参照序列RSC4;RSC4与C4基因亚型的核苷酸和氨基酸的相似性最高,与A基因型的相似性最低。结论拟定的EV71C4基因亚型参照序列RSC4可以作为中国EV71C亚型参照序列。
Objective To establish a reference sequence of whole genome of enterovirus 71 (EV71) in China and provide references for the design and analysis of evolutionary changes of the base or (or) amino acids in vaccines. Methods The whole genome sequence of EV71 strain derived from different regions of China was obtained from NCBI / GenBank. The most frequent bases in the same position were used as reference bases by genotyping and sequence alignment. The obtained reference sequence was compared with the reference sequence at home and abroad, and the full-length sequence and the similarity of the nucleotide sequences encoding the P1 protein and the VP1 protein were analyzed. The amino acid sequences of the structural protein regions were compared. Results The whole genome sequence of 81 EV71C4 genotypes was obtained in China. These isolates were isolated from 1998 to 2010, of which 45 were the most (55.6%) in 2008 and 23 (28.4%) were most isolated in Guangdong and Guangdong provinces. The reference sequence of EV71C4 gene in China, RSC4, was obtained. The nucleotide and amino acid identities of RSC4 and C4 subtypes were the highest, and the lowest similarity with A genotype. Conclusion The proposed reference sequence of EV71C4 subtype RSC4 can be used as reference sequence of EV71C subtype in China.