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寨卡病毒是一类对人类危害极重的RNA病毒,为了解其密码子使用特点和主要影响因素,本研究采用CHIPS、CUSP、Codon W和SPSS软件对寨卡病毒所有基因序列进行了偏爱性分析和多元统计分析,获得了每个基因密码子3个位置的GC含量和ENC值以及所有基因序列的RSCU值,并与大肠杆菌、酵母、人的密码子使用频率进行了对比分析。结果显示,寨卡病毒GC3含量相对较高,为54.14%,ENC值为52.54,表明该病毒密码子偏爱性偏低且偏爱以G、C、A碱基结尾的密码子,这和一般病毒的偏爱性有所不同。中性绘图和ENC绘图分析表明密码子的偏爱性主要受到选择作用的影响。通过和其它3种生物密码子使用频率进行比较,发现其与人的密码子使用频率相差最小。在此基础上确定了寨卡的18个最优密码子。研究结果对寨卡病毒寻找最佳宿主进行体外表达,从而研发基因工程疫苗及治疗性抗体具有一定的意义。
Zika virus is a type of RNA virus that is extremely harmful to human beings. In order to understand the characteristics of codon usage and its main influence factors, all the sequences of Zika virus were favored by CHIPS, CUSP, Codon W and SPSS Analysis and multivariate statistical analysis. GC content, ENC value and RSCU values of all the three gene codons were obtained and compared with codon usage frequencies of Escherichia coli, yeast and human. The results showed that the GC3 content of Zika virus was relatively high at 54.14% with an ENC value of 52.54, indicating that the codon preference of this virus is low and prefers codons ending with G, C and A bases, The preference is different. Neutral plotting and ENC mapping analysis show that codon preference is largely influenced by the selection effect. By comparing with the frequencies of other three kinds of biological codons, it is found that the frequency of codon usage differs from that of human. Based on this, 18 optimal codons of Zika were identified. The results of Zika virus in search for the best host for in vitro expression, thus developing genetic engineering vaccines and therapeutic antibodies have a certain significance.