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运用CHIPS、CUSP和CodonW软件程序分析自主克隆的茶树(Camellia sinensis)ICE1(GenBank登录号JX029153)的密码子的偏性,并与茶树基因组及萝卜等7种植物的ICE1密码子偏性进行比较。结果表明,茶树ICE1偏好于以A/T结尾的密码子;与茶树基因组密码子偏性相比,发现只有6种氨基酸密码子偏性完全一致。进一步研究发现ICE1的碱基组成在单子叶植株大麦与7种双子叶植物分化后发生了较大的变化。在聚类分析中,基于基因CDS序列的聚类不能正确反映物种间的进化关系,而基于密码子偏性参数相对密码子使用度(RSCU)的聚类更适合作为系统发育分析的参考。与3种外源受体密码子使用频率比较发现,与大肠杆菌基因组密码子使用频率差值较大的有25个,与酵母基因组差值较大的有15个,与拟南芥基因组差值较大的有10个,这预示着ICE1在拟南芥中的表达效率最高,若要在其他外源受体中进行高效表达,尚需对其密码子进行优化。
The codon bias of the autonomously cloned Camellia sinensis ICE1 (GenBank accession number JX029153) was analyzed by CHIPS, CUSP and CodonW software programs and compared with ICE1 codon bias of seven plant species including tea tree genome and radish. The results showed that the tea tree ICE1 prefers the codon ending with A / T; compared with the codon bias of the genome of tea tree, only six amino acid codons are completely consistent. Further studies found that the base composition of ICE1 changed significantly after the differentiation of monocotyledonous barley and seven dicotyledons. In cluster analysis, clustering based on gene CDS sequences can not correctly reflect the evolutionary relationship among species, while cluster based on relative codon usage (RSCU) of codon bias parameters is more suitable as a reference for phylogenetic analysis. Compared with the codon usage frequencies of three exogenous receptors, it was found that there were 25 differences between codon usage frequency in E. coli and 15 differences between yeast genome and Arabidopsis genomic differences This indicates that ICE1 is most efficiently expressed in Arabidopsis. Its codon needs to be optimized for its high expression in other exogenous receptors.