大斑芫菁转录组编码序列密码子使用偏好性分析  

Analysis on Codon Usage Bias of Mylabris phalerata Pallas Transcriptome Coding Sequence

作　　者：刘春雷 陈艾萌 刘燕琴[1] 曹敏[1] 陈强[1] LIU Chunlei;CHEN Aimeng;LIU Yanqin;CAO Min;CHEN Qiang(Chongqing Institute of Medicinal Plant Cultivation,Chongqing 408435,China;Neijiang Academy of Agricultural Sciences,Neijiang 641000,China)

机构地区：[1]重庆市药物种植研究所,重庆408435 [2]内江市农业科学院,四川内江641000

出　　处：《中国中医药信息杂志》2020年第10期64-68,共5页Chinese Journal of Information on Traditional Chinese Medicine

基　　金：重庆市卫生计生委中医药科技项目(ZY201802116)。

摘　　要：目的探讨大斑芫菁转录组编码序列的密码子使用特点及其影响因素,为运用基因工程技术实现斑蝥素异源生物合成提供依据。方法利用CodonW和EMBOSS软件分析10264条大斑芫菁转录组编码序列的密码子使用模式。结果大斑芫菁转录组编码序列的平均GC、GC3含量分别为0.387、0.321,GC12与GC3呈显著正相关(r=0.369,P<0.001);ENc-GC3及偏倚性分析结果显示,大部分基因分布于标准曲线和平面中心点周围,有少部分基因偏离较远。通过基因高表达优越密码子方法确定了6个大斑芫菁最优密码子,分别为GCC、CGC、GGC、AUC、UUC、ACC。密码子使用频率分析结果显示,大斑芫菁与果蝇整体密码子使用偏好性差异最大,与酵母菌的差异最小。结论大斑芫菁转录组编码序列的密码子使用偏好性以突变影响为主,多种因素共同作用的结果。酵母菌可作为大斑芫菁目的基因异源转化的理想受体系统。Objective To explore the characteristics and influencing factors of the codon usage of the coding sequence of the transcriptome of Mylabris phalerata Pallas,so as to provide a basis for the realization of heterologous biosynthesis of cantharidin by using genetic engineering technology.Methods The codon usage bias patterns of 10264 transcriptome coding sequences of M.phalerata Pallas were analyzed by Codon W and EMBOSS software.Results The average contents of GC and GC3 of the coding sequence of M.phalerata Pallas were 0.387 and 0.321,respectively.There was a significant positive correlation between GC12 and GC3(r=0.369,P<0.001).The results of ENC-GC3 and bias analysis showed that most genes were distributed around the standard curve and the center point of the plane,and a small number of genes deviated far away.Six optimal codons of M.phalerata Pallas were determined through high gene expression and superior codon method,namely GCC,CGC,GGC,AUC,UUC,ACC.The results of codon usage frequency analysis showed that the difference of codon usage bias between Drosophila melanogaster and M.phalerata Pallas was the largest,while Saccharomyces cerevisiae and M.phalerata Pallas was the smallest.Conclusion The codon usage bias of M.phalerata Pallas transcriptome coding sequences is mainly due to the effect of mutation pressure,but there are other factors.Saccharomyces cerevisiae can be used as an ideal system for heterologous expression.

关 键 词：大斑芫菁 转录组 密码子偏好性 最优密码子 

分 类 号：R282.3[医药卫生—中药学]