计算生物学

Vol.6 No.1 (March 2016)

小麦麦谷蛋白亚基基因密码子用法特性分析
Characterization Analysis of Codon Usage of Glutenin Subunits Genes in Wheat

 

作者:

曹兴芹 :长江大学计算机学院,湖北 荆州

任燕萍 :新疆农业大学农学院,新疆 乌鲁木齐

覃建兵 :长江大学生命科学学院,湖北 荆州

 

关键词:

小麦麦谷蛋白亚基密码子偏爱性Wheat HMW-GS Codon Bias

 

摘要:

该文运用CodonW1.4.2和SPSS16.0软件对13个来源于小麦麦谷蛋白亚基基因的密码子用法特性进行分析。结果显示,除1Dy10基因ENC值小于40外,其余亚基基因ENC值均介于40~50之间;GC3含量均在0.38~0.45之间;1Bx14基因偏向于使用A或T结尾的密码子,其余12个亚基基因偏向于使用G或C结尾的密码子;1Dy10与其余12个亚基基因间距离系数较大,然而各组染色体麦谷蛋白x-型或y-型亚基基因间距离系数较小。结果表明,小麦麦谷蛋白亚基基因具有较强的密码子使用偏爱性,各基因密码子用法上具有相似性,每一种氨基酸均存在1~2个偏爱密码子。在密码子用法差异上表现为,除1By9和1Dy10之外,无论是A染色体组、B染色体组,还是D染色体组,各组染色体上麦谷蛋白x-型或y-型亚基基因间密码子使用频率差异最小。这一分析结果对小麦HMW-GS功能基因资源的高效利用和LMW-GS新基因的克隆具有一定的指导意义。

The codon characters of 13 high molecular weight glutenin subunits genes from wheat were analyzed by software CodonW1.4.2 and SPSS16.0. The results showed that ENC of HMW-GS genes ranges between 40 and 50, but 1Dy10 gene’ is less than 40; GC3 contents are between 0.38 and 0.45; 1Bx14 gene prefers to use A or T at the end of codon, and the remaining 12 genes prefer to use G or C ending codons; the Euclidean distance coefficient is minimum between the alleles. The results indicated that the wheat HMW-GS genes have strong codon usage bias; the codon usage is similar; there are bias codons for each amino acid. Considering the codon usage differences, except 1By9 and 1Dy10, the difference of codon use frequency is minimum between x- or y-type subunit genes of glutenin in each chromosome group. The results have certain significance in the efficient use of HMW-GS genetic resources and the cloning of new LMW-GS genes.

文章引用:

曹兴芹 , 任燕萍 , 覃建兵 (2016) 小麦麦谷蛋白亚基基因密码子用法特性分析。 计算生物学, 6, 18-25. doi: 10.12677/HJCB.2016.61003

 

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