摘要
目的:分析刺五加叶绿体基因组密码子的使用方式及其影响因素。方法:以刺五加叶绿体基因组的52条编码基因为材料,利用CodonW和SPSS软件进行多元统计分析和对应性分析。结果:刺五加叶绿体基因组密码子3个位置GC的量依次为46.46%,38.26%,29.88%,其中GC1与GC2呈极显著相关关系(P<0.01),GC12与GC3的相关系数为0.205,未达到显著水平。同义密码子的相对使用频率(relative synonymous codon usage,RSCU)>1的密码子共30个,其中29个以A或T碱基结尾。对应性分析的结果表明:第1轴显示了10.35%的差异,与有效密码子数(effective number of codons,ENC)和GC3显著相关,相关系数分别为-0.288,0.353;确定了刺五加叶绿体基因组的16个最优密码子。结论:刺五加叶绿体密码子第3位偏好以A或T碱基结尾,密码子使用模式受选择和突变及其他因素共同影响,其中选择的作用略大。
Objective： To analyze the codon usage of chloroplast genome and the influencing factor in Eleutherococcus sentico- sus. Method： Codon of 52 genes, which were selected from the chloroplast genome sequence of E. senticosus, was multivariate statisti- cal and correspondence analyzed using CodonW and SPSS software. Result： GC content at the three position of codons by turns was 46.46% ,38.26% ,29.88%, whereas GCI and GC2 had a significant correlation coefficient （P 〈 O. 01 ）. The correlation coefficient with GCn and GC3 was O. 205 and was not significant coorelated. There were 30 codons which relative synonymous codon usage was greater than 1 and 29 codons end with A and T. In the corresponding analysis, the first axis shows 10.35% variation. And there was significant correlation coefficient between ENC and GC3. The correlation coefficients with GC3 and ENC were - 0.288 and O. 353, re- spectively. We defined 16 codons from 16 amino acids as the major preference codons in chloroplast genome of E. senticosus. Conclu- sion： The third positions for all codon are preferred to ending with A and T. The codon usage bias is formed under effect of mutation and selection, as well as other factors. But the selection will have a far greater impact than others.
出处
《中国中药杂志》
CAS
CSCD
北大核心
2013年第5期661-665,共5页
China Journal of Chinese Materia Medica
基金
国家自然科学基金项目(30701086)
河北省自然科学基金项目(C2009001252)
河北省自然科学基金-石药集团医药联合研究基金项目(H2012401006)
关键词
刺五加
密码子用法
密码子偏好性
GC量
Eleutherococcus senticosus
codon usage
codon bias
GC contents
