摘要
目的分析苞叶雪莲、砂生槐、西藏大戟、拉萨小檗、桃儿七、樱草杜鹃、大花黄牡丹、总状绿绒蒿、拉萨蒲公英、藏橐吾10种藏药材的ccmFN基因片段密码子偏好性。方法运用Codon软件对ccmFN基因部分片段密码子组成、密码子使用性各参数和同义密码子相对使用度进行计算和统计分析,从而分析密码子的使用情况;利用ENC绘图、PR2绘图推测影响密码子偏性的因素。结果 ccmFN基因部分片段共同的偏好密码子为GCU、GAU、GAG、GGA、AUU、UUA、CUA、AAU、CCC、CAG、CGU、CGG,且偏好使用以U/A结尾的密码子。ENC绘图表明,10种单子叶植物受自然选择作用的影响比10种双子叶植物和10种藏药材大;PR2绘图表明,密码子第3位的碱基A和T使用不对称,从而影响密码子的偏好使用。结论 ccmFN基因部分片段密码子使用偏好性在苞叶雪莲等10种藏药材、10种双子叶植物、10种单子叶植物中差异不大,表明此区域在植物中具有保守性,突变作用是导致密码子偏好的主要因素。
AIM To analyze codon usages in partial sequences of ccmFN of ten Tibetan traditional medicines,which include Saussurea obvallata,Sophora moorcroftiana,Euphorbia tibetica,Berberis hemsleyana,Sinopodophyllum hexandrum,Rhododendron primuliflorum,Paeonia ludlowii,Meconopsis racemosa,Taraxacum sherriffii,Ligularia rumicifolia. METHODS We used the Codon to analyze the codon composition,codon usage characteristics and relative synonymous codon usage of partial sequence of ccmFN,the factors in codon usage were presumed by using ENC-plot and PR2 plot. RESULTS GCU, GAU,GAG, GGA, AUU, UUA, CUA, AAU, CCC,CAG,CGU,CGG were preferred codon of partial sequence of ccmFN gene,and had predominantly U/A-ending codons; ENC plot results showed that the level of the codon usage bias of partial sequences of ccmFN of ten monocots,which was influenced by natural selection,was higher than ten eudicots and ten Tibetan traditional medicines; the usages of bases A and T in the third codon were not proportional by PR2. CONCLUSION There are no significant differences of the codon usage bias of the partial sequences of ccmFN in ten Tibetan traditional medicines,ten monocots and ten eudicots. Therefore,the ccmFN is very conserved in plants,the codon usage pattern is mainly formed under effect of mutation.
作者
郝豆豆
张勇群
雷鸣
拉多
HAO Dou-dou;ZHANG Yong-qun;LEI Ming;La-duo(Hospital of Chengdu Office of People’s Government of Tibetan Autonomous Region,Chengdu 610000,China;Tibet University,Lhasa 850000,China)
出处
《中成药》
CAS
CSCD
北大核心
2018年第7期1551-1557,共7页
Chinese Traditional Patent Medicine
基金
湖南师范大学蛋白质与发育生物学教育部重点实验室(2014年)开放课题(2015DF03)
西藏自治区科技厅自然科学基金项目(2015ZR-13-5)
