瑶药鸭脚风叶绿体基因组结构解析及密码子偏好性分析

Genomic Characteristics and Codon Preference Analysis of Schefflera octophylla(Lour.)Harms Chloroplasts

为探究老班瑶药鸭脚风叶绿体基因组的结构特征、系统进化以及密码子偏好性,以瑶药鸭脚风为研究材料,对瑶药鸭脚风叶绿体基因组进行测序和组装。结果表明,鸭脚风的叶绿体基因组由大单拷贝区、小单拷贝区以及2个反向重复区组成,全长156532bp,包含123个基因,分别为8个核糖体rRNA基因、29个转录tRNA基因和86个蛋白质编码基因。共检测到84个SSR位点。密码子偏好性分析显示,鸭脚风的叶绿体基因最优密码子偏好以A/U碱基结尾,自然选择可能是其密码子使用模式的主要影响因素。系统进化分析表明,鸭脚风与辐叶鹅掌柴亲缘关系密切。以上研究结果为鸭脚风叶绿体基因组研究和应用提供了科学依据。

To study the genetic structure and function,genetic codon preference,influencing factors and optimal codon of Schefflera octophylla,the Schefflera octophylla(Lour.)Harms was used as research material.The full sequence of the chloroplast genome was sequenced and assembled.The results showed that the chloroplast genome of S.octophylla was consist of a large single copy region,a small single copy region and 2 reverse repeat regions,with a total length of 156532 bp,and 123 functional genes were obtained including 8 ribosomal rRNA genes,29 tRNA genes and 86 protein coding genes.A total of 84 SSR loci were detected.The preference analysis of codons showed that the optimal codons of S.octophylla chloroplast genomic codons tended to end in A/U bases,which indicated natural selection was main factor of preference analysis of codons.Phylogenetic analysis showed that S.actophylla had closely related to Kalopanax septemlobus.Above results provided scientific basis for the study and application of chloroplast genome of S.octophylla.