大叶百两金和细柄百两金叶绿体全基因组解析及系统发育分析  

Chloroplast genome resolution and phylogenetic analysis of Ardisia crispa var.amplifolia and Ardisia crispa var.dielsii

作　　者：曾宪法 刘畅 杨小英 余庆 扶世伦 鄢藤云 蒲翔 ZENG Xian-fa;LIU Chang;YANG Xiao-ying;YU Qing;FU Shi-lun;YAN Teng-yun;PU Xiang(Guizhou University of Traditional Chinese Medicine,Guiyang 550025,China)

机构地区：[1]贵州中医药大学,贵州贵阳550025

出　　处：《药学学报》2023年第1期217-228,共12页Acta Pharmaceutica Sinica

基　　金：国家重点研发计划项目(2018YFC1708100);贵州省中医药管理局中医药、民族医药科学技术研究课题(QZYY-2021-098);贵州中医药大学2021年度科研创新和探索专项(2018YFC170810101);贵州省“十四五”中医药、民族医药重点学科[QZYYZDXK(JS)-2021-03]。

摘　　要：百两金Ardisia crispa (Thunb.) A. DC.为传统苗药药材,在治疗咽喉痛、扁桃腺炎、肾炎水肿及跌打风湿等方面具有显著疗效。大叶百两金Ardisia crispa var. amplifolia和细柄百两金Ardisia crispa var. dielsii是百两金的变种,两者在物种进化关系及分类鉴定方面存在争议。本研究利用Illumina平台测序获取两者叶绿体全基因组序列,对其进行组装、注释和特征分析,采用生物信息学方法比较叶绿体基因组间的结构特征与变异程度,同时下载报春花科Primulaceae和紫金牛科Myrsinaceae植物叶绿体全基因组序列信息构建系统发育树解析其系统发育关系。结果表明大叶百两金和细柄百两金完整叶绿体基因组序列全长156 749 bp、156 748 bp,均注释到基因132个,其中蛋白质编码基因87个;密码子偏好性A/U大于G/C;基因组比较分析中两者在rps15和rpoB基因编码区存在差异,为两者分子鉴定提供新的位点;与同属物种相比较叶绿体基因组中ycf1、ycf2、rpoC1、ycf3、petD及rpl16等基因编码区存在差异,可作该属植物的鉴别位点;系统发育结果中,大叶百两金和细柄百两金聚为一束,支持率为100%,表明两者亲缘关系较近。本研究对大叶百两金与细柄百两金叶绿体基因组结构和系统发育关系进行解析,为两者分子鉴别、遗传变异、育种以及系统发育分析等提供重要的理论依据。Ardisia crispa(Thunb.) A.DC.is a traditional Miao medicinal herb with significant therapeutic effects in the treatment of sore throat,tonsillitis,edema of nephritis and bruising and rheumatism,etc.Ardisia crispa var.amplifolia and Ardisia crispa var.dielsii are varieties of A.crispa.A.crispa var.amplifolia and A.crispa var.dielsii are controversial in terms of species evolutionary relationships and taxonomic identification.In this study,we sequenced the whole genome sequences of A.crispa var.amplifolia and A.crispa var.dielsii chloroplasts using Illumina platform,assembled,annotated and characterized them,compared the structural features and degree of variation among chloroplast genomes using bioinformatics methods,and also downloaded constructing phylogenetic trees to analyze the phylogenetic relationships of chloroplasts in Primulaceae and Myrsinaceae using whole genome sequence information.The results showed that the complete chloroplast genome sequences of A.crispa var.amplifolia and A.crispa var.dielsii were 156 749 bp and 156 748 bp in length,with 132 genes annotated,including 87protein-coding genes;the codon preference of A/U was greater than that of G/C;The differences in the coding regions of rps15 and rpoB genes in the comparative genome analysis can be used as loci for molecular identification of the two species;the differences in the coding regions of ycf1,ycf2,rpoC1,ycf3,petD and rpl16 genes in the chloroplast genome compared with those of the same genus can be used as loci for identification of the genus.In the phylogenetic results,A.crispa var.amplifolia and A.crispa var.dielsii were clustered together with 100%support,indicating that they are closely related.In this research,we analyzed the chloroplast genome structure and phylogenetic relationships of A.crispa var.amplifolia and A.crispa var.dielsii,providing an important theoretical basis for their molecular identification,genetic variation,breeding and phylogenetic analysis.

关 键 词：紫金牛属 大叶百两金 细柄百两金 叶绿体基因组 系统发育 

分 类 号：R931[医药卫生—生药学]