毛茛科植物叶绿体基因组结构变异及系统发育分析  

Structural Variation and Phylogenetic Analysis of Chloroplast Genome in Ranunculaceae

作　　者：王媛媛 白万富[1] 杨美青 Wang Yuanyuan;Bai Wanfu;Yang Meiqing(College of Pharmacy,Baotou Medical College of Inner Mongolia University of Science and Technology,Baotou,014040)

机构地区：[1]内蒙古科技大学包头医学院,药学院,包头014040

出　　处：《分子植物育种》2020年第21期7030-7043,共14页Molecular Plant Breeding

基　　金：包头医学院科研项目(BYJJ-YF201709,BYJJ-YF201706);内蒙古自治区高等学校“青年科技英才计划”(NJYT-18-B25)共同资助。

摘　　要：为了探究毛茛科植物的叶绿体基因组结构变异模式和属间系统发育关系,本研究利用生物信息学方法对NCBI上获取的毛茛科30个属33个物种叶绿体基因组结构变异进行了分析,同时以小檗科的大叶小檗Berberis amurensis Rupr.和Berberis aristate DC.为外类群,基于叶绿体基因组72个蛋白编码序列(coding sequence, CDS)和4个核糖体RNA (rRNA)序列利用Maximum likelihood (ML)法构建了毛茛科的系统发育树。结果显示,33个物种叶绿体基因组均为四分体结构,全基因组大小在151~164 kb左右;基因顺序和基因组结构出现一定的变异:在长瓣铁线莲(Clematis macropetala Ledeb.)、大火草(Anemone tomentosa (Maxim.)Pei)等8个物种中发现5种不同长度的倒位现象,其中铁线莲属(Clematis L.) 3个物种中同时检测到移位现象,10个基因(trnT-UGU, trnH-GUG, trnE-UUC, trnG-UCC, ycf15, rps16, rpl32, rpl16, infA和rps7)在至少1个物种中缺失;13个物种中反向重复区域(inverted repeat, IR)发生了扩张或收缩;利用毛茛科33个物种的叶绿体基因组序列所构建的系统发育树与之前的研究结果基本一致,部分存在相似结构变异的物种聚在同一分支。本研究结果表明叶绿体基因组信息及结构变异对系统发育分析具有重要的价值,可为植物的系统发育和进化研究提供依据。In order to explorethe structural variation and phylogenetic relationship among genera in Ranunculaceae,chloroplast genomes of 33 species from 30 genera of Ranunculaceae obtained from NCBI were compared and analyzed by bioinformatics method, and construct the phylogenetic tree with Maximum likelihood(ML) methods based on 72 coding sequences(coding sequence, CDS) and 4 ribosomal ribonucleic acids(rRNA) of chloroplast genomes as Berberis amurensis Rupr. and Berberis aristate DC. of Berberidaceae outgroups in this study. The results showed that the chloroplast genomes of 33 species were all quadripartite structures, the whole genome size was ranging from about 151~164 kb. There were some variations in gene order and genome structure. Five inversions of different length were detected in 8 species, including Clematis macropetala Ledeb. and Anemone tomentosa(Maxim.) Pei, among which 3 species of Clematis L. also had transpositions. 10 genes(trnT-UGU, trnH-GUG,trnE-UUC, trnG-UCC, ycf15, rps16, rpl32, rpl16, infA and rps7) are either absent in at least one species. The expansion or contraction of inverted repeat regions(inverted repeat, IR) was detected in the 13 species. Most phylogenetic relationships are consistent with previous studies. Some species of similar structural variation were clustered in to one clade with high bootstrap value. Conclusively, this study showed that the information and structural variation of chloroplast genome is significative for phylogenetic analysis, which can provide the basis for related fields.

关 键 词：毛茛科 叶绿体基因组 结构变异 系统发育 

分 类 号：Q943.2[生物学—植物学]