欧地笋叶绿体全基因组序列特征及其系统发育分析  

Characterization and phylogenetic analysis of the complete chloroplast genome of Lycopus europaeus

作　　者：杜清 王立强 陈卓尔 姜梅 陈海梅 曾晶 王彬 刘昶 DU Qing;WANG Li-qiang;CHEN Zhuo-er;JIANG Mei;CHEN Hai-mei;ZENG Jing;WANG Bin;LIU Chang(Key Laboratory of Medicinal Plant Resources of Qinghai-Tibetan Plateau in Qinghai Province,College of Pharmacy,Qinghai Minzu University,Xining 810007,China;Institute of Medicinal Plant Development,Chinese Academy of Medical Sciences and Peking Union Medical College,Beijing 100193,China;Fresh Sky-Right(Beijing)International Science and Technology Co.Ltd.,Beijing 100097,China;College of Pharmacy,Heze University,Heze 274015,China;College of Pharmacy,Xiangnan University,Chenzhou 423099,China;School of Pharmaceutical Sciences,Qilu University of Technology(Shandong Academy of Sciences),Jinan 250200,China)

机构地区：[1]青海民族大学药学院,青海省青藏高原植物化学重点实验室,青海西宁810007 [2]中国医学科学院、北京协和医学院药用植物研究所生物信息中心,北京100193 [3]清新天正(北京)国际科技有限责任公司,北京100097 [4]菏泽学院药学院,山东菏泽274015 [5]湘南学院药学院,湖南郴州423099 [6]齐鲁工业大学药学院,山东济南250200

出　　处：《药学学报》2022年第7期2206-2215,共10页Acta Pharmaceutica Sinica

基　　金：中国医学科学院医学与健康科技创新工程(2021-I2M-1-022);国家科技基础资源调查专项(2018FY100705);国家自然科学基金项目(81872966);青海省青藏高原植物化学重点实验室(2020-ZJ-Y20);湖南省教育厅重点科研项目(20A467);湖南省技术创新引导计划项目(2018SK52001)。

摘　　要：研究欧地笋Lycopus europaeus Linn.叶绿体基因组的结构特征,比较与欧地笋具有相近药理作用和临床功效的唇形科物种的系统进化关系。利用Illumina Hiseq 4000测序平台对欧地笋全基因组DNA进行测序、使用NOVOplasty组装了完整的叶绿体基因组,然后用CPGAVAS2软件对叶绿体基因组进行注释和特征分析。以瑞香狼毒(Stellera chamaejasme)和委陵菜(Potentilla chinensis)为外类群,构建系统进化树,分析唇形科中与欧地笋具有相近功效的物种之间的系统发育关系。结果表明,欧地笋叶绿体基因组全长152085 bp,注释得到132个基因,包括88个蛋白编码基因、8个rRNA基因和36个tRNA基因,其中8个蛋白质编码基因(ndhB、rps7、rps12、rps19、rpl2、rpl23、ycf2、ycf15)、7种tRNA编码基因(trnM-CAU、trnL-CAA、trnN-GUU、trnE-UUC、trnV-GAC、trnA-UGC、trnR-ACG)、4个rRNA编码基因(rrn16S、rrn23S、rrn4.5S、rrn5S)位于IR区。其中13个蛋白质编码基因[rps16、rps19(×2)、atpF、rpoC1、rpl2(×2)、petB、petD、rpl16、ndhB(×2)、ndhA]各含有1个内含子(intron),2个蛋白质编码基因(ycf3、clpP)各含有2个内含子,8个tRNA编码基因各含有1个内含子;共检测到34个SSR序列,其中A/T、AT/AT为重复单元的占91.18%,说明SSR偏好使用A和T碱基。系统发育分析显示欧地笋与硬毛地笋、青兰属的四个物种、活血丹、薄荷属的两个物种、夏枯草共计10个植物的亲缘关系最近。由此,研究中获得并分析了完整欧地笋叶绿体基因组的序列特征,明确了欧地笋与唇形科物种间的系统发育亲缘关系。We intend to study the structural characteristics of Lycopus europaeus Linn.chloroplast genome and compare the evolutionary relationship of species from Lamiaceae with similar medicinal effects.The total DNA of Lycopus europaeus was sequenced using the Illumina Hiseq 4000 Sequencing platform and was assembled using NOVOplasty software.And then we annotated and analyzed the genome using the CPGAVAS2 online tool.We constructed the phylogenetic tree using the Stellera chamaejasme and Potentilla chinensis as the outgroup.The whole length of Lycopus europaeus chloroplast genome was 152085 bp.A total of 132 genes were annotated including 88 protein-coding genes,8 rRNA genes and 36 tRNA genes.Among them,8 protein-coding genes(ndhB,rps7,rps12,rps19,rpl2,rpl23,ycf2,ycf15),7 tRNA coding genes(trnM-CAU,trnL CAA,trnN-GUU,trnE-UUC,trnV-GAC,trnA-UGC,trnR-ACG)and 4 rRNA coding genes(rrn16s,rrn23s,rrn4.5s,rrn5s)are located in the IR region.There are 13 protein coding genes[rps16,rps19(×2),atpF,rpoC1,rpl2(×2),petB,petD,rpl16,ndhB(×2),ndhA]each contains one intron,two protein-coding genes(ycf3,clpP)each contain two introns,and 8 tRNA coding genes each contain one intron.A total of 34 SSRs were detected in the chloroplast genome of Lycopus europaeus.Phylogenetic analysis revealed that two species in the Lycopus genus,four species in the Dracocephalum genus,Glechoma longituba,two species in the Mentha genus and Prunella vulgari,in total 10 species are most related.The complete genome sequence of Lycopus europaeus was obtained and analyzed,which clarified the evolutional relationship between the species of Lycopus europaeus and in the Lamiaceae family.

关 键 词：唇形科 欧地笋 硬毛地笋 叶绿体基因组 序列特征 重复序列 系统发育 

分 类 号：R931[医药卫生—生药学]