摘要
为探究藏药细果角茴香转录组中简单重复序列位点信息,本研究利用Illumina HiSeqTM 2500高通量测序平台,RNA-Seq测序技术对藏药细果角茴香植株进行测序,并采用生物信息学MISA数据分析进行拼接后查找SSR位点。细果角茴香转录组测序共获得27979个重复单元长度为2~6个碱基的微卫星重复序列,总的SSR碱基数为142108085 bp,平均每3.1 kb出现1个SSR位点。细果角茴香SSR中主要重复单元类型为三碱基,占SSR总数的68.34%,在统计的213种重复类型中(AAG/CTT)n所占比例最高为(7773,27.78%),其次是(AG/CT)n(4735,16.92%)和(ATC/ATG)n(2420,8.65%),藏药细果角茴香转录组中SSR位点分布频率较高,重复单元类型丰富。研究首次基于细果角茴香转录组高通量测序数据开发了SSR分子标记,为细果角茴香遗传连锁图谱、DNA指纹图谱、遗传多样性评价、种植资源收集与鉴定和分子标记辅助育种等工作提供了科学基础。
In order to explore the information of the simple repetitive sequence sites in the transcriptme of Hypecoum leptocarpum Hook.f.et Thoms,this study used the Illumina HiSeqTM2500 high-throughput sequencing platform and RNA-Seq sequencing technology to sequence the Hypecoum leptocarpum Hook.f.et Thoms,and used biological informatics MISA data analysis is performed to find SSR after splicing.A total of 27979 microsatellite repeats with a length of 2 to 6 bases were sequenced from the transcriptome of H.leptocarpum.The total number of SSR bases was 142108085 bp,with an average of 1 SSR site per 3.1 kb.The main repeat unit type of H.leptocarpum SSR is trinucleotide,accounting for 68.34%of the total number of SSRs.Among the 213 repeat types,(AAG/CTT)n accounts for the highest proportion(7773,27.78%),followed by(AG/CT)n(4735,16.92%)and(ATC/ATG)n(2420,8.65%),the distribution of SSR microdots in the transcriptome of the H.leptocarpum is high,and the types of repeating units are abundant.In this study,SSR molecular markers were developed for the first time based on high-throughput sequencing data from the transcriptome of H.leptocarpum,which is providing a scientific basis for the genetic linkage maps,DNA fingerprints,evaluation of genetic diversity,collection and identification of plant resources,and molecular marker-assisted breeding.
作者
张晶
文怀秀
王卫东
邵赟
梅丽娟
陶燕铎
Zhang Jing;Wen Huaixiu;Wang Weidong;Shao Yun;Mei Lijuan;Tao Yanduo(Key Laboratory of Tibetan Medicine Research,Chinese Academy of Sciences,Northwest Institute of Plateau Biology,Chinese Academy of Sciences,Xining,810008;University of Chinese Academy of Sciences,Beijing,100049)
出处
《分子植物育种》
CAS
北大核心
2021年第18期6105-6110,共6页
Molecular Plant Breeding
基金
青海省应用基础研究项目(2018-ZJ-745)
中国科学院“西部青年学者”A类项目(2017)共同资助。
关键词
细果角茴香
RNA-Seq技术
转录组
SSR标记
生物信息
Hypecoum leptocarpum Hook.f.et Thoms
RNA-Seq technology
Transcriptome
SSR markers
Biological information
