摘要
目的获得白鲜Dictamnus dasycarpus根转录组信息特征。方法以白鲜根为研究对象,采用Illumina HiSeq TM 2000150PE进行高通量转录组测序并进行数据分析。结果转录组测序共获得69 643 286条高质量序列(clean reads),Trinity denovo组装获得49 050条unigenes,平均长度841 nt。BLAST分析显示分别有31 636(64.49%)、22 367(45.60%)、19 246(39.23%)、12 595(25.68%)条unigenes在NR、Swiss-port、KOG、KEGG数据库得到注释信息,可归为GO分类的生物过程、细胞组分和分子功能3大类42分支,涉及132个KEGG标准代谢通路,其中包括18个次生代谢标准通路。进一步分析获得90个基因参与多种生物碱生物合成通路。蛋白编码框序列1 908个,高等植物转录因子55个家族;借助MISA软件发现4 579个SSRs,三碱基重复最丰富,有2 021个,出现频率为44.1%;五碱基重复SSRs仅占3.5%。结论利用高通量测序技术获得白鲜根转录组信息特征,为后期白鲜基因功能鉴定、次生代谢途径解析及其调控机制研究奠定基础。
Objective To obtain the transcriptome dataset of roots of Dictamnus dasycarpus.Methods The root transcriptome dataset ofD.dasycarpus was obtained using the high-throughput sequencing platform Illumina HiSeq^TM 2000150PE,followed by systemic bioinformatics analyses.Results A great number of 69643286high quality clean reads were obtained by the transcriptome sequencing analyses.Using Trinity de novo assembling,a total of 49050unigenes were finally obtained,with an average length of 841 nt.BLAST analysis indicated that 31636(accounting 64.49%of the total unigenes),22367(45.60%),19246(39.23%),12595 (25.68%)unigenes were successfully annotated in the NR,Swiss-port,KOG;and KEGG databases,respectively.And GO classification contained the basic three major groups,including biological process,cellular component,and molecular function with-42subgroups.A total of 132KEGG standard metabolic pathways were designated,18of which were defied as the secondary metabolism.Further analysis revealed that a total of 90unigenes were involved in the biosynthesis of various alkaloids.Of all unigenes,1908were predicted to have CDS,and 55families of plant transcription factors were also identified.Using MISA prediction,4579simple sequence repeats (SSRs)were obtained,among which the tri-nucleotide SSRs were abundant with 2021(44.1%),whereas the penta-nucleotide SSRs accounted for 3.5%.Conclusion The root transcriptome of D.dasycarpus revealed by the high-throughput sequencing technology will be important for gene functional characterization,secondary metabolism pathway exploration,and regulation mechanism research in this species.
作者
李依民
张化为
陈莹
张明英
刘阿萍
宋小妹
杨新杰
张岗
LI Yi-min;ZHANG Hua-wei;CHEN Ying;ZHANG Ming-ying;LIU A-ping;SONG Xiao-mei;YANG Xin-jie;ZHANG Gang(Shaanxi Key Laboratory of Basis &New Drugs Research of Chinese Medicine,College of Pharmacy,Shaanxi University of Chinese Medicine,Xi'an 7120,46,China)
出处
《中草药》
CAS
CSCD
北大核心
2018年第21期4975-4982,共8页
Chinese Traditional and Herbal Drugs
基金
陕西省教育厅专项(18JK0216)
陕西省教育厅科学研究项目(17JK0215)
陕西中医药大学新进博士科研启动经费(104080001)
陕西省高校青年杰出人才支持计划项目
陕西省科技厅社发攻关项目(2013K14-03-08)
咸阳市中青年科技领军人才项目
关键词
白鲜
转录组
功能基因
代谢通路
简单重复序列
Dictamnus dasycarpus Turcz.
transcriptome
functional unigenes
metabolism pathway
simple sequence repeats
