摘要
目的:利用高通量测序技术分析肇实转录组信息。方法:采用高通量测序平台Illumina HiSeq 2500对肇实植株的叶片和叶柄进行混合转录组测序,利用转录组分析软件进行组装、注释和遗传标记开发。结果:通过测序和分析,共得到54 088 858个原始Reads,总长8 113 328 700 bp,经过滤、除杂后得到52 831 334个Clean Reads,总长7 285 427 215 bp。肇实转录组中GC含量49.71%,通过de novo组装并去冗余,获得190 889个Unigenes,N50为541 bp。与九大功能数据库比对和分析,共有89 555条约46.91%的Unigenes获得信息注释,其中3 288条基因在9个数据库中均能注释。在GO功能注释分为3大类,分别为20、26、22亚类(共68个亚类);在KEGG数据库中共发现216条代谢通路;KOG中按功能分为25个子类,获得49 976个功能注释信息。共检测到55类、24 917个植物转录因子;根据组装结果,共检测到44 584个SNP位点,7 386个InDel。结论:肇实转录组数据量大,遗传信息丰富,本研究可为深入解析肇实遗传背景、开展其功能基因组分析、分子标记开发、代谢组学研究提供参考,为肇实的综合利用与保护打下基础。
Objective:To study the transcriptome information of Euryale ferox in Zhaoqing by high throughput sequencing.Methods:Mixed transcriptome sequencing was performed on the leaves and petioles of Euryale ferox in Zhaoqing using Illumina HiSeq 2500,a high-throughput sequencing platform.Transcriptome analysis software was used for assembly,annotation and genetic marker development.Results:A total of 54 088 858 original Reads and 8 113 328 700 bp were obtained by sequencing and analysis.After filtration and impurity removal,52 831 334 Clean Reads and 7 285 427 215 bp were obtained.The content of GC in the transcriptome of Euryale ferox in Zhaoqing was 49.71%.Through de novo assembly,190 889 Unigenes were obtained with N50 of 541 bp.Compared and analyzed with nine major functional databases,a total of 89 555 pieces of about 46.91% Unigenes obtained information annotation,among them,3 288 genes were annotated in 9 databases.GO function notes were divided into three categories,namely 20,26 and 22 subclasses(68 subclasses in total).A total of 216 metabolic pathways were found in KEGG database.KOG was divided into 25 subclasses according to function and 49 976 function annotation informations were obtained.Fifty-five classes and 24 917 plant transcription factors were detected.According to the assembly results,a total of 44 584 SNP loci,7 386 InDel were detected.Conclusion:The tracscriptome of Euryale ferox in Zhaoqing has large amount of date and rich genetic information.The study can providea basic for in-depth analysis of its genetic background,functional genome analysis,molecular marker development and metabolomics research,and lay a foundation for comprehensive utilization and protection of Euryale ferox in Zhaoqing.
作者
王继华
黎俊荣
蔡时可
邓沛飞
钟春燕
刘晓津
WANG Ji-hua;LI Jun-rong;CAI Shi-ke;DENG Pei-fei;ZHONG Chun-yan;LIU Xiao-jin(Crop Research Institute,Guangdong Academy of Agriculture Sciences,Guangzhou 510640,China;Zhaoqing Research Institute of Agriculture Sciences,Zhaoqing 526070,China)
出处
《中药材》
CAS
北大核心
2019年第11期2513-2518,共6页
Journal of Chinese Medicinal Materials
基金
优势特色农作物品种保护与开发利用(粤农计[2017]42号)
广东省农作物种质资源库(圃)建设与资源收集保存鉴评项目([2018]36号)
广东省肇庆市高要区南药产业园项目
关键词
肇实
转录组分析
基因注释
EST-SSR
Euryale ferox Salisb.
Transcriptome analysis
Gene annotation
EST-SSR
作者简介
王继华(1979-),男,硕士,副研究员,主要从事南药栽培与育种研究,E-mail:wangjihua@gdaas.cn。;通讯作者:刘晓津,E-mail:liuxiaojin@gdaas.cn。
