De novo assembly and comparative analysis of root transcriptomes from   different varieties of Panax ginseng C. A. Meyer grown in different   environments

doi:10.1007/s11427-015-4961-x

CORC > 北京大学 > 生命科学学院

	De novo assembly and comparative analysis of root transcriptomes from different varieties of Panax ginseng C. A. Meyer grown in different environments
	Zhen Gang ; Zhang Lei ; Du YaNan ; Yu RenBo ; Liu XinMin ; Cao FangRui ; Chang Qi ; Deng XingWang ; Xia Mian ; He Hang
刊名	SCIENCE CHINA-LIFE SCIENCES
	2015
关键词	Panax ginseng de novo assembly paired-end sequencing comparative transcriptome analysis ginsenoside biosynthesis disease resistance genes EXPRESSION ANALYSIS BIOSYNTHETIC GENES ADVENTITIOUS ROOTS REPEAT PROTEINS GINSENOSIDES RECONSTRUCTION PLATFORM GENOME SERVER PLANTS
DOI	10.1007/s11427-015-4961-x
英文摘要	Panax ginseng C. A. Meyer is an important traditional herb in eastern Asia. It contains ginsenosides, which are primary bioactive compounds with medicinal properties. Although ginseng has been cultivated since at least the Ming dynasty to increase production, cultivated ginseng has lower quantities of ginsenosides and lower disease resistance than ginseng grown under natural conditions. We extracted root RNA from six varieties of fifth-year P. ginseng cultivars representing four different growth conditions, and performed Illumina paired-end sequencing. In total, 163,165,706 raw reads were obtained and used to generate a de novo transcriptome that consisted of 151,763 contigs (76,336 unigenes), of which 100,648 contigs (66.3%) were successfully annotated. Differential expression analysis revealed that most differentially expressed genes (DEGs) were upregulated (246 out of 258, 95.3%) in ginseng grown under natural conditions compared with that grown under artificial conditions. These DEGs were enriched in gene ontology (GO) terms including response to stimuli and localization. In particular, some key ginsenoside biosynthesis-related genes, including HMG-CoA synthase (HMGS), mevalonate kinase (MVK), and squalene epoxidase (SE), were upregulated in wild-grown ginseng. Moreover, a high proportion of disease resistance-related genes were upregulated in wild-grown ginseng. This study is the first transcriptome analysis to compare wild-grown and cultivated ginseng, and identifies genes that may produce higher ginsenoside content and better disease resistance in the wild; these genes may have the potential to improve cultivated ginseng grown in artificial environments.; International Science and Technology Cooperation of China [2011DFA32730]; SCI(E); PubMed; 中国科学引文数据库(CSCD); ARTICLE; deng@pku.edu.cn; xm@frontier-ag.com; hehang@pku.edu.cn; 11; 1099-1110; 58
语种	英语
内容类型	期刊论文
源URL	[http://ir.pku.edu.cn/handle/20.500.11897/416819]
专题	生命科学学院
推荐引用方式 GB/T 7714	Zhen Gang,Zhang Lei,Du YaNan,et al. De novo assembly and comparative analysis of root transcriptomes from different varieties of Panax ginseng C. A. Meyer grown in different environments[J]. SCIENCE CHINA-LIFE SCIENCES,2015.
APA	Zhen Gang.,Zhang Lei.,Du YaNan.,Yu RenBo.,Liu XinMin.,...&He Hang.(2015).De novo assembly and comparative analysis of root transcriptomes from different varieties of Panax ginseng C. A. Meyer grown in different environments.SCIENCE CHINA-LIFE SCIENCES.
MLA	Zhen Gang,et al."De novo assembly and comparative analysis of root transcriptomes from different varieties of Panax ginseng C. A. Meyer grown in different environments".SCIENCE CHINA-LIFE SCIENCES (2015).