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Transcriptome analysis of leaves, roots and flowers of Panax notoginseng identifies genes involved in ginsenoside and alkaloid biosynthesis
Ming-Hua Liu1; Bin-Rui Yang3; Wai-Fung Cheung4,6; Kevin Yi Yang1,2; He-Feng Zhou3; Jamie Sui-Lam Kwok1; Guo-Cheng Liu4; Xiao-Feng Li4; Silin Zhong5; Simon Ming-Yuen Lee3; Stephen Kwok-Wing Tsui1,2
2015-04-03
Source PublicationBMC Genomics
ISSN14712164
Volume16Issue:1
Abstract

Background: Panax notoginseng (Burk.) F.H. Chen is one of the most highly valued medicinal plants in the world. The major bioactive molecules are triterpene saponins, which are also known as ginsenosides. However, its large genome size has hindered the assembly of a draft genome by whole genome sequencing. Hence, genomic and transcriptomic details about P. notoginseng, especially its biosynthetic pathways and gene expression in different parts of the plant, have remained largely unknown until now. Results: In this study, RNA sequencing of three different P. notoginseng tissues was performed using next generation DNA sequencing. After assembling the high quality sequencing reads into 107,340 unigenes, biochemical pathways were predicted and 9,908 unigenes were assigned to 135 KEGG pathways. Among them, 270 unigenes were identified to be involved in triterpene saponin biosynthesis. In addition, 350 and 342 unigenes were predicted to encode cytochrome P450s and glycosyltransferases, respectively, based on the annotation results, some of which encode enzymes responsible for the conversion of the triterpene saponin backbone into different ginsenosides. In particular, one unigene predominately expressed in the root was annotated as CYP716A53v2, which probably participates in the formation of protopanaxatriol from protopanaxadiol in P. notoginseng. The differential expression of this gene was further confirmed by real-time PCR. Conclusions: We have established a global transcriptome dataset for P. notoginseng and provided additional genetic information for further genome-wide research and analyses. Candidate genes involved in ginsenoside biosynthesis, including putative cytochrome P450s and glycosyltransferases were obtained. The transcriptomes in different plant tissues also provide invaluable resources for future study of the differences in physiological processes and secondary metabolites in different parts of P. notoginseng.

KeywordGinsenosides Panax Notoginseng Transcriptome
DOI10.1186/s12864-015-1477-5
URLView the original
Language英语
WOS Research AreaBiotechnology & Applied Microbiology ; Genetics & Heredity
WOS SubjectBiotechnology & Applied Microbiology ; Genetics & Heredity
WOS IDWOS:000353012500001
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Cited Times [WOS]:44   [WOS Record]     [Related Records in WOS]
Document TypeJournal article
CollectionInstitute of Chinese Medical Sciences
Affiliation1.School of Biomedical Sciences, The Chinese University of Hong Kong, Hong Kong, China
2.Hong Kong Bioinformatics Centre, The Chinese University of Hong Kong, Hong Kong, China
3.State Key Laboratory of Quality Research in Chinese Medicine and Institute of Chinese Medical Sciences, Macao, China
4.Beijing Genomics Institute - Shenzhen, Shenzhen, 518083, China
5.The State Key Laboratory of Agrobiotechnolgy, The School of Life Sciences, The Chinese University of Hong Kong, Hong Kong, China
6.Present correspondence: Groken Bioscience, Hong Kong, China
Recommended Citation
GB/T 7714
Ming-Hua Liu,Bin-Rui Yang,Wai-Fung Cheung,et al. Transcriptome analysis of leaves, roots and flowers of Panax notoginseng identifies genes involved in ginsenoside and alkaloid biosynthesis[J]. BMC Genomics,2015,16(1).
APA Ming-Hua Liu.,Bin-Rui Yang.,Wai-Fung Cheung.,Kevin Yi Yang.,He-Feng Zhou.,...&Stephen Kwok-Wing Tsui.(2015).Transcriptome analysis of leaves, roots and flowers of Panax notoginseng identifies genes involved in ginsenoside and alkaloid biosynthesis.BMC Genomics,16(1).
MLA Ming-Hua Liu,et al."Transcriptome analysis of leaves, roots and flowers of Panax notoginseng identifies genes involved in ginsenoside and alkaloid biosynthesis".BMC Genomics 16.1(2015).
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