Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five panax ginseng cultivars

Yun Sun Lee, Hyun Seung Park, Dong Kyu Lee, Murukarthick Jayakodi, Nam Hoon Kim, Sang Choon Lee, Atreyee Kundu, Dong Yup Lee, Young Chang Kim, Jun Gyo In, Sung Won Kwon, Tae Jin Yang

Research output: Contribution to journalArticle

7 Citations (Scopus)

Abstract

Background: Various Panax ginseng cultivars exhibit a range of diversity for morphological and physiological traits. However, there are few studies on diversity of metabolic profiles and genetic background to understand the complex metabolic pathway in ginseng. Methods: To understand the complex metabolic pathway and related genes in ginseng, we tried to conduct integrated analysis of primary metabolite profiles and related gene expression using five ginseng cultivars showing different morphology. We investigated primary metabolite profiles via gas chromatographyemass spectrometry (GC-MS) and analyzed transcriptomes by Illumina sequencing using adventitious roots grown under the same conditions to elucidate the differences in metabolism underlying such genetic diversity. Results: GC-MS analysis revealed that primary metabolite profiling allowed us to classify the five cultivars into three independent groups and the grouping was also explained by eight major primary metabolites as biomarkers. We selected three cultivars (Chunpoong, Cheongsun, and Sunhyang) to represent each group and analyzed their transcriptomes. We inspected 100 unigenes involved in seven primary metabolite biosynthesis pathways and found that 21 unigenes encoding 15 enzymes were differentially expressed among the three cultivars. Integrated analysis of transcriptomes and metabolomes revealed that the ginseng cultivars differ in primary metabolites as well as in the putative genes involved in the complex process of primary metabolic pathways. Conclusion: Our data derived from this integrated analysis provide insights into the underlying complexity of genes and metabolites that co-regulate flux through these pathways in ginseng.

Original languageEnglish (US)
Pages (from-to)60-68
Number of pages9
JournalJournal of Ginseng Research
Volume41
Issue number1
DOIs
StatePublished - Jan 1 2017

Fingerprint

Panax ginseng
Panax
adventitious roots
Gene Expression Profiling
Metabolites
transcriptomics
metabolites
cultivars
Metabolic Networks and Pathways
Transcriptome
Metabolome
biochemical pathways
unigenes
Genes
Spectrum Analysis
transcriptome
Spectrometry
Gases
spectroscopy
gases

Keywords

  • Adventitious root
  • Metabolome
  • Panax ginseng
  • Primary metabolic pathways
  • Transcriptome

ASJC Scopus subject areas

  • Biotechnology
  • Biochemistry, Genetics and Molecular Biology (miscellaneous)
  • Plant Science
  • Complementary and alternative medicine

Cite this

Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five panax ginseng cultivars. / Lee, Yun Sun; Park, Hyun Seung; Lee, Dong Kyu; Jayakodi, Murukarthick; Kim, Nam Hoon; Lee, Sang Choon; Kundu, Atreyee; Lee, Dong Yup; Kim, Young Chang; Gyo In, Jun; Kwon, Sung Won; Yang, Tae Jin.

In: Journal of Ginseng Research, Vol. 41, No. 1, 01.01.2017, p. 60-68.

Research output: Contribution to journalArticle

Lee, YS, Park, HS, Lee, DK, Jayakodi, M, Kim, NH, Lee, SC, Kundu, A, Lee, DY, Kim, YC, Gyo In, J, Kwon, SW & Yang, TJ 2017, 'Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five panax ginseng cultivars', Journal of Ginseng Research, vol. 41, no. 1, pp. 60-68. https://doi.org/10.1016/j.jgr.2015.12.012
Lee, Yun Sun ; Park, Hyun Seung ; Lee, Dong Kyu ; Jayakodi, Murukarthick ; Kim, Nam Hoon ; Lee, Sang Choon ; Kundu, Atreyee ; Lee, Dong Yup ; Kim, Young Chang ; Gyo In, Jun ; Kwon, Sung Won ; Yang, Tae Jin. / Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five panax ginseng cultivars. In: Journal of Ginseng Research. 2017 ; Vol. 41, No. 1. pp. 60-68.
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AU - Kim, Nam Hoon

AU - Lee, Sang Choon

AU - Kundu, Atreyee

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