UPLC-QTOFMS based metabolomics followed by stepwise partial least square-discriminant analysis (PLS-DA) explore the possible relation between the variations in secondary metabolites and the phylogenetic divergences of the genus Panax

Huy Truong Nguyen, Dong Kyu Lee, Won Jun Lee, GwangJin Lee, Sang Jun Yoon, Byong kyu Shin, Minh Duc Nguyen, Jeong Hill Park, Jeongmi Lee, Sung Won Kwon

Research output: Contribution to journalArticle

8 Citations (Scopus)

Abstract

Phylogenetic and metabolomic approaches have long been employed to study evolutionary relationships among plants. Nonetheless, few studies have examined the difference in metabolites within a clade and between clades of the phylogenetic tree. We attempted to relate phylogenetic studies to metabolomics using stepwise partial least squares-discriminant analysis (PLS-DA) for the genus Panax. Samples were analyzed by ultra-performance liquid chromatography-quadrupole time of flight mass spectrometry (UPLC-QTOFMS) to obtain metabolite profiles. Initially, conventional principal component analysis was subsequently applied to the metabolomic data to show the limitations in relating the expression of metabolites to divisions in the phylogenetic tree. Thereafter, we introduced stepwise PLS-DA with optimized scaling methods, which were properly applied according to the branches of the phylogenetic tree of the four species. Our approach highlighted metabolites of interest by elucidating the directions and degrees of metabolic alterations in each clade of the phylogenetic tree. The results revealed the relationship between metabolic changes in the genus Panax and its species' evolutionary adaptations to different climates. We believe our method will be useful to help understand the metabolite-evolution relationship.

Original languageEnglish (US)
Pages (from-to)61-68
Number of pages8
JournalJournal of Chromatography B: Analytical Technologies in the Biomedical and Life Sciences
Volume1012-1013
DOIs
StatePublished - Feb 15 2016

Fingerprint

Panax
Metabolomics
Liquid chromatography
Discriminant Analysis
Discriminant analysis
Metabolites
Least-Squares Analysis
Liquid Chromatography
Mass spectrometry
Mass Spectrometry
Principal Component Analysis
Climate
Principal component analysis

Keywords

  • Genus Panax
  • Metabolomics
  • Phylogenetic mapping
  • Secondary metabolites
  • Stepwise partial least square-discriminant analysis

ASJC Scopus subject areas

  • Biochemistry
  • Analytical Chemistry
  • Cell Biology
  • Clinical Biochemistry

Cite this

UPLC-QTOFMS based metabolomics followed by stepwise partial least square-discriminant analysis (PLS-DA) explore the possible relation between the variations in secondary metabolites and the phylogenetic divergences of the genus Panax. / Nguyen, Huy Truong; Lee, Dong Kyu; Lee, Won Jun; Lee, GwangJin; Yoon, Sang Jun; Shin, Byong kyu; Nguyen, Minh Duc; Park, Jeong Hill; Lee, Jeongmi; Kwon, Sung Won.

In: Journal of Chromatography B: Analytical Technologies in the Biomedical and Life Sciences, Vol. 1012-1013, 15.02.2016, p. 61-68.

Research output: Contribution to journalArticle

Nguyen, Huy Truong ; Lee, Dong Kyu ; Lee, Won Jun ; Lee, GwangJin ; Yoon, Sang Jun ; Shin, Byong kyu ; Nguyen, Minh Duc ; Park, Jeong Hill ; Lee, Jeongmi ; Kwon, Sung Won. / UPLC-QTOFMS based metabolomics followed by stepwise partial least square-discriminant analysis (PLS-DA) explore the possible relation between the variations in secondary metabolites and the phylogenetic divergences of the genus Panax. In: Journal of Chromatography B: Analytical Technologies in the Biomedical and Life Sciences. 2016 ; Vol. 1012-1013. pp. 61-68.
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