title: Differential metabolomics unraveling light/dark regulation of metabolic activities in Arabidopsis cell culture.
abstract: Differential metabolomics based on a non-targeted FT-ICR/MS analysis demonstrated metabolite accumulation patterns reflecting light/dark conditions in Arabidopsis T87 cell culture. First, FT-ICR/MS data sets were converted into metabolome information using the Dr.DMASS software (http://kanaya.naist.jp/DrDMASS/). A quick search of a metabolite-species database, KNApSAcK (http://kanaya.naist.jp/KNApSAcK/), was implemented to assign metabolite candidates to each accurate MS data (<1 ppm) through the prediction of molecular formulas, and the candidate structures were further studied using MS/MS analyses. Specific metabolites representing the culture conditions included sugars, phenylpropanoid derivatives, flavonol aglycons, and a plastid nonmevalonate pathway intermediate. Transcriptomics data were obtained in parallel and analyzed using a transcriptome analysis tool, KaPPA-View (http://kpv.kazusa.or.jp/kappa-view/). The specific accumulation patterns of flavonol aglycons were in good agreement with the light/dark regulation of a cytochrome P450 gene, CYP75B, and the build-up of 2-C-methyl-D-erythritol 4-phosphate, a nonmevalonate pathway intermediate, in the light grown cells was also consistent with a gene expression profile. The differential metablomics scheme based on the FT-ICR/MS metabolomics can serve as an evaluation system of metabolic activities contributing to successful identification and proper manipulation of key enzymatic steps in metabolic engineering studies.
authors: Graduate School of Information Science, Nara Institute of Science and Technology, Takayama 8916-5, Ikoma, Nara, Japan.
authors: Yukiko
authors: Y
authors: Nakamura
authors: Atsuko
authors: A
authors: Kimura
authors: Hirohisa
authors: H
authors: Saga
authors: Akira
authors: A
authors: Oikawa
authors: Yoko
authors: Y
authors: Shinbo
authors: Kosuke
authors: K
authors: Kai
authors: Nozomu
authors: N
authors: Sakurai
authors: Hideyuki
authors: H
authors: Suzuki
authors: Masahiko
authors: M
authors: Kitayama
authors: Daisuke
authors: D
authors: Shibata
authors: Shigehiko
authors: S
authors: Kanaya
authors: Daisaku
authors: D
authors: Ohta
mesh_terms: D017360:Arabidopsis / Q000166:cytology / Q000235:genetics* / Q000378:metabolism*; D029681:Arabidopsis Proteins / Q000235:genetics* / Q000378:metabolism*; D002478:Cells, Cultured; D018506:Gene Expression Regulation, Plant / Q000528:radiation effects; D008027:Light; D013058:Mass Spectrometry; D008954:Models, Biological; D020411:Oligonucleotide Array Sequence Analysis; D020133:Reverse Transcriptase Polymerase Chain Reaction; D053719:Tandem Mass Spectrometry
chemical_list: D029681:Arabidopsis Proteins
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