Drought stress responses in context-specific genome-scale metabolic models of arabidopsis thaliana

Ratklao Siriwach, Fumio Matsuda, Kentaro Yano, Masami Yokota Hirai

Research output: Contribution to journalArticle


Drought perturbs metabolism in plants and limits their growth. Because drought stress on crops affects their yields, understanding the complex adaptation mechanisms evolved by plants against drought will facilitate the development of drought-tolerant crops for agricultural use. In this study, we examined the metabolic pathways of Arabidopsis thaliana which respond to drought stress by omics-based in silico analyses. We proposed an analysis pipeline to understand metabolism under specific conditions based on a genome-scale metabolic model (GEM). Context-specific GEMs under drought and well-watered control conditions were reconstructed using transcriptome data and examined using metabolome data. The metabolic fluxes throughout the metabolic network were estimated by flux balance analysis using the context-specific GEMs. We used in silico methods to identify an important reaction contributing to biomass production and clarified metabolic reaction responses under drought stress by comparative analysis between drought and control conditions. This proposed pipeline can be applied in other studies to understand metabolic changes under specific conditions using Arabidopsis GEM or other available plant GEMs.

Original languageEnglish
Article number159
Issue number4
Publication statusPublished - Apr 2020



  • Arabidopsis
  • Drought
  • Flux balance analysis
  • Genome-scale metabolic model
  • Metabolism
  • Metabolome
  • Transcriptome

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