ArticlePlant physiology2013
Elucidating rice cell metabolism under flooding and drought stresses using flux-based modeling and analysis.
Article in Plant physiology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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29 citing papers in PubMed.
- Synthetic Biology of Plants and Microbes for Agriculture, Environment, and Future Applications.Chemical reviews · 2026Review
- Evaluating plant growth-defense trade-offs by modeling the interaction between primary and secondary metabolism.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- New insights in metabolism modelling to decipher plant-microbe interactions.The New phytologist · 2025Review
- A Guide to Metabolic Network Modeling for Plant Biology.Plants (Basel, Switzerland) · 2025Review
- The first multi-tissue genome-scale metabolic model of a woody plant highlights suberin biosynthesis pathways in Quercus suber.PLoS computational biology · 2023Article
- Review
- Elucidating the impact ofFrontiers in plant science · 2023Article
- COFrontiers in plant science · 2023Article
- Sandbur Drought Tolerance Reflects Phenotypic Plasticity Based on the Accumulation of Sugars, Lipids, and Flavonoid Intermediates and the Scavenging of Reactive Oxygen Species in the Root.International journal of molecular sciences · 2021Article
- Elucidating the Response of Crop Plants towards Individual, Combined and Sequentially Occurring Abiotic Stresses.International journal of molecular sciences · 2021Review
- Transcriptome integrated metabolic modeling of carbon assimilation underlying storage root development in cassava.Scientific reports · 2021Article
- SNPeffect: identifying functional roles of SNPs using metabolic networks.The Plant journal : for cell and molecular biology · 2020Article
- Deciphering rice metabolic flux reprograming under salinity stress viaComputational and structural biotechnology journal · 2020Article
- Understanding carbon utilization routes between high and low starch-producing cultivars of cassava through Flux Balance Analysis.Scientific reports · 2019Article
- Transcriptomic and metabolic flux analyses reveal shift of metabolic patterns during rice grain development.BMC systems biology · 2018Article
- Time-Course Transcriptomics Analysis Reveals Key Responses of Submerged Deepwater Rice to Flooding.Plant physiology · 2018Article
- A Dynamic Multi-Tissue Flux Balance Model Captures Carbon and Nitrogen Metabolism and Optimal Resource Partitioning During Arabidopsis Growth.Frontiers in plant science · 2018Article
- Reconstruction ofFrontiers in plant science · 2017Article
- Hydrogen sulfide enhances nitric oxide-induced tolerance of hypoxia in maize (Zea mays L.).Plant cell reports · 2016Article
- Flux Balance Analysis of Plant Metabolism: The Effect of Biomass Composition and Model Structure on Model Predictions.Frontiers in plant science · 2016Article
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Rice (Oryza sativa) is one of the major food crops in world agriculture, especially in Asia. However, the possibility of subsequent occurrence of flood and drought is a major constraint to its production. Thus, the unique behavior of rice toward flooding and drought stresses has required special attention to understand its metabolic adaptations. However, despite several decades of research investigations, the cellular metabolism of rice remains largely unclear. In this study, in order to elucidate the physiological characteristics in response to such abiotic stresses, we reconstructed what is to our knowledge the first metabolic/regulatory network model of rice, representing two tissue types: germinating seeds and photorespiring leaves. The phenotypic behavior and metabolic states simulated by the model are highly consistent with our suspension culture experiments as well as previous reports. The in silico simulation results of seed-derived rice cells indicated (1) the characteristic metabolic utilization of glycolysis and ethanolic fermentation based on oxygen availability and (2) the efficient sucrose breakdown through sucrose synthase instead of invertase. Similarly, flux analysis on photorespiring leaf cells elucidated the crucial role of plastid-cytosol and mitochondrion-cytosol malate transporters in recycling the ammonia liberated during photorespiration and in exporting the excess redox cofactors, respectively. The model simulations also unraveled the essential role of mitochondrial respiration during drought stress. In the future, the combination of experimental and in silico analyses can serve as a promising approach to understand the complex metabolism of rice and potentially help in identifying engineering targets for improving its productivity as well as enabling stress tolerance.
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