A Dynamic Multi-Tissue Flux Balance Model Captures Carbon and Nitrogen Metabolism and Optimal Resource Partitioning During Arabidopsis Growth

Frontiers in Plant Science
Rahul Shaw, C Y Maurice Cheung

Abstract

Plant metabolism is highly adapted in response to its surrounding for acquiring limiting resources. In this study, a dynamic flux balance modeling framework with a multi-tissue (leaf and root) diel genome-scale metabolic model of Arabidopsis thaliana was developed and applied to investigate the reprogramming of plant metabolism through multiple growth stages under different nutrient availability. The framework allowed the modeling of optimal partitioning of resources and biomass in leaf and root over diel phases. A qualitative flux map of carbon and nitrogen metabolism was identified which was consistent across growth phases under both nitrogen rich and limiting conditions. Results from the model simulations suggested distinct metabolic roles in nitrogen metabolism played by enzymes with different cofactor specificities. Moreover, the dynamic model was used to predict the effect of physiological or environmental perturbation on the growth of Arabidopsis leaves and roots.

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Citations

Mar 31, 2019·The New Phytologist·Guillaume Tcherkez, Anis M Limami
Apr 19, 2019·Journal of Experimental Botany·Helena A HerrmannGiles N Johnson
Nov 22, 2019·Cellular and Molecular Life Sciences : CMLS·Rahul Shaw, C Y Maurice Cheung
Nov 27, 2019·Cellular and Molecular Life Sciences : CMLS·Pascal Holzheu, Ursula Kummer
Feb 6, 2020·Annual Review of Plant Biology·Teresa J ClarkJorg Schwender
Jan 28, 2020·The Plant Journal : for Cell and Molecular Biology·Sanu ShameerLee J Sweetlove
Jul 30, 2020·Metabolites·Svetlana VolkovaIgor Marín de Mas
Oct 2, 2020·The Plant Journal : for Cell and Molecular Biology·Sandra M CorreaZoran Nikoloski
Feb 14, 2020·The Plant Journal : for Cell and Molecular Biology·Bedrich BenesMatthew J Turk
Jan 26, 2021·Biochemical Society Transactions·Nadine Töpfer
Feb 6, 2021·Emerging Topics in Life Sciences·Megan L Matthews, Amy Marshall-Colón
Jul 9, 2020·Progress in Lipid Research·Sandra M CorreaYariv Brotman
May 4, 2021·Frontiers in Plant Science·Armida GjindaliPablo I Calzadilla
Sep 3, 2021·Computational and Structural Biotechnology Journal·Ankur SahuNadine Töpfer
Oct 27, 2021·The Plant Journal : for Cell and Molecular Biology·Sanu ShameerLee J Sweetlove

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Software Mentioned

AraCyc
AraGEM
COBRAPy

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