Arabidopsis Framework Model v2
Yin-Hoon Chew, Daniel Seaton, with help from Argyris Zardilis (University of Edinburgh)
Overview
| Model category | FSPM |
|---|---|
| Plant part | Shoot |
| Scale | Organs, Whole_plant |
| Licence | open_source |
| Operating system | Any |
| Programming language | Matlab |
| Format of model inputs and outputs | Text files |
| Species studied | Arabidopsis |
| Execution environment | Console |
| Modelling environment | FAIRDOMHub |
Scientific article
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The Arabidopsis Framework Model version 2 predicts the organism-level effects of circadian clock gene mis-regulationYin Hoon Chew, Daniel D. Seaton, Virginie Mengin, Anna Flis, Sam T. Mugford, Gavin M. George, Michael Moulin, Alastair Hume, Samuel C. Zeeman, Teresa B. Fitzpatrick, Alison M. Smith, Mark Stitt, Andrew J. Millar, 2017
View paper
Model description
Model of Arabidopsis rosette growth that is focussed on the contribution of the 24-hour, circadian clock. Detailed gene circuit model of the clock with TF outputs to hypocotyl elongation and flowering time. Simple C metabolism with clock-regulated starch degradation, controls growth, with individual leaf areas. Simple root as C sink.
Some case studies
Chew et al. 2017 preprint compares biomass growth of well-watered, nutrient-replete but light-limited WT and slow-clock mutant Arabidopsis (prr7prr9 double mutant).