FAIRDOMHubModelsAndrew Millarhttps://fairdomhub.org/models/247?version=1Matlab packageUniversity of EdinburghFAIRDOMHubUnderstanding how dynamic molecular networks affect whole-organism physiology, analogous to mapping genotype to phenotype, remains a key challenge in biology. Quantitative models that represent processes at multiple scales and link understanding from several research domains can help to tackle this problem. Such integrated models are more common in crop science and ecophysiology than in the research communities that elucidate molecular networks. Several laboratories have modeled particular aspects of growth in Arabidopsis thaliana, but it was unclear whether these existing models could productively be combined. We test this approach by constructing a multiscale model of Arabidopsis rosette growth. Four existing models were integrated with minimal parameter modification (leaf water content and one flowering parameter used measured data). The resulting framework model links genetic regulation and biochemical dynamics to events at the organ and whole-plant levels, helping to understand the combined effects of endogenous and environmental regulators on Arabidopsis growth. The framework model was validated and tested with metabolic, physiological, and biomass data from two laboratories, for five photoperiods, three accessions, and a transgenic line, highlighting the plasticity of plant growth strategies. The model was extended to include stochastic development. Model simulations gave insight into the developmental control of leaf production and provided a quantitative explanation for the pleiotropic developmental phenotype caused by overexpression of miR156, which was an open question. Modular, multiscale models, assembling knowledge from systems biology to ecophysiology, will help to understand and to engineer plant behavior from the genome to the field.Multiscale digital Arabidopsis predicts individual organ and whole-organism growth.Chew Yin Hoon YH, Wenden Bénédicte B, Flis Anna A, Mengin Virginie V, Taylor Jasper J, Davey Christopher L CL, Tindal Christopher C, Thomas Howard H, Ougham Helen J HJ, de Reffye Philippe P, Stitt Mark M, Williams Mathew M, Muetzelfeldt Robert R, Halliday Karen J KJ, Millar Andrew J AJChew, Masticate., Mastication, Chewingorgan, multi-cellular organism, whole organism, postnatal development., growth pattern, Cresses, body, A., non-developmental growth, Arabidopsis thaliana, Mouse-ear Cress, postnatal growth, thaliana, whole body, A. thaliana, growth and development, Mouse-ear Cresses, Mouse-ear, Cardaminopsis, element, development, organism, Arabidopsis, Arabidopsis thalianas, anatomical unit, A. thalianas, body organ, Koerper, thalianas, Cress, species, Mouse ear, Arabidopses, animal, growthChew, Masticate., Mastication, ChewinghLuc7A, Regulations, scale tissue, multi-cellular organism, Activity, single-organism developmental process, watermelon stomach, Laboratory, Processes, P62, A., Pflanze, postnatal development, number, LUC7A, growth and development, sci, Measure, presence, dIKK-gamma, Arabis thaliana, Social Controls, prevention, Cardaminopsis, element, viridiplantae, Readability, organ field, Arabidopsis thalianas, exact), GAVE, DmIKK-gamma, A. thalianas, thalianas, HOW, How, Mood, field, dmIKKgamma, Research Activity, IKK[[gamma]], animal, Laboratory Research, Watermelon stomach (disorder), prevention and control, Formal Social Controls, l(3)j5D5, IKKg, RGD1307981, KEY, Key, 24B, Priorities, organ, plantae, rosette, l(3)s2612, reference sample, Biology, Genomes, Research, Cresses, flowering, Moods, Mouse-ear Cress, stru, Weights, Measures, leaf whorl, Sciences, l(3)S053606, CG10293, Mouse-ear, Genotypes, genetic, Social, preventive measures, l(3)j5B5, thale-cress, IKK, anatomical unit, body organ, DmelCG10293, Cress, TG, species, Development and Research, Research Priority, Mouse ear, Behaviors, Arabidopses, constitutitional genetic, Controlled, single-organism behavior, gastric antral vascular ectasia (disorder), floral evocation, 0904/17, Controlling, preventive therapy, Gastric Antral Vascular Ectasia, Process, Arbisopsis thaliana, Formal Social Control, clone 2.39, body, Affects, CROP, OA48-18, Crop, Arabidopsis thaliana, familial, Research Priorities, whole body, A. thaliana, function, future organ, qkr, l(3)S090417, Acceptance Processes, development, IKKgamma, developmental field., organism, DmIKKgamma, count in organism, Acceptance Process, Priority, Genogroup, Social Control, SZ1, dIKK, KH93F, Systems, Kenny, Research Activities, Arabidopsis thaliana (thale cress), CRA, scales, gastric antral vascular ectasia, who, Research and Development, thale cress, mouse-ear cress, Acceptance, Epistemology, whole organism, Scales, growth pattern, craw, Dmikkgamma, non-developmental growth, prophylaxis, CREAP-1, IKK-gamma, postnatal growth, Control, Plant, thaliana, common, Who/How, whole genome, Understanding, Controls, CG16910, Mouse-ear Cresses, hoja (Spanish, 葉 (Japanese, Activities, Phenotypes, Genogroups, Arabidopsis, DmelCG16910, Biomasses, control, Koerper, qkr[93F], anon-EST:Liang-2.39, Measures and Weights, inherited genetic, regulation, growth, hereditary, RegulationfalseChew_et_al_2014_Framework_Model version 1, Matlab and SimileChew_et_al_2014_Framework_Model version 1, Matlab and Simile2017-02-062018-08-222017-02-062018-08-2224725197087