title: Continuous-time modeling of cell fate determination in Arabidopsis flowers.
abstract: BACKGROUND
  The genetic control of floral organ specification is currently being investigated by various approaches, both experimentally and through modeling. Models and simulations have mostly involved boolean or related methods, and so far a quantitative, continuous-time approach has not been explored.
  
  
  RESULTS
  We propose an ordinary differential equation (ODE) model that describes the gene expression dynamics of a gene regulatory network that controls floral organ formation in the model plant Arabidopsis thaliana. In this model, the dimerization of MADS-box transcription factors is incorporated explicitly. The unknown parameters are estimated from (known) experimental expression data. The model is validated by simulation studies of known mutant plants.
  
  
  CONCLUSIONS
  The proposed model gives realistic predictions with respect to independent mutation data. A simulation study is carried out to predict the effects of a new type of mutation that has so far not been made in Arabidopsis, but that could be used as a severe test of the validity of the model. According to our predictions, the role of dimers is surprisingly important. Moreover, the functional loss of any dimer leads to one or more phenotypic alterations.
authors.affiliation: Biometris, Plant Sciences Group, Wageningen University and Research Center, Wageningen, The Netherlands. simon.vanmourik@wur.nl
authors.forename: Simon
authors.initials: S
authors.lastname: van Mourik
authors.forename: Aalt D J
authors.initials: AD
authors.lastname: van Dijk
authors.forename: Maarten
authors.initials: M
authors.lastname: de Gee
authors.forename: Richard G H
authors.initials: RG
authors.lastname: Immink
authors.forename: Kerstin
authors.initials: K
authors.lastname: Kaufmann
authors.forename: Gerco C
authors.initials: GC
authors.lastname: Angenent
authors.forename: Roeland C H J
authors.initials: RC
authors.lastname: van Ham
authors.forename: Jaap
authors.initials: J
authors.lastname: Molenaar
mesh_terms: D017360:Arabidopsis / Q000166:cytology* / Q000235:genetics / Q000378:metabolism; D002454:Cell Differentiation; D035264:Flowers / Q000166:cytology* / Q000235:genetics / Q000378:metabolism; D017343:Genes, Plant / Q000235:genetics; D026161:MADS Domain Proteins / Q000737:chemistry / Q000378:metabolism; D008954:Models, Biological; D009154:Mutation; D009928:Organ Specificity; D055503:Protein Multimerization; D020836:Protein Structure, Quaternary; D015203:Reproducibility of Results; D013997:Time Factors
chemical_list: D026161:MADS Domain Proteins