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Continuous-time modeling of cell fate determination in Arabidopsis flowers
- Source :
- BMC Systems Biology 4 (2010), BMC Systems Biology, Vol 4, Iss 1, p 101 (2010), BMC Systems Biology, BMC Systems Biology, 4
- Publication Year :
- 2010
-
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.
- Subjects :
- 0106 biological sciences
Time Factors
Mutant
domain
Arabidopsis
Gene regulatory network
01 natural sciences
Wiskundige en Statistische Methoden - Biometris
Structural Biology
mads-box proteins
Arabidopsis thaliana
lcsh:QH301-705.5
Genetics
0303 health sciences
floral organ identity
EPS-1
Applied Mathematics
Cell Differentiation
PE&RC
Computer Science Applications
Floral organ formation
PRI Bioscience
Organ Specificity
Modeling and Simulation
Mutation (genetic algorithm)
Laboratory of Molecular Biology
Research Article
Bioinformatics
Systems biology
MADS Domain Proteins
Flowers
Computational biology
Biology
in-vitro
Genes, Plant
Models, Biological
03 medical and health sciences
BIOS Applied Bioinformatics
regulatory networks
Modelling and Simulation
Bioinformatica
expression
Laboratorium voor Moleculaire Biologie
thaliana
BIOS Plant Development Systems
Protein Structure, Quaternary
Molecular Biology
Mathematical and Statistical Methods - Biometris
030304 developmental biology
homeotic gene apetala3
complex-formation
Reproducibility of Results
biology.organism_classification
Boolean network
lcsh:Biology (General)
Mutation
identification
Protein Multimerization
010606 plant biology & botany
Subjects
Details
- Language :
- English
- ISSN :
- 17520509
- Database :
- OpenAIRE
- Journal :
- BMC Systems Biology 4 (2010), BMC Systems Biology, Vol 4, Iss 1, p 101 (2010), BMC Systems Biology, BMC Systems Biology, 4
- Accession number :
- edsair.doi.dedup.....98e961aef76598aa6369cad1a762656a