Mathematical model of the Arabidopsis photoperiod sensor: Salazar 2009 model

José Domingo Salazar, Treenut Saithong, Karen Halliday, David A Rand, Andrew Millar

Research output: Other contribution

Abstract / Description of output

[from the record in PlaSMo] The model shows how the CONSTANS gene and protein in Arabidopsis thaliana forms a day-length sensor. It corresponds to Model 3 in the publication of Salazar et al. 2009, "Prediction of Photoperiodic Regulators from Quantitative Gene Circuit Models".

Matlab versions of all the models in the paper are attached to the record in PlaSMo as a ZIP archive, as are all the data waveforms curated from the literature to constrain the model. Further information may be available via links from the authors web site (

Simulation notes for SBML version of Model3 from Salazar et al., Cell, 2009.

The interlocking-loop circadian clock in this model reaches its entrained limit cycle rather slowly. To ensure that simulations show the stable phase under any light:dark cycle, the model should be run for 720 hours (30 days) before evaluating its behaviour in light:dark cycles. Using the boundary value solver in Matlab, as described in the paper, avoids this issue.

SBML prepared by Dr. Treenut Saithong, based on Matlab by Dr. Domingo Salazar. Model depositor, updates to version 2, Prof. Andrew Millar.
Original languageEnglish
Media of outputSBML model
Publication statusPublished - 2009

Keywords / Materials (for Non-textual outputs)

  • biological Clocks
  • Circadian Rhythms
  • mathematical modeling
  • Systems Biology
  • Photoperiodism
  • Arabidopsis thaliana


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