| Super Parts
|| Predator Construct
Model assumptions and relevance
- General assumptions on gene expression modelling:
- Quasi-steady state hypothesis on mRNA expression.
- Gene activation can be approximated by Hill equations.
- Assumptions linked to the quorum sensing:
- As a first approximation, we assume that luxR and AHL molecules form a heterodimer (even if it has been found that the complex formed is more complicated).
- The degradation rate of luxR and aiiA is mainly due to the growth dilution.
Model description of the oscillator
Full derivation of the above equations.
Model description of the growth of the predator
- mathematical description of the predator growth and death:
- insert a graphical representation if possible (e.g. CellDesigner display)
- link to SBML file or matlab.
Model variables and parameters for the growth of the predator
(list all the variables and parameters of the model in a table, specifying if their values are known, unknown, to be measured.)
|Name || Description || Initial Value || Confidence || Reference
| AHL || homoserine lactone acting as the prey-molecule || 0|| depends how good is the control of the prey positive feedback || links
| luxR || molecule acting as the sensing module for the predator || 0|| to be measured as we might have to deal with some leakage of the promoter || links
| aiiA || molecule acting as the killing module of the prey for the predator || 0 || to be measured as we might have to deal with some leakage of the promoter || links
| Name || Description || Value || Confidence || Reference
| c || maximum synthesis rate of the pLux promoter || to be characterized || to be measured || links
| c0 || dissociation constant according to Hill eq || to be characterized|| to be measured || links
| gd || growth dilution || to be characterized || to be measured || links
- Parameters c & c0 for characterization have to be extracted.
- gd[luxR] and gd[aiiA] can be controlled by the chemostat.