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From 2012.igem.org

Auxin detection

Overview

Now that we’ve managed to model auxin creation and transport, you may be asking yourself ; great, those guys have done all those models, but how can we link it to what we see ? That’s the aim of this model that will link the quantity of auxin transported into the cell to GFP degradation that we can observe in our tadpole’s cells. As for us, this model will also help our biologists to find the conditions upon which the reception can work and the help them guess the reasons of possible dysfunction in the auxin reception. This is what's happening during auxin detection:

Thus, once TIR 1 ang GFP are produced and auxin has entered the cell, it binds with TIR1 and then this complex degrades GFP. This is what we're going to model.

Hypotheses

The same promoter is used for the creation of GFP and TIR, so the efficiency Gamma for the creation of GFP and TIR1 will be identical.

Descritpion of the model

Chemical equations corresponding to:

• Creation of auxin-TIR1 complex :
• Degradation of GFP by this complex:

After adding to these equations creation rates of TIR1 and GFP and desintegration rates of each actor whe obtain the system of equations: Where:

• A stands for auxin
• T stands for TIR1
• AT stands for the complx auxin-TIR1
• G stands for GFP
• P_X is the concentration of X in the cell
• ˠ is the "efficiency" of the promoter used to create X
• K₁ is the reaction constant of the creation of the auxin-TIR1 complex

Model's calibration

Results

Criticisms

Confrontation with exepriences

Conclusion

References