IGEM:IMPERIAL/2008/New/Growth Curve

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===[[How to model the growth curve?]]===
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===How to model the growth curve?===
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In order to model the growth of ''B. subtilis'', the process was broken down into three main steps, where a separate submodel is produced in MATLAB for each step. Each submodel is an ODE model, which can be simulated using MATLAB. The variables in each submodel can be adjusted according to the boundary conditions (from experimental results).
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In the final step, a combination of Submodels 1 and 2 are superposed with Submodel 3, resulting in a more complex model which enhances the accuracy of illustrating bacterial growth.  For more details about the submodels, please click on the following links:
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'''[[Tutorial for Growth Curve]]''' (More details about each submodel)
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'''[[Media:Modelling_Growth_Curve.pdf]]''' (The tutorial questions)
===[[The Model]]===
===[[The Model]]===

Revision as of 07:22, 30 September 2008






  Growth Curve

Results

The model for the growth curve was fitted to the experimental results as shown below. The experimental results is depicted by the red curve, while our model is shown by the green curve. The resource curve was also plotted as a function of time and is shown below. Based on our experimental results from the Wet Lab, a log graph was plotted to determine the growth rate. The growth rate was then determined from the gradient of the log graph. This value was included when simulating the growth model using MATLAB.

Log-Graph used to determine the growth rate


The following constants used to generate the model were found to yield the best fit to experimental results.

GROWTH CONSTANT: A = 1.3494

INITIAL NUTRIENT CONCENTRATION: R_0 = 2

HILL COEFFICIENT: n = 1.25

INITIAL OD = 0.4

CONSTANT: α = 0.64516


Experimental Results
Fitted Curve
Resource Curve




Background Information of Modelling the Growth Curve

The aim of modelling the growth curve is to characterise the B. subtilis chassis used in the project. Characterisation increases the predictability of the growth of B. subtilis by determining, for example, its growth rate and the duration of its distinctive growth phases.


How to model the growth curve?

In order to model the growth of B. subtilis, the process was broken down into three main steps, where a separate submodel is produced in MATLAB for each step. Each submodel is an ODE model, which can be simulated using MATLAB. The variables in each submodel can be adjusted according to the boundary conditions (from experimental results).

In the final step, a combination of Submodels 1 and 2 are superposed with Submodel 3, resulting in a more complex model which enhances the accuracy of illustrating bacterial growth. For more details about the submodels, please click on the following links:


Tutorial for Growth Curve (More details about each submodel)

Media:Modelling_Growth_Curve.pdf (The tutorial questions)

The Model



Discussion

Dry lab hub

Growth Curve

Genetic Circuit

Motility

Appendices



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