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Team:Kyoto/Digestion/Modeling
From 2011.igem.org
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='''Digestion Modeling'''= | ='''Digestion Modeling'''= | ||
We preformed modeling to improve usability of the results of Team Digestion.<br> | We preformed modeling to improve usability of the results of Team Digestion.<br> | ||
| - | The aim of these | + | The aim of these modeling is the creation of the relationship of time and the cell population of E.coli and the concentration of chitinase and N-acetylglucosamin.<br> |
We created two models; Stable state model and exponential state model. | We created two models; Stable state model and exponential state model. | ||
=='''Stable state model'''== | =='''Stable state model'''== | ||
We can apply this model when cell population of E.coli don't change. In this case, we can think about two reasons why cell population don't change.<br> | We can apply this model when cell population of E.coli don't change. In this case, we can think about two reasons why cell population don't change.<br> | ||
| - | *First, cell population is too small for us to see the | + | *First, cell population is too small for us to see the significant difference of cell population.<br> |
| - | *Second, nutrients in medium don't | + | *Second, nutrients in medium don't sufficiently exist for E.coli to grow.<br> |
We thought about each reasons and . | We thought about each reasons and . | ||
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==='''no feedback model'''=== | ==='''no feedback model'''=== | ||
We defined these following equations. In defining these equations, we premised the following four things, that is, | We defined these following equations. In defining these equations, we premised the following four things, that is, | ||
| - | * | + | *Chitinase in medium isn't decomposed. |
| - | *E.coli | + | *E.coli doesn't digest N-acetylgulcosamin. |
| - | * | + | *Chitin as substrate of chitinase is sufficient for reaction with chitinase. |
| - | *E.coli | + | *E.coli doesn't grow.<br> |
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Two under equations of this figure show the production of citinase by E.coli and the decomposition reaction of chitin. In this decompositon reaction, the concentration of chitin isn't related because chitin is solid and don't dissolve in water.<br> | Two under equations of this figure show the production of citinase by E.coli and the decomposition reaction of chitin. In this decompositon reaction, the concentration of chitin isn't related because chitin is solid and don't dissolve in water.<br> | ||
| - | We sought the answers of these | + | We sought the answers of these equations by followig procedures. |
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From these answers, we can get this graph.<br> | From these answers, we can get this graph.<br> | ||
| - | + | This graph is the most simply model. In this graph, the each concentration continuously increses by time goes on, and we can easily seek the concrete constants. | |
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[[File:Modeling_Modeling3.jpg]]<br> | [[File:Modeling_Modeling3.jpg]]<br> | ||
| - | ==''' | + | =='''Exponential state model'''== |
At first, we defined these things. In these premises | At first, we defined these things. In these premises | ||
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*E.coli don't digest N-acetylgulcosamin | *E.coli don't digest N-acetylgulcosamin | ||
*chitin as substrate of chitinase is sufficient for reaction with chitinase | *chitin as substrate of chitinase is sufficient for reaction with chitinase | ||
| - | *E.coli grow | + | *E.coli grow exponentially <br> |
Revision as of 02:50, 6 October 2011
Contents |
Digestion Modeling
We preformed modeling to improve usability of the results of Team Digestion.
The aim of these modeling is the creation of the relationship of time and the cell population of E.coli and the concentration of chitinase and N-acetylglucosamin.
We created two models; Stable state model and exponential state model.
Stable state model
We can apply this model when cell population of E.coli don't change. In this case, we can think about two reasons why cell population don't change.
- First, cell population is too small for us to see the significant difference of cell population.
- Second, nutrients in medium don't sufficiently exist for E.coli to grow.
We thought about each reasons and .
no feedback model
We defined these following equations. In defining these equations, we premised the following four things, that is,
- Chitinase in medium isn't decomposed.
- E.coli doesn't digest N-acetylgulcosamin.
- Chitin as substrate of chitinase is sufficient for reaction with chitinase.
- E.coli doesn't grow.
Two under equations of this figure show the production of citinase by E.coli and the decomposition reaction of chitin. In this decompositon reaction, the concentration of chitin isn't related because chitin is solid and don't dissolve in water.
We sought the answers of these equations by followig procedures.
From these answers, we can get this graph.
This graph is the most simply model. In this graph, the each concentration continuously increses by time goes on, and we can easily seek the concrete constants.
negative feedback
We creat anothre graph. In this graph, E.coli digests N-acetylgulcosamin. Therefore, the speed of increase of the concentration of N-acetylglucosamin is lower than no feedback model. In this model, we used the following equation.
Exponential state model
At first, we defined these things. In these premises
- chitinase in medium isn't decomposed
- E.coli don't digest N-acetylgulcosamin
- chitin as substrate of chitinase is sufficient for reaction with chitinase
- E.coli grow exponentially
Two under equations of this figure show the production of citinase by E.coli and the decomposition reaction of chitin. In this decompositon reaction, the concentration of chitin isn't related because chitin is solid and don't dissolve in water.
We sought the answers of these equation by followig procedures.
From these answers, we can get this graph.
Second, we creat anothre graph. In this graph, E.coli digest N-acetylgulcosamin. In this model, following equatio was used.
Discussion
We can apply stable state model to the results of SOC medium and M9 medium. Moreover, we can apply exponential model to the result of Plus grow medium.
