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− | <p style="font-style: italic;"><strong><a href="#quorum" style="color:white">Quorum Sensing</a> | + | <p style="font-style: italic;14pt"><strong><a href="#quorum" style="color:white">Quorum Sensing</a> |
</strong> / <a href="#petrans" style="color:white">PETase Transcription</a> / <a href="#ratePET" style="color:white">Rate of PET Degradation with Biofilm</a> / <a href="#degradation" style="color:white">Rate of PET Degradation without Biofilm </a></p> | </strong> / <a href="#petrans" style="color:white">PETase Transcription</a> / <a href="#ratePET" style="color:white">Rate of PET Degradation with Biofilm</a> / <a href="#degradation" style="color:white">Rate of PET Degradation without Biofilm </a></p> | ||
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Revision as of 20:13, 30 October 2017
Modelling
Quorum Sensing / PETase Transcription / Rate of PET Degradation with Biofilm / Rate of PET Degradation without Biofilm
Modelling Towards Precise Prediction
1) quorum sensing time to predict when biofilm formed 2) the rate of PETase production 3) PET hydrolysis by PETase with and without biofilm.
Quorum Sensing
Assumption that we used in quorum sensing module is AI-2 production constant equals to AI-2 signaling constant.
Here ODEs that we used :
Growth curve :
AI-2 Production :
Biofilm Formation :
Parameter | Definition | Value | Dimension | References |
---|---|---|---|---|
μ | Specific growth rate | 0.42 | h-1 | This study |
Xmax | Maximum carrying capacity | 0.76 | OD600 | This study |
cA | Signaling constant | 2.5 x 10-3 | h-1 | This study |
μ | Specific growth rate | 0.42 | h-1 | This study |
kQ | Monod constant | 0.42 | h-1 | This study |
AI2max | Specific growth rate | 0.42 | h-1 | This study |
cS | Specific growth rate | 0.42 | h-1 | This study |
kB | Biofilm growth constant | 0.42 | h-1 | This study |
Bmax | Biofilm carrying capacity | 0.42 | h-1 | This study |
PETase Transcription
1. No inclusion body is produced during the transcription. Consecutively, there’s also no TetR produced during the transcription.
2. Initally, there are 0.05 μM of mRNA and zero amount of PETase.
There, the differential equations of each parameter obtained through the analysis of mass balance are :Rate of PET Degradation with Biofilm
Based on the design, assumptions that we used are : 1. Biofilm covered E. coli from the effect of nutrient solution, however, the bottom section of E. coli is contacted with PET. 2. Corellation of q and qm, So equation 1 can be rewritten as : Based on assumptions that used in [], we get : Reaction mechanisms of PET degradation are stated below. We can derive differential equations that we need from reaction mechanisms. Here is coupled ODEs that we used to determine rate of PETase formation and degradation of PET with biofilm forming based on assumptions that stated above. Whereas PET defined as PET, E as PETase, and P is ethylene terephtalate, the product from PET degradation by PETase.
Rate of PET Degradation without Biofilm
Comparing to degradation rate of PET with biofilm, PETase that can break down PET must be diffused into nutrient broth so surface contacting is occured, based on our design. So our hypothesis is degradation of PET without biofilm slower than with biofilm.