Virginia Tech/Updates/Modeling/Infection Model

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<center><h1><font color="#ff8c00"> One Population Infection Model:  
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</font></h1></center>
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<center><h3><font color="#8b0000"> VT iGEM Project 2007: Engineering an Epidemic</font></h3></center>
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<p>[[https://2007.igem.org/Virginia_Tech/Updates/Modeling Back to Modeling Updates]] [[https://2007.igem.org/Virginia_Tech/Updates/Modeling/Infection_Model Infection Model]] [[https://2007.igem.org/Virginia_Tech/Updates/Modeling/PopInter_Model Population Interaction Model]]</p>
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<p>'''The Model'''<br>
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''July 12, 2007'' </p>
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<p>Reactions:<br>
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Rxn_1:  B + P --> I1 [200]<br>
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Rxn_2:  I1 + P --> I2 [200]<br>
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Rxn_3:   I2 + P --> I3 [200]<br>
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Rxn_4:   I1 --> L [6.667000e-002]<br>
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Rxn_5:   I1 --> K [6.000000e-001]<br>
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Rxn_6:   I2 --> L [6.667000e-002]<br>
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Rxn_7:   I2 --> K [1.555600e-001]<br>
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Rxn_8:  I3 --> L [6.667000e-002]<br>
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Rxn_9:  I3 --> K [6.667000e-002]<br>
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Rxn_10:  K --> 100P [2.500000e-002]<br>
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Rxn_11:  B + FA --> 2B [5.000000e-002]<br>
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Rxn_12:  L + FA --> 2L [5.000000e-002]<br>
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Rxn_13:  FT --> FA [5.000000e-002]</p>
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<p>InitialValues:<br>
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B=10000<br>
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P=100<br>
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FT=1.000000e+006</p>
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<html><center><A href="https://2007.igem.org/Virginia_Tech/JC" target=_top><h3><FONT color=#ff8c00>Journal Club</FONT></h3></A></center></html>
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<p>B represents uninfected bacteria, P represents phage virus, I is an intermediate stage, K represents lytic, L represents lysogenic, and FT and FA are food. The first reaction represents a phage virus infecting a bacterial cell.  When the cell becomes infected, it can either turn lytic (a mass of phage viruses are replicated inside the cell and released by bursting the cell) or lysogenic (the phage stays dormant in the cell).  This decision, to choose between lytic and lysogenic, is based on environmental factors surrounding the bacterial cell.  If there are a surfeit of phage viruses in the environment, the infecting phage has a high probability of becoming lysogenic; however, if there is a scarcity of phage viruses surrounding the bacterial cell, there is a high probability that the phage will become lytic. The intermediate I is used as a reaction to set these probabilities.  The growth of the bacteria and lysogenic cells are limited by available food.  This is done so that the cells don't grow unhindered.</p>
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<p>'''Observing the Reactions in Action'''<br>
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''July 23, 2007''</p>
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<br>Zoomed in on all species except phage, which grows on a much larger scale than other species.</p>
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<br>All species in one infection reaction.</p>
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<p>As the phage (P) infects the uninfected bacteria (B) the amount of uninfected cells decline and number of lysogenic (L) and lytic (K) cells increase. As the lytic cells burst and release phage into the environment, the number of lytic gradually decline and the number of phage quickly increase.</p>
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Latest revision as of 16:16, 24 July 2007

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One Population Infection Model:

VT iGEM Project 2007: Engineering an Epidemic

[Back to Modeling Updates] [Infection Model] [Population Interaction Model]

The Model
July 12, 2007

Reactions:
Rxn_1: B + P --> I1 [200]
Rxn_2: I1 + P --> I2 [200]
Rxn_3: I2 + P --> I3 [200]
Rxn_4: I1 --> L [6.667000e-002]
Rxn_5: I1 --> K [6.000000e-001]
Rxn_6: I2 --> L [6.667000e-002]
Rxn_7: I2 --> K [1.555600e-001]
Rxn_8: I3 --> L [6.667000e-002]
Rxn_9: I3 --> K [6.667000e-002]
Rxn_10: K --> 100P [2.500000e-002]
Rxn_11: B + FA --> 2B [5.000000e-002]
Rxn_12: L + FA --> 2L [5.000000e-002]
Rxn_13: FT --> FA [5.000000e-002]

InitialValues:
B=10000
P=100
FT=1.000000e+006

B represents uninfected bacteria, P represents phage virus, I is an intermediate stage, K represents lytic, L represents lysogenic, and FT and FA are food. The first reaction represents a phage virus infecting a bacterial cell. When the cell becomes infected, it can either turn lytic (a mass of phage viruses are replicated inside the cell and released by bursting the cell) or lysogenic (the phage stays dormant in the cell). This decision, to choose between lytic and lysogenic, is based on environmental factors surrounding the bacterial cell. If there are a surfeit of phage viruses in the environment, the infecting phage has a high probability of becoming lysogenic; however, if there is a scarcity of phage viruses surrounding the bacterial cell, there is a high probability that the phage will become lytic. The intermediate I is used as a reaction to set these probabilities. The growth of the bacteria and lysogenic cells are limited by available food. This is done so that the cells don't grow unhindered.

Observing the Reactions in Action
July 23, 2007


Zoomed in on all species except phage, which grows on a much larger scale than other species.


All species in one infection reaction.

As the phage (P) infects the uninfected bacteria (B) the amount of uninfected cells decline and number of lysogenic (L) and lytic (K) cells increase. As the lytic cells burst and release phage into the environment, the number of lytic gradually decline and the number of phage quickly increase.


Return to Progress Updates


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