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Team:Edinburgh/Phage Replication
From 2011.igem.org
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== Basic model == | == Basic model == | ||
| - | *dx/dt=ax-bvx | + | *dx/dt=ax-bvx |
| + | |||
| + | :(Rate of change of quantity of uninfected ''E. coli'' equals to the uninfected ''E. coli'' replicate itself minus the ''E. coli'' infected by M13 phage.） | ||
| - | *dy/dt=ay+bvx | + | *dy/dt=ay+bvx |
| + | |||
| + | :（Rate of change of quantity of infected ''E. coli'' equals to the quantity of infected ''E. coli'' replicate itself plus the ''E. coli'' infected by M13 phage.） | ||
| - | *dv/dt=cy-bvx-mv （Rate of change of quantity of free phage equals to the phage released by infected ''E. coli'' minus the phage which is to infect an ''E. coli'' and the decayed phage.） | + | *dv/dt=cy-bvx-mv |
| + | |||
| + | :（Rate of change of quantity of free phage equals to the phage released by infected ''E. coli'' minus the phage which is to infect an ''E. coli'' and the decayed phage.） | ||
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'''Assumptions''' | '''Assumptions''' | ||
*any host responses against bacteria or against phages are neglected | *any host responses against bacteria or against phages are neglected | ||
| - | |||
== Simulations == | == Simulations == | ||
| + | The matlab code uses runge-kutta method of order four to solve the system. | ||
| + | |||
Revision as of 10:01, 25 August 2011
A basic activity in biorefinery consists of the degradation of cellulose, due to the presence of enzymes. We are not only concerned with the activities and the amount of enzymes, but also with metabolism and activities of bacteriaphage.
Contents |
M13 Replication
- The M13 phage attacks E. coli (host), multiplies in the host cell cytoplasm, and is released without causing the bacteria’s death (non-lytic).
Basic model
- dx/dt=ax-bvx
- (Rate of change of quantity of uninfected E. coli equals to the uninfected E. coli replicate itself minus the E. coli infected by M13 phage.）
- dy/dt=ay+bvx
- （Rate of change of quantity of infected E. coli equals to the quantity of infected E. coli replicate itself plus the E. coli infected by M13 phage.）
- dv/dt=cy-bvx-mv
- （Rate of change of quantity of free phage equals to the phage released by infected E. coli minus the phage which is to infect an E. coli and the decayed phage.）
- X(t) — uninfected E. coli
- Y(t) — infected E. coli
- V(t) — free phage
- a — replication coefficient of E. coli
- b — transmission coefficient of phage
- c — replication coefficient of phage
- m — decay rate of phage
Assumptions
- any host responses against bacteria or against phages are neglected
Simulations
The matlab code uses runge-kutta method of order four to solve the system.
References
- Slonczewski JL, Foster JW (2010) [http://www.wwnorton.com/college/biology/microbiology2/ch/11/etopics.aspx Microbiology: An Evolving Science], 2nd edition. W. W. Norton & Company
