Team:Bielefeld-CeBiTec/Model

https://static.igem.org/mediawiki/2018/e/e9/T--Bielefeld-CeBiTec--JZ--Modelingwithcopper.png
Modeling
„Any modeling project should be tempered by the morality of laziness.“ (Barnes et. al., 2010)

Short Summary

This phrase illustrates that lab results can be predicted before actually working in the lab, saving precious time.
Our project revolves around new discovered or theoretical biological systems like for example RNAi in prokaryotes or newly discovered copper transporters. Our project required four different modeling approaches:
  • toxicity modeling
  • reactor modeling
  • siRNA modeling
  • ferritin structure modeling

Toxicity modeling

The toxicity of copper ions on the cell is well characterized (Ning et al., 2015) but for important parts of this project like the crossflow reactor we needed to know the exact point of time when our cells will die to achieve highest possible yields of copper.
The residence time should not exceed the rate of dying and cell lysis in the system. If cell lysis kicks in copper gets released back again into the substrate media and the yield minimizes. The modeling started with the copper uptake in our cells containing the BioBrick BBa_K2638204, which expresses oprC un