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Paper   IPM / Biological / 16194
School of Biological Sciences
  Title:   From indication to decision: A hierarchical approach to model the chemotactic behavior of Escherichia coli
1.  Safar` Vafadar
2.  Kaveh Kavousi
3.  Hadiseh Safdari
4.  Ata Kalirad
5.  Mehdi Sadeghi
  Status:   Published
  Journal: Theoretical Biology
  Vol.:  495
  Year:  2020
  Pages:   https://doi.org/10.1016/j.jtbi.2020.110253
  Supported by:  IPM
Reducing the complex behavior of living entities to its underlying physical and chemical processes is a formidable task in biology. Complex behaviors can be characterized as decision making: the ability to process the incoming information via an intracellular network and act upon this information to choose appropriate strategies. Motility is one such behavior that has been the focus many modeling efforts in the past. Our aim is to reduce the chemotactic behavior in Escherichia coli to its molecular constituents in order to paint a comprehensive and end-to-end picture of this intricate behavior. We utilize a hierarchical approach, consisting of three layers, to achieve this goal: at the first level, chemical reactions involved in chemotaxis are simulated. In the second level, the chemical reactions give rise to the mechanical movement of six independent flagella. At the last layer, the two lower layers are combined to allow a digital bacterium to receive information from its environment and swim through it with verve. Our results are in concert with the experimental studies concerning the motility of E.coli cells. In addition, we show that our detailed model of chemotaxis is reducible to a non-homogeneous Markov process.

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