Modelling Bacterial Signal Transduction Pathways through Evolving Artificial Chemistries (original) (raw)

This paper describes how signal transduction pathways (STP) can be modelled as a rule-based articial chemistry (AC). Articial chemistries provide a powerful operating system where arbitrary STPs can be implemented. A bacteria simulator allowing user controlled ex- periments has been created so that dieren t rule sets and environmental settings can be tested and evolved. Each bacterium contains concentra- tions of user dened modules which interact each time step according to user specied rules and environmental conditions. Modules can encode for operons, proteins and complexes, enabling the simulation of numer- ous biological scenarios. Three distinct experiments undertaken with the bacteria simulator are presented in this paper. In the rst study, we in- vestigate our model of chemotaxis in E. coli where realistic adaptations of tumbling frequencies are observed as well as realistic reactions to en- vironmental change. In a second study, bacteria inherit a colour gene and their evolv...

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