Journal Image
Current Chemical Biology
ISSN (Print): 2212-7968
ISSN (Online): 1872-3136
DOI: 10.2174/221279680703140508101810      Price:  $58

Simulating the Bacterial Chemotaxis Pathway at High Spatio-temporal Detail

Author(s): Sven Sewitz and Karen Lipkow
Pages 214-223 (10)
We have used the Smoldyn software to create spatially detailed models of the Escherichia coli chemotaxis pathway. With it we can follow signalling reactions at high spatio-temporal resolution, observe the formation of gradients of phospho-proteins as well as total protein and analyse the effects of macromolecular crowding on signalling. It has enabled us to propose new regulatory elements of the signalling pathway, which are mediated through the dynamic localisation and activity of the CheZ phosphatase. We used the Smoldyn software to model quantitative fluorescent microscopy data and to determine diffusion coefficients and binding affinities. We can reliably gain information obtained under conditions with high levels of experimental noise. Smoldyn can accommodate various cellular architectures, and we show that cell shape becomes an integral part of the signalling process.
Bacterial chemotaxis, cellular signalling, particle based simulation, protein gradients, review, smoldyn.
Babraham Institute, Nuclear Dynamics (B570), Babraham Research Campus, Cambridge CB22 3AT, UK.