title: Spatial Control of Biochemical Modification Cascades and Pathways.
abstract: Information transmission in cells occurs through complex networks of proteins and genes and is relayed through cascades of biochemical modifications, which are typically studied through ordinary differential equations. However, it is becoming increasingly clear that spatial factors can strongly influence chemical information transmission in cells. In this article, we systematically disentangle the effects of space in signaling cascades. This is done by examining the effects of localization/compartmentalization and diffusion of enzymes and substrates in multiple variants of chemical modification cascades. This includes situations where the modified form of species at one stage 1) acts as an enzyme for the next stage; 2) acts as a substrate for the next stage; and 3) is involved in phosphotransfer. Our analysis reveals the multiple effects of space in signal transduction cascades. Although in some cases space plays a modulatory effect (itself of interest), in other cases, spatial regulation and control can profoundly affect the nature of information processing as a result of the subtle interplay between the patterns of localization of species, diffusion, and the nature of the modification cascades. Our results provide a platform for disentangling the role of space and spatial control in multiple cellular contexts and a basis for engineering spatial control in signaling cascades through localization/compartmentalization.
authors.affiliation: Department of Chemical Engineering, Centre for Process Systems Engineering, Imperial College London, South Kensington Campus, London, United Kingdom.
authors.forename: Aiman
authors.initials: A
authors.lastname: Alam-Nazki
authors.affiliation: Department of Chemical Engineering, Centre for Process Systems Engineering, Imperial College London, South Kensington Campus, London, United Kingdom; Institute for Systems and Synthetic Biology, Imperial College London, South Kensington Campus, London, United Kingdom. Electronic address: j.krishnan@imperial.ac.uk.
authors.forename: J
authors.initials: J
authors.lastname: Krishnan
mesh_terms: D002451:Cell Compartmentation; D055442:Metabolome; D008962:Models, Theoretical; D011499:Protein Processing, Post-Translational; D015398:Signal Transduction