title: A "lookup table" schema for synthetic biological patterning.
abstract: A schema is proposed by which the three-dimensional structure and temporal development of a biological organism might be encoded and implemented via a genetic "lookup table". In the schema, diffusive morphogen gradients and/or the global concentration of a quickly diffusing signal index sets of kinase genes having promoters with logarithmically diminished affinity for the signal. Specificity of indexing is enhanced via concomitant expression of phosphatases undoing phosphorylation by "neighboring" kinases of greater affinity. Combinations of thus-selected kinases in turn jointly activate, via multiple phosphorylation, a particular enzyme from a virtual, multi-dimensional array thereof, at locations and times specified within the "lookup table". In principle, such a scheme could be employed to specify arbitrary gross anatomy, surface pigmentation, and/or developmental sequencing, extending the burgeoning toolset of the nascent field of synthetic morphology. A model of two-dimensional surface coloration using this scheme is specified, and LabVIEW software for its exploration is described and made available.
authors.affiliation: Center on Human Development and Disability, University of Washington, Box 357920, Seattle, WA 98195-7920, USA. freitz@u.washington.edu
authors.forename: Frederick B
authors.initials: FB
authors.lastname: Reitz
mesh_terms: D000818:Animals; D019521:Body Patterning; D003198:Computer Simulation; D015509:Developmental Biology / Q000379:methods; D004058:Diffusion; D018507:Gene Expression Regulation, Developmental; D006801:Humans; D008954:Models, Biological; D008962:Models, Theoretical; D010744:Phosphoric Monoester Hydrolases / Q000378:metabolism; D010766:Phosphorylation; D010858:Pigmentation; D011401:Promoter Regions, Genetic; D015398:Signal Transduction; D012984:Software
chemical_list: D010744:Phosphoric Monoester Hydrolases