Periodic pattern formation in reaction—diffusion systems: An introduction for numerical simulation

The aim of the present review is to provide a comprehensive explanation of Turing reaction-diffusion systems in sufficient detail to allow readers to perform numerical calculations themselves. The reaction-diffusion model is widely studied in the field of mathematical biology, serves as a powerful paradigm model for selforganization and is beginning to be applied to actual experimental systems in developmental biology. Despite the increase in current interest, the model is not well understood among experimental biologists, partly because appropriate introductory texts are lacking. In the present review, we provide a detailed description of the definition of the Turing reaction-diffusion model that is comprehensible without a special mathematical background, then illustrate a method for reproducing numerical calculations with Microsoft Excel. We then show some examples of the patterns generated by the model. Finally, we discuss future prospects for the interdisciplinary field of research involving mathematical approaches in developmental biology.

[1]  Lewis Wolpert,et al.  Principles of Development , 1997 .

[2]  S. Kondo,et al.  A reaction–diffusion wave on the skin of the marine angelfish Pomacanthus , 1995, Nature.

[3]  K. Shiota,et al.  A novel method for analysis of the periodicity of chondrogenic patterns in limb bud cell culture: correlation of in vitro pattern formation with theoretical models , 2000, Anatomy and Embryology.

[4]  Takashi Miura,et al.  Depletion of FGF acts as a lateral inhibitory factor in lung branching morphogenesis in vitro , 2002, Mechanisms of Development.

[5]  K. Shiota,et al.  Extracellular matrix environment influences chondrogenic pattern formation in limb bud micromass culture: Experimental verification of theoretical models , 2000, The Anatomical record.

[6]  P K Maini,et al.  Cellular mechanisms of pattern formation in the developing limb. , 1991, International review of cytology.

[7]  A. Turing,et al.  The chemical basis of morphogenesis. 1953. , 1990, Bulletin of mathematical biology.

[8]  A. Turing The chemical basis of morphogenesis , 1952, Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences.

[9]  K. Shiota,et al.  TGFβ2 acts as an “Activator” molecule in reaction‐diffusion model and is involved in cell sorting phenomenon in mouse limb micromass culture , 2000, Developmental dynamics : an official publication of the American Association of Anatomists.

[10]  J. Bard,et al.  A model for generating aspects of zebra and other mammalian coat patterns. , 1981, Journal of theoretical biology.

[11]  Kimmo Kaski,et al.  A new dimension to Turing patterns , 2002, cond-mat/0211283.

[12]  L Wolpert,et al.  Local inhibitory action of BMPs and their relationships with activators in feather formation: implications for periodic patterning. , 1998, Developmental biology.

[13]  Y. Iwasa,et al.  Origin of directionality in the fish stripe pattern , 2003, Developmental dynamics : an official publication of the American Association of Anatomists.

[14]  Michael J. Lyons,et al.  Stripe selection: An intrinsic property of some pattern‐forming models with nonlinear dynamics , 1992, Developmental dynamics : an official publication of the American Association of Anatomists.

[15]  C. Chuong,et al.  Self-organization of periodic patterns by dissociated feather mesenchymal cells and the regulation of size, number and spacing of primordia. , 1999, Development.

[16]  Hans Meinhardt,et al.  The Algorithmic Beauty of Sea Shells , 2003, The Virtual Laboratory.

[17]  G. Lyons,et al.  Recombinant limbs as a model to study homeobox gene regulation during limb development. , 1994, Developmental biology.

[18]  Shigeru Kondo The reaction‐diffusion system: a mechanism for autonomous pattern formation in the animal skin , 2002, Genes to cells : devoted to molecular & cellular mechanisms.

[19]  S A Newman,et al.  Morphogenetic differences between fore and hind limb precartilage mesenchyme: relation to mechanisms of skeletal pattern formation. , 1994, Developmental biology.

[20]  R A Barrio,et al.  Turing patterns on a sphere. , 1999, Physical review. E, Statistical physics, plasmas, fluids, and related interdisciplinary topics.

[21]  S A Newman,et al.  Different roles for fibronectin in the generation of fore and hind limb precartilage condensations. , 1995, Developmental biology.

[22]  B. Ermentrout Stripes or spots? Nonlinear effects in bifurcation of reaction—diffusion equations on the square , 1991, Proceedings of the Royal Society of London. Series A: Mathematical and Physical Sciences.

[23]  J. Bard,et al.  How well does Turing's theory of morphogenesis work? , 1974, Journal of theoretical biology.

[24]  Philip K. Maini,et al.  Speed of pattern appearance in reaction-diffusion models: Implications in the pattern formation of limb bud mesenchyme cells , 2004, Bulletin of mathematical biology.

[25]  Jonathan Bard,et al.  Morphogenesis : the cellular and molecular processes of developmental anatomy , 1990 .

[26]  Isaac Salazar-Ciudad,et al.  A gene network model accounting for development and evolution of mammalian teeth , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[27]  P. Maini,et al.  Reaction and diffusion on growing domains: Scenarios for robust pattern formation , 1999, Bulletin of mathematical biology.

[28]  P K Maini,et al.  Mathematical Biology , 2006 .

[29]  Stuart A Newman,et al.  Ectodermal FGFs induce perinodular inhibition of limb chondrogenesis in vitro and in vivo via FGF receptor 2. , 2002, Developmental biology.

[30]  H L Frisch,et al.  Dynamics of skeletal pattern formation in developing chick limb. , 1979, Science.