Organogensis

VI.1 COORDINATORS
VI.2 PARTICIPANTS
VI.3 SUMMARY
VI.4 INTRODUCTION
VI.5 SPECIFIC AIMS

• VI.5.i Develop Multiscale Experimental and Computational Models for Organogenesis Applicable to a Range of Developmental Processes

VI.6 BACKGROUND AND SIGNIFICANCE

• VI.6.i General Background to Organogenesis
• VI.6.ii Interplay of Physical and Genetic Mechanisms in Organogenesis
  • VI.6.ii.a Cell Adhesion
  • VI.6.ii.b Chemotaxis and Haptotaxis
  • VI.6.ii.c Epithelial and Mesenchymal Tissues
  • VI.6.ii.d Epithelia and Cell Polarity
  • VI.6.ii.e Mesenchyme and Extracellular Matrix
  • VI.6.ii.f Mesenchymal Condensation
  • VI.6.ii.g Cell Excitability
  • VI.6.ii.h Reaction-Diffusion Mechanisms
  • VI.6.ii.i Differentiation
  • VI.6.ii.j Summary of Basic Mechanisms of Pattern Formation and Morphogenesis
  • VI.6.ii.k Neuronal Guidance, Fasciculation and Defasciculation
• VI.6.iii Background to Specific Experimental Systems
  • VI.6.iii.a Gastrulation
  • VI.6.iii.b Limb Development
  • VI.6.iii.c Innervation
    • VI.6.iii.c.1 Skeleto-muscular innervation
    • VI.6.iii.c.2 Retinotectal innervation
  • VI.6.iii.d Cardiovascular Development
    • VI.6.iii.d.1 Early vertebrate heart development
    • VI.6.iii.d.2 Trabeculation

VI.7 THEORETICAL FRAMEWORK

• VI.7.i Overview
• VI.7.ii Cellular Potts Model
  • VI.7.ii.a Energy Minimization Formalism
  • VI.7.ii.b Cell Adhesion
  • VI.7.ii.c Cell Volume, Mitosis and Apoptosis
  • VI.7.ii.d Extracellular Matrix
  • VI.7.ii.e Cell Polarity
  • VI.7.ii.f Membrane Fluctuations
  • VI.7.ii.g Correlated Cell Motion
  • VI.7.ii.h Chemotaxis
  • VI.7.ii.i Pattern Formation by Reaction-Diffusion
  • VI.7.ii.j Modeling the Internal State of the Cell
  • VI.7.ii.k Model of Innervation
  • VI.7.ii.l Point Cellular Automata Simulations

VI.8 PRELIMINARY RESULTS

• VI.8.i Experimental Results
• VI.8.ii Theoretical and Computational Results

VI.9 RESEARCH DESIGN AND METHODS

• VI.9.i Gastrulation
  • VI.9.i.a Overview
  • VI.9.i.b Experiments
    • VI.9.i.b.1 The role of chemotaxis in primitive streak formation in chick
      • VI.9.i.b.1.i Hypothesis
      • VI.9.i.b.1.ii Methodology
    • VI.9.i.b.2 Zebrafish gastrulation
      • VI.9.i.b.2.i Overview
      • VI.9.i.b.2.ii Methodology
    • VI.9.i.c Models of Gastrulation
• VI.9.ii Limb Development
  • VI.9.ii.a Overview
  • VI.9.ii.b Computational Approach
  • VI.9.ii.c Subprojects
    • VI.9.ii.c.1 Subproject 1 — Role of fibronectin in precartilage condensations
      • VI.9.ii.c.1.i Experiments
      • VI.9.ii.c.1.ii CPM simulation of condensation
    • VI.9.ii.c.2 Subproject 2 — Activator-inhibitor interactions in skeletal pattern formation
      • VI.9.ii.c.2.i Overview
      • VI.9.ii.c.2.ii Background and significance
      • VI.9.ii.c.2.iii Hypothesis
      • VI.9.ii.c.2.iv Models
        • VI.9.ii.c.2.iv.a Cellular automata simulation of reaction-diffusion plus haptotaxis
    • VI.9.ii.c.3 Subproject 3 —Viscoelasticity of limb bud tissues
    • VI.9.ii.c.4 Subproject 4 — The Genetic Control of Limb Development
      • VI.9.ii.c.4.i Introduction
      • VI.9.ii.c.4.ii Goal
      • VI.9.ii.c.4.iii Animal and Tissue Models
      • VI.9.ii.c.4.iv Experimental Approach
    • VI.9.ii.c.5 Subproject 5 — Complete model for avian chondrogenesis
      • VI.9.ii.c.5.i Overview
      • VI.9.ii.c.5.ii Background
      • VI.9.ii.c.5.iii Hypothesis
      • VI.9.ii.c.5.iv Model and preliminary results
      • VI.9.ii.c.5.v Plan
• VI.9.iii Retinotectal and Muscular Innervation
  • VI.9.iii.a Retinotectal pathfinding and optic nerve fasciculation and defasciculation
    • VI.9.iii.a.1 Hypothesis
    • VI.9.iii.a.2 Methodology
  • VI.9.iii.b The Influence of Spatial Distributions of Receptors on Growth Cones and Variable Ligand Density on Target Cells on Topographic Map Formation
  • VI.9.iii.c Innervation in the Presence of Skeletal Elements
• VI.9.iv Cardiovascular Development
  • VI.9.iv.a Overview
  • VI.9.iv.b Preliminary Results
  • VI.9.iv.c Hypothesis
  • VI.9.iv.d Methodology
    • VI.9.iv.d.1 Assess the role of BMP-10 in enhancing embryonic cardiomyocyte proliferation in vitro
    • VI.9.iv.d.2 Overexpress BMP-10 in mouse myocardium to define the role of BMP-10 in cardiac growth and trabeculation
  • VI.9.iv.e Modeling of Cardiac Trabeculation

VI.10 RELATIONSHIP TO CYTOSKELETON (PROJECT 2) AND BIOLOGICAL NETWORKS (PROJECT 1)
VI.11 TIMELINE