Dissertation/Thesis Abstract

Multi-scale cell-based computational models of vertebrate segmentation and somitogenesis illuminate coordination of developmental mechanisms across scales
by Hester, Susan D., Ph.D., Indiana University, 2012, 179; 3506307
Abstract (Summary)

Somitogenesis, the formation of the body's primary segmental structure common to all vertebrate development, requires coordination between biological mechanisms at several scales. Explaining how these mechanisms interact across scales and how the events they generate are coordinated in space and time is necessary for a complete understanding of somitogenesis and its evolutionary flexibility. So far, mechanisms of somitogenesis have been studied independently. To test the consistency, integrability and combined explanatory power of current prevailing hypotheses, we built an integrated clock-and-wavefront model including submodels of the intracellular segmentation clock, intercellular segmentation-clock coupling via Delta/Notch signaling, an FGF8 determination front, delayed differentiation, clock-wavefront readout, and differential-cell-cell-adhesion-driven cell sorting. We identified inconsistencies between existing submodels and gaps in the current understanding of somitogenesis mechanisms, and proposed novel submodels and extensions of existing submodels where necessary. For reasonable initial conditions, two-dimensional simulations of our model robustly generate spatially and temporally regular somites, realistic dynamic morphologies and spontaneous emergence of anterior-traveling "pseudo waves" of Lfng. Our model is flexible enough to generate interspecies-like variation in somite size in response to changes in the PSM growth rate and segmentation-clock period, and in the number and width of Lfng stripes in response to changes in the PSM growth rate, segmentation-clock period and PSM length.

Indexing (document details)
Advisor: Glazier, James A.
Commitee: Baxter, David, Beggs, John, Pomerening, Joseph, Setayeshgar, Sima
School: Indiana University
Department: Physics
School Location: United States -- Indiana
Source: DAI-B 73/09(E), Dissertation Abstracts International
Source Type: DISSERTATION
Subjects: Cellular biology, Developmental biology, Biophysics
Keywords: Cell-based computation, Clock-and-wavefront, Compucell3d, Glazier-graner-hogeweg model, Multi-scale model, Pattern formation, Somitogenesis, Vertebrate segmentation
Publication Number: 3506307
ISBN: 978-1-267-31709-4
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