Dispersal simulation code

Matlab code that was used in our paper to simulate numbers of seeds landing in quadrats along a transect based on empirical pdfs with randomly varying parameters

Schematic diagrams of transcription zone (green) and zones of proliferation.

<p>(A) Transcription zone in axially growing tissue at and at a later time . (B and C) Space (horizontal axis) versus time (vertical axis) diagram of transcription zone and zones of proliferation in the growing tissue. (B) Localized zone of cell proliferation. (C) Uniformly distributed cell proliferation.</p

Morphogen mRNA concentration with a localized zone of cell proliferation for for various values of .

<p>(A–C) Space–time plots of the morphogen mRNA concentration as a function of distance (horizontal axis) and time (vertical axis). The color indicates the mRNA concentration at that position and time point, as given by the color bar. (D–F) Plots of the concentration as a function of distance at times , the arrow indicating the direction of increasing . Here , and . Here , and . In each plot, the dashed line indicates the extent of the transcription zone ().</p

Space–time plots of the morphogen mRNA concentration with uniformly distributed cell proliferation as a function of distance (horizontal axis) and time (vertical axis), for various values of and .

<p>The color indicates the mRNA concentration at that position and time point, as given by the color bar. Here , and . In each plot, the dashed line indicates the extent of the transcription zone ().</p

Space–time plots of the morphogen mRNA concentration with a localized zone of cell proliferation as a function of distance (horizontal axis) and time (vertical axis), for various values of and .

<p>The color indicates the mRNA concentration at that position and time point, as given by the color bar. Here , and . In each plot, the dashed line indicates the extent of the transcription zone ().</p

Invasion of an occupied domain from the 2D band (displayed in Fig 2(a)).

<p>Green gentlemen cells are present with density <i>c</i>_<i>G</i> = 0.6. Red cells enter the domain at a rate of four attempts per time-step. Site occupancies, obtained from the agent–based model, are averaged over 300 independent realisations at times <i>t</i> = 50, 100, 250. The continuous curves denotes simple shovers, and broken curves denotes smart shovers. Arrows show increasing time.</p

Role of initial distances on the fate of pairs.

<p>Times of first break-up and fractions of runs with a break-up versus traction per site strength , for different initial cell separations. Memory effects are present only when C-M sites are rearranged randomly at each .</p

Invasion of an occupied domain from the upper horizontal (displayed in Fig 2(c)).

<p>Green gentlemen cells are present with density <i>c</i>_<i>G</i> = 0.6. Red cells enter the domain at a rate of four attempts per time-step. The continuous curves denotes simple shovers, and broken curves denotes smart shovers. Site occupancies, obtained from the agent–based model, are averaged over 300 independent realisations at times <i>t</i> = 50, 100, 250. Arrows show increasing time.</p

Effects of adhesion depletion for different decay laws.

<p>Comparison for companion times and fractions of break-ups versus traction per site strength for cases and . The inset subfigure shows the adhesion decay law . The colors depend on the exponent . The case where adhesion is constant is in red. The initial value of adhesion is given by × J. Note how stochastic traction forces are overall less sensitive than persistent pairs.</p

Cell counts, averaged over 300 realisations of the agent–based model, from invasion of an occupied domain (uniformly seeded green gentlemen cells with cell density <i>c</i>_<i>G</i> = 0.6).

<p>Continuous lines denote the scenario where invaders are simple shovers, whereas broken lines denote the scenario where invaders are smart shovers. Red cells enter the domain at a rate of four attempts per time-step. The red lines denotes the number of red cells present, the green lines denote the number of green gentlemen cells present and the black lines denote the total number of cells present.</p