arXiv subjects

Scott A McKinley

Publications and source records attributed to Scott A McKinley.

3 recordsLinked to original sources

arXiv2024

Minimal Mechanisms of Microtubule Length Regulation in Living Cells

The microtubule cytoskeleton is responsible for sustained, long-range intracellular transport of mRNAs, proteins, and organelles in neurons. Neuronal microtubules must be stable enough to ensure reliable transport, but they also undergo dynamic instability, as their plus and minus ends continuously switch between growth and shrinking. This process allows for continuous rebuilding of the cytoskeleton and for flexibility in injury settings. Motivated by \textit{in vivo} experimental data on microtubule behavior in \textit{Drosophila} neurons, we propose a mathematical model of dendritic microtubule dynamics, with a focus on understanding microtubule length, velocity, and state-duration distributions. We find that limitations on microtubule growth phases are needed for realistic dynamics, but the type of limiting mechanism leads to qualitatively different responses to plausible experimental perturbations. We therefore propose and investigate two minimally-complex length-limiting factors: limitation due to resource (tubulin) constraints and limitation due to catastrophe of large-length microtubules. We combine simulations of a detailed stochastic model with steady-state analysis of a mean-field ordinary differential equations model to map out qualitatively distinct parameter regimes. This provides a basis for predicting changes in microtubule dynamics, tubulin allocation, and the turnover rate of tubulin within microtubules in different experimental environments.

math.DS↗

arXiv2017

Anomalous Diffusion and the Generalized Langevin Equation

The Generalized Langevin Equation (GLE) is a Stochastic Integro-Differential Equation that is commonly used to describe the velocity of microparticles that move randomly in viscoelastic fluids. Such particles commonly exhibit what is known as anomalous subdiffusion, which is to say that their position Mean-Squared Displacement (MSD) scales sublinearly with time. While it is common in the literature to observe that there is a relationship between the MSD and the memory structure of the GLE, and there exist special cases where explicit solutions exist, this connection has never been fully characterized. Here, we establish a class of memory kernels for which the GLE is well-defined; we investigate the associated regularity properties of solutions; and we prove that large-time asymptotic behavior of the particle MSD is entirely determined by the tail behavior of the GLE's memory kernel.

math.PR↗

arXiv2009

Anomalous diffusion of distinguished particles in bead-spring networks

We consider the anomalous sub-diffusion of a class of Gaussian processes that can be expressed in terms of sums of Ornstein-Uhlenbeck processes. As a generic class of processes, we introduce a single parameter such that for any $ν\in (0,1)$ the process can be tuned to produce a mean-squared displacement with $\E{x^2(t)} \sim t^ν$ for large $t$. The motivation for the specific structure of these sums of OU processes comes from the Rouse chain model from polymer kinetic theory. We generalize the model by studying the general dynamics of individual particles in networks of thermally fluctuating beads connected by Hookean springs. Such a set-up is similar to the study of Kac-Zwanzig heat bath models. Whereas the existing heat bath literature places its assumptions on the spectrum of the Laplacian matrix associated to the spring connection graph, we study explicit graph structures. In this setting we prove a notion of universality for the Rouse chain's well-known $\E{x^2(t)} \sim t^{1/2}$ scaling behavior. Subsequently we demonstrate the existence of other anomalous behavior by changing the dimension of the connection graph or by allowing repulsive forces among the beads.

math.PR↗