Queueing induced by bidirectional motor motion near the end of a microtubule

Ashwin, Peter; Lin, Congping; Steinberg, Gero

doi:10.1103/physreve.82.051907

Cited by 33 publications

(68 citation statements)

References 28 publications

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“…Section 3 examines the influence of collisions and lane changes on bidirectional transport in this model. In particular we find cross-lane diffusion due to lane changes, and for low injection rates we find an approximately linear scaling of the tip size with injection rate as discussed in [20]. However, for higher injection rates we find there is a nonlinear growth in the tip size (depending on the lane-change rules) due to trapping of particles near the plus-end, and a singularity at a finite critical injection rate.…”

Section: Introductionsupporting

confidence: 69%

“…This mean field approximation of density works well for low densities but near the tip, plus-type and minus-type particles do not have complementary density as in [20]; in fact they can be at the same order near the tip for typical turning rates; for this reason it does not appear to be easy to obtain the mean tip size from a mean field approximation.…”

Section: Appendix a Mean Field Approximation For The Multi-lane Modelmentioning

confidence: 96%

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Bidirectional transport and pulsing states in a multi-lane ASEP model

Lin¹,

Steinberg²,

Ashwin³

2011

J. Stat. Mech.

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Abstract. In this paper, we introduce an ASEP-like transport model for bidirectional motion of particles on a multi-lane lattice. The model is motivated by in vivo experiments on organelle motility along a microtubule (MT), consisting of thirteen protofilaments, where particles are propelled by molecular motors (dynein and kinesin). In the model, organelles (particles) can switch directions of motion due to "tug-of-war" events between counteracting motors. Collisions of particles on the same lane can be cleared by switching to adjacent protofilaments (lane changes).We analyze transport properties of the model with no-flux boundary conditions at one end of a MT ("plus-end" or tip). We show that the ability of lane changes can affect the transport efficiency and the particle-direction change rate obtained from experiments is close to optimal in order to achieve efficient motor and organelle transport in a living cell. In particular, we find a nonlinear scaling of the mean tip size (the number of particles accumulated at the tip) with injection rate and an associated phase transition leading to pulsing states characterized by periodic filling and emptying of the system.

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Section: Introductionsupporting

confidence: 69%

Section: Appendix a Mean Field Approximation For The Multi-lane Modelmentioning

confidence: 96%

Bidirectional transport and pulsing states in a multi-lane ASEP model

Lin¹,

Steinberg²,

Ashwin³

2011

J. Stat. Mech.

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“…The stationary density profile can be derived from (22)(23)(24). It is found to be in agreement with the exact expression valid in the large system size limit [334], with in particular the same localization length ξ.…”

Section: Domain Wall Approachsupporting

confidence: 62%

“…For example, while [174] deals with open boundary conditions, the case of one open and one closed end is studied in [22] with a focus on the length of the queuing line that forms near the dead end.…”

Section: Multi-lane Bi-directional Transport With Bulk Lane Changesmentioning

confidence: 99%

Intracellular transport driven by cytoskeletal motors: General mechanisms and defects

2015

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Cells are the elementary units of living organisms, which are able to carry out many vital functions. These functions rely on active processes on a microscopic scale. Therefore, they are strongly out-of-equilibrium systems, which are driven by continuous energy supply. The tasks that have to be performed in order to maintain the cell alive require transportation of various ingredients, some being small, others being large. Intracellular transport processes are able to induce concentration gradients and to carry objects to specific targets. These processes cannot be carried out only by diffusion, as cells may be crowded, and quite elongated on molecular scales. Therefore active transport has to be organized.The cytoskeleton, which is composed of three types of filaments (microtubules, actin and intermediate filaments), determines the shape of the cell, and plays a role in cell motion. It also serves as a road network for a special kind of vehicles, namely the cytoskeletal motors. These molecules can attach to a cytoskeletal filament, perform directed motion, possibly carrying along some cargo, and then detach.It is a central issue to understand how intracellular transport driven by molecular motors is regulated. The interest for this type of question was enhanced when it was discovered that intracellular transport breakdown is one of the signatures of some neuronal diseases like the Alzheimer.We give a survey of the current knowledge on microtubule based intracellular transport. Our review includes on the one hand an overview of biological facts, obtained from experiments, and on the other hand a presentation of some modeling attempts based on cellular automata. We present some background knowledge on the original and variants of the TASEP (Totally Asymmetric Simple Exclusion Process), before turning to more application oriented models. After addressing microtubule based transport in general, with a focus on in vitro experiments, and on cooperative effects in the transportation of large cargos by multiple motors, we concentrate on axonal transport, because of its relevance for neuronal diseases. Some important characteristics of axonal transport is that it takes place in a confined environment; Besides several types of motors are involved, that move in opposite directions. It is a challenge to understand how this bidirectional transport is organized. We review several features that could contribute to the efficiency of bidirectional transport in the axon, including in particular the role of motor-motor interactions and of the dynamics of the underlying microtubule network. Finally, we also discuss some open questions that may be relevant for future research in this field.

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“…Using data obtained from in-vitro assays and through the use of ImageJ, we plot a sample of velocities of individually tracked endosomes as shown in [11,15,31,32,54]. Ashwin et al, [2] use an asymmetric simple exclusion process to model the motion of dynein along microtubles, both dynein that is carried towards the positive-end by kinesin and dynein that moves towards the negative-end.…”

Section: Methodsmentioning

confidence: 99%

From the Cell Membrane to the Nucleus: Unearthing Transport Mechanisms for Dynein

et al. 2012

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Mutations in the motor protein cytoplasmic dynein have been found to cause Charcot-MarieTooth disease in humans, spinal muscular atrophy and severe intellectual disabilities in humans.In mouse models neurodegeneration is observed. We sought to develop a novel model which could incorporate the effect of mutations on distance travelled and velocity. A mechanical model for the dynein mediated transport of endosomes is derived from first principles and solved numerically. The effects of variations in model parameter values are analysed to find those that have a significant impact on velocity and distance travelled. The model successfully describes the processivity of dynein and matches qualitatively the velocity profiles observed in experiments.

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Queueing induced by bidirectional motor motion near the end of a microtubule

Cited by 33 publications

References 28 publications

Bidirectional transport and pulsing states in a multi-lane ASEP model

Bidirectional transport and pulsing states in a multi-lane ASEP model

Intracellular transport driven by cytoskeletal motors: General mechanisms and defects

From the Cell Membrane to the Nucleus: Unearthing Transport Mechanisms for Dynein

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