Bidirectional transport in a multispecies totally asymmetric exclusion-process model

Muhuri, Sudipto; Shagolsem, Lenin S.; Rao, Madan

doi:10.1103/physreve.84.031921

Cited by 26 publications

(32 citation statements)

References 31 publications

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“…New effects are seen when interconversion (or, more generally, nonconservation of particle number) occurs. Multispecies models that allow for interconversion have been studied earlier in the context of transport in single [16][17][18][19][20] and multiple [21][22][23][24] channels [25]. These models differ from the present work in that they restrict the occupancy to at most one particle per site in each channel.…”

Section: A Modelmentioning

confidence: 99%

Multispecies model with interconversion, chipping, and injection

2011

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Motivated by the phenomenology of transport through the Golgi apparatus of cells, we study a multispecies model with boundary injection of one species of particle, interconversion between the different species of particle, and driven diffusive movement of particles through the system by chipping of a single particle from a site. The model is analyzed in one dimension using equations for particle currents. It is found that, depending on the rates of various processes and the asymmetry in the hopping, the system may exist either in a steady phase, in which the average mass at each site attains a time-independent value, or in a "growing" phase, in which the total mass grows indefinitely in time, even in a finite system. The growing phases have interesting spatial structure. In particular, we find phases in which some spatial regions of the system have a constant average mass, while other regions show unbounded growth.

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Section: A Modelmentioning

confidence: 99%

Multispecies model with interconversion, chipping, and injection

2011

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“…Such systems have also served the purpose of providing a framework for studying wide class of driven biological phenomenon ranging from transport across biomembranes [4], to transport on individual cellular filament [5][6][7][8][9] and cytoskeletal filament network [10].…”

Section: Introductionmentioning

confidence: 99%

“…Some of the previous theoretical attempts have focused on the interplay of stochastic directional switching mechanisms, directional hopping of individual cargoes and the effect of the input and output of the cargoes on the boundaries on a single filament [8,9,16]. However for a variety of biological situations such as axonal transport in neurons, cargo transport takes place on a multiple parallel array of MT filaments [15,17].…”

Section: Introductionmentioning

confidence: 99%

Driven transport on open filaments with interfilament switching processes

2017

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We study a two filament driven lattice gas model with oppositely directed species of particles moving on two parallel filaments with filament switching processes and particle inflow and outflow at filament ends. The filament switching process is correlated such that particles switch filaments with finite probability only when oppositely directed particles meet on the same filament. This model mimics some of the coarse grained features observed in context of microtubule (MT) based intracellular transport, wherein cellular cargo loaded and off-loaded at filament ends are transported on multiple parallel microtubule (MT) filaments and can switch between the parallel microtubule filaments. We focus on a regime where the filaments are weakly coupled, such that filament switching rates scale inversely as the length of the filament. We find that the interplay (off)loading processes at the boundaries and the filament switching process leads to some distinctive features of the system. These features includes occurrence of variety of phases in the system with inhomogeneous density profiles including localized density shocks, density difference across the filaments and bidirectional current flows in the system. We analyze the system by developing a mean field (MF) theory and comparing the results obtained from the MF theory with the Monte Carlo (MC) simulations of the dynamics of the system. We find that the steady state density and current profiles of particles and the phase diagram obtained within the MF picture matches quite well with MC simulation results. These findings maybe useful for studying multi-filament intracellular transport.

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“…Another approach assumes that the exclusion principle only applies to particles moving in the same direction and the presence of a motor in the opposite direction modifies the rate at which motors enter a site [11]. Alternatively, a high direction-change rate can avoid clusters due to collisions [12]. * Corresponding author: C.Lin@exeter.ac.uk Moreover, Evans et al introduced another possibility [13] to avoid collisions by allowing particle interchanges when they meet.…”

Section: Introductionmentioning

confidence: 99%

Motor-mediated bidirectional transport along an antipolar microtubule bundle: A mathematical model

Lin

Ashwin²,

Steinberg³

2013

Phys. Rev. E

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Long-distance bidirectional transport of organelles depends on the coordinated motion of various motor proteins on the cytoskeleton. Recent quantitative live cell imaging in the elongated hyphal cells of Ustilago maydis has demonstrated that long-range motility of motors and their endosomal cargo occurs on unipolar microtubules (MTs) near the extremities of the cell. These MTs are bundled into antipolar bundles within the central part of the cell. Dynein and kinesin-3 motors coordinate their activity to move early endosomes (EEs) in a bidirectional fashion where dynein drives motility towards MT minus ends and kinesin towards MT plus ends. Although this means that one can easily assign the drivers of bidirectional motion in the unipolar section, the bipolar orientations in the bundle mean that it is possible for either motor to drive motion in either direction. In this paper we use a multilane asymmetric simple exclusion process modeling approach to simulate and investigate phases of bidirectional motility in a minimal model of an antipolar MT bundle. In our model, EE cargos (particles) change direction on each MT with a turning rate and there is switching between MTs in the bundle at the minus ends. At these ends, particles can hop between MTs with rate q 1 on passing from a unipolar to a bipolar section (the obstacle-induced switching rate) or q 2 on passing in the other direction (the end-induced switching rate). By a combination of numerical simulations and mean-field approximations, we investigate the distribution of particles along the MTs for different values of these parameters and of , the overall density of particles within this closed system. We find that even if is low, the system can exhibit a variety of phases with shocks in the density profiles near plus and minus ends caused by queuing of particles. We discuss how the parameters influence the type of particle that dominates active transport in the bundle.

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Bidirectional transport in a multispecies totally asymmetric exclusion-process model

Cited by 26 publications

References 31 publications

Multispecies model with interconversion, chipping, and injection

Multispecies model with interconversion, chipping, and injection

Driven transport on open filaments with interfilament switching processes

Motor-mediated bidirectional transport along an antipolar microtubule bundle: A mathematical model

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