Subdiffusive rocking ratchets in viscoelastic media: Transport optimization and thermodynamic efficiency in overdamped regime

Kharchenko, Vasyl O.; Goychuk, Igor

doi:10.1103/physreve.87.052119

Cited by 24 publications

(32 citation statements)

References 48 publications

(101 reference statements)

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“…The thermodynamic efficiency in this strongly anomalous transport regime is rather small, see Figure 3,b. Moreover, it becomes an algebraically decaying function of time [50], [51], . This happens because scales sublinearly with time, while the input energy is consumed at a constant rate.…”

Section: Resultsmentioning

confidence: 99%

How Molecular Motors Work in the Crowded Environment of Living Cells: Coexistence and Efficiency of Normal and Anomalous Transport

2014

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Recent experiments reveal both passive subdiffusion of various nanoparticles and anomalous active transport of such particles by molecular motors in the molecularly crowded environment of living biological cells. Passive and active microrheology reveals that the origin of this anomalous dynamics is due to the viscoelasticity of the intracellular fluid. How do molecular motors perform in such a highly viscous, dissipative environment? Can we explain the observed co-existence of the anomalous transport of relatively large particles of 100 to 500 nm in size by kinesin motors with the normal transport of smaller particles by the same molecular motors? What is the efficiency of molecular motors in the anomalous transport regime? Here we answer these seemingly conflicting questions and consistently explain experimental findings in a generalization of the well-known continuous diffusion model for molecular motors with two conformational states in which viscoelastic effects are included.

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Section: Resultsmentioning

confidence: 99%

How Molecular Motors Work in the Crowded Environment of Living Cells: Coexistence and Efficiency of Normal and Anomalous Transport

2014

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“…We consider one-dimensional viscoelastic subdiffusion governed by the following overdamped subdiffusive FLE [10,55,128]…”

Section: Model and Numerical Approachmentioning

confidence: 99%

Viscoelastic subdiffusion in a random Gaussian environment

Goychuk

2018

Phys. Chem. Chem. Phys.

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Viscoelastic subdiffusion governed by a fractional Langevin equation is studied numerically in a random Gaussian environment modeled by stationary Gaussian potentials with decaying spatial correlations. This anomalous diffusion is archetypal for living cells, where cytoplasm is known to be viscoelastic and a spatial disorder also naturally emerges. We obtain some first important insights into it within a model one-dimensional study. Two basic types of potential correlations are studied: short-range exponentially decaying and algebraically slow decaying with an infinite correlation length, both for a moderate (several kT, in the units of thermal energy), and strong (5-10kT) disorder. For a moderate disorder, it is shown that on the ensemble level viscoelastic subdiffusion can easily overcome the medium's disorder. Asymptotically, it is not distinguishable from the disorder-free subdiffusion. However, a strong scatter in single-trajectory averages is nevertheless seen even for a moderate disorder. It features a weak ergodicity breaking, which occurs on a very long yet transient time scale. Furthermore, for a strong disorder, a very long transient regime of logarithmic, Sinai-type diffusion emerges. It can last longer and be faster in the absolute terms for weakly decaying correlations as compared with the short-range correlations. Residence time distributions in a finite spatial domain are of a generalized log-normal type and are reminiscent also of a stretched exponential distribution. They can be easily confused for power-law distributions in view of the observed weak ergodicity breaking. This suggests a revision of some experimental data and their interpretation.

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“…5), and being of relevance to the overall nano-tribological depiction we are addressing. When transforming previous studies [11,31] into our present scheme with close analogy to [33], one would list them as follows. If at the first instance x 0,…”

Section: Entropic Effect Of Crowding On the Proton Channel (Thermo)dymentioning

confidence: 99%

Toward a Governing Mechanism of Nanoscale Articular Cartilage (Physiologic) Lubrication: Smoluchowski-type Dynamics in Amphiphile Proton Channels

Gadomski¹,

Bełdowski²,

Augé³

et al. 2013

Acta Phys. Pol. B

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1801) 1802 A. Gadomski et al.Articular cartilage is an extraordinary tribochemical device designed by nature. Yet, a long-standing debate exists as to the mechanisms by which its interfacial properties facilitate lubrication toward very low static and kinetic frictional coefficients. We postulate the physiologic emergence of proton channels in amphiphile-water sub-systems undergoing mesoscopic Smoluchowski-type dynamics as a governing mechanism toward nanoscale articular cartilage lubrication. We argue that an enthalpic interplay between geometric and electrostatic confinement and the associated entropic counterpart is characteristic of proton channel crowding rather than of proton drift. A proton-wave inversion effect also supported by quantum mechanical evaluation is demonstrated such that the wave plays a beneficial role in nanoscale lubrication driven by local free-energy gradients. These findings have practical implications for the treatment of damaged articular cartilage as exemplified by the physiochemical scalpel used in modern tissue rescue interventions as a wound healing biomimic facilitating articular cartilage lesion recovery. Amphiphile proton channels also provide a mechanism for surface active phospholipid self-assembly supportive of their efficacy as an occasional sacrificial layer designed to mitigate certain perturbation events. This behavior remains a necessary requisite to reconstitute normal bearing surfaces after therapeutic tissue rescue.

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Subdiffusive rocking ratchets in viscoelastic media: Transport optimization and thermodynamic efficiency in overdamped regime

Cited by 24 publications

References 48 publications

How Molecular Motors Work in the Crowded Environment of Living Cells: Coexistence and Efficiency of Normal and Anomalous Transport

How Molecular Motors Work in the Crowded Environment of Living Cells: Coexistence and Efficiency of Normal and Anomalous Transport

Viscoelastic subdiffusion in a random Gaussian environment

Toward a Governing Mechanism of Nanoscale Articular Cartilage (Physiologic) Lubrication: Smoluchowski-type Dynamics in Amphiphile Proton Channels

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