arXiv subjects

Kento Yasuda

Publications and source records attributed to Kento Yasuda.

At least 37 records · Page 2Linked to original sources

arXiv2022

Time-correlation functions for odd Langevin systems

We investigate the statistical properties of fluctuations in active systems that are governed by non-symmetric responses. Both an underdamped Langevin system with an odd resistance tensor and an overdamped Langevin system with an odd elastic tensor are studied. For a system in thermal equilibrium, the time-correlation functions should satisfy time-reversal symmetry and the anti-symmetric parts of the correlation functions should vanish. For the odd Langevin systems, however, we find that the anti-symmetric parts of the time-correlation functions can exist and that they are proportional to either the odd resistance coefficient or the odd elastic constant. This means that the time-reversal invariance of the correlation functions is broken due to the presence of odd responses in active systems. Using the short-time asymptotic expressions of the time-correlation functions, one can estimate an odd elastic constant of an active material such as an enzyme or a motor protein.

cond-mat.soft↗

arXiv2022

Self-organized swimming with odd elasticity

We theoretically investigate self-oscillating waves of an active material, which have recently been introduced as a non-symmetric part of the elastic moduli, termed odd elasticity. Using Purcell's three-link swimmer model, we reveal that an odd-elastic filament at low Reynolds number can swim in a self-organized manner and that the time-periodic dynamics are characterized by a stable limit cycle generated by elastohydrodynamic interactions. Also, we consider a noisy shape gait and derive a swimming formula for a general elastic material in the Stokes regime with its elasticity modulus being represented by a non-symmetric matrix, demonstrating that the odd elasticity produces biased net locomotion from random noise.

cond-mat.soft↗

arXiv2021

The Onsager-Machlup Integral for Non-reciprocal Systems with Odd Elasticity

The variational principle of the Onsager-Machlup integral is used to describe the stochastic dynamics of a micromachine, such as an enzyme, characterized by odd elasticity. The obtained most probable path is found to become non-reciprocal in the presence of odd elasticity and is further related to the entropy production.

cond-mat.soft↗

arXiv2021

Nonreciprocality of a micromachine driven by a catalytic chemical reaction

We propose a model that describes cyclic state transitions of a micromachine driven by a catalytic chemical reaction. We consider a mechano-chemical coupling of variables representing the degree of a chemical reaction and the internal state of a micromachine. The total free energy consists of a tilted periodic potential and a mechano-chemical coupling energy. We assume that the reaction variable obeys a deterministic stepwise dynamics characterized by two typical time scales, i.e., the mean first passage time and the mean first transition path time. To estimate the functionality of a micromachine, we focus on the quantity called "nonreciprocality" and further discuss its dependence on the properties of catalytic reaction. For example, we show that the nonreciprocality is proportional to the square of the mean first transition path time. The explicit calculation of the two time scales within the decoupling approximation model reveals that the nonreciprocality is inversely proportional to the square of the energy barrier of catalytic reaction.

cond-mat.soft↗

arXiv2021

Odd Microswimmer

We propose a model for a thermally driven microswimmer in which three spheres are connected by two springs with odd elasticity. We demonstrate that the presence of odd elasticity leads to the directional locomotion of the stochastic microswimmer.

cond-mat.soft↗

arXiv2020

Autonomous elastic microswimmer

A model of an autonomous three-sphere microswimmer is proposed by implementing a coupling effect between the two natural lengths of an elastic microswimmer. Such a coupling mechanism is motivated by the previous models for synchronization phenomena in coupled oscillator systems. We numerically show that a microswimmer can acquire a nonzero steady state velocity and a finite phase difference between the oscillations in the natural lengths. These velocity and phase difference are almost independent of the initial phase difference. There is a finite range of the coupling parameter for which a microswimmer can have an autonomous directed motion. The stability of the phase difference is investigated both numerically and analytically in order to determine its bifurcation structure.

cond-mat.soft↗

arXiv2020

Irreversibility and entropy production of a thermally driven micromachine

We discuss the non-equilibrium properties of a thermally driven micromachine consisting of three spheres which are in equilibrium with independent heat baths characterized by different temperatures. Within the framework of a linear stochastic Langevin description, we calculate the time-dependent average irreversibility that takes a maximum value for a finite time. This time scale is roughly set by the spring relaxation time. The steady-state average entropy production rate is obtained in terms of the temperatures and the friction coefficients of the spheres. The average entropy production rate depends on thermal and/or mechanical asymmetry of a three-sphere micromachine. We also obtain the center of mass diffusion coefficient of a thermally driven three-sphere micromachine as a function of different temperatures and friction coefficients. With the results of the total entropy production rate and the diffusion coefficient, we finally discuss the efficiency of a thermally driven micromachine.

cond-mat.stat-mech↗

arXiv2020

Reciprocal microswimmers in a viscoelastic fluid

We suggest several reciprocal swimming mechanisms that lead to a locomotion only in viscoelastic fluids. The first situation is to have a difference between the two amplitudes of the oscillatory arm motion for a three-sphere microswimmer. The second situation is when one of the frequencies of the arm motion is twice as large as the other one for a three-sphere microswimmer. The third situation is when the sphere sizes are different for a two-sphere microswimmer. In all these three cases, the average velocity is proportional to the imaginary part of the complex shear viscosity of a surrounding viscoelastic medium. It is essential for a micromachine to break its structural symmetry in order to swim in a viscoelastic fluid by performing reciprocal body motions.

cond-mat.soft↗

arXiv2020

Dynamics of a membrane coupled to an active fluid

The dynamics of a membrane coupled to an active fluid on top of a substrate is considered theoretically. It is assumed that the director field of the active fluid has rotational symmetry in the membrane plane. This situation is likely to be relevant for in vitro reconstructed actomyosin-membrane system. Different from a membrane coupled to a polar active fluid, this model predicts that only when the viscosity of the fluid above the membrane is sufficiently large, a contractile active fluid is able to slow down the relaxation of the membrane for perturbations with wavelength comparable to the thickness of the active fluid. Hence our model predicts a finite-wavelength instability in the limit of strong contractility, which is different from a membrane coupled to a polar active fluid. On the other hand, a membrane coupled to an extensile active fluid is always unstable against long wavelength perturbations due to splay induced flows.

cond-mat.soft↗

arXiv2019

Non-equilibrium probability flux of a thermally driven micromachine

We discuss the non-equilibrium statistical mechanics of a thermally driven micromachine consisting of three spheres and two harmonic springs [Y. Hosaka et al., J. Phys. Soc. Jpn. 86, 113801 (2017)]. We obtain the non-equilibrium steady state probability distribution function of such a micromachine and calculate its probability flux in the corresponding configuration space. The resulting probability flux can be expressed in terms of a frequency matrix that is used to distinguish between a non-equilibrium steady state and a thermal equilibrium state satisfying detailed balance. The frequency matrix is shown to be proportional to the temperature difference between the spheres. We obtain a linear relation between the eigenvalue of the frequency matrix and the average velocity of a thermally driven micromachine that can undergo a directed motion in a viscous fluid. This relation is consistent with the scallop theorem for a deterministic three-sphere microswimmer.

cond-mat.stat-mech↗

arXiv2019

Hydrodynamic interaction between two elastic microswimmers

We investigate the hydrodynamic interaction between two elastic swimmers which are composed of three spheres and two harmonic springs. In this model, the natural length of each spring is assumed to undergo a prescribed cyclic change, representing internal states of the swimmer [K. Yasuda et al., J. Phys. Soc. Jpn. 86, 093801 (2017)]. We obtain the average velocities of two identical elastic swimmers as a function of the distance between them both for structurally asymmetric and symmetric swimmers. We show that the mean velocity of the two swimmers is always smaller than that of a single elastic swimmer. The swimming state of two swimmers can be either bound or unbound depending on the relative phase difference between the two elastic swimmers.

cond-mat.soft↗

arXiv2018

A three-sphere microswimmer in a structured fluid

We discuss the locomotion of a three-sphere microswimmer in a viscoelastic structured fluid characterized by typical length and time scales. We derive a general expression to link the average swimming velocity to the sphere mobilities. In this relationship, a viscous contribution exists when the time-reversal symmetry is broken, whereas an elastic contribution is present when the structural symmetry of the microswimmer is broken. As an example of a structured fluid, we consider a polymer gel, which is described by a "two-fluid" model. We demonstrate in detail that the competition between the swimmer size and the polymer mesh size gives rise to the rich dynamics of a three-sphere microswimmer.

cond-mat.soft↗

arXiv2018

Three-disk microswimmer in a supported fluid membrane

A model of three-disk micromachine swimming in a quasi two-dimensional supported membrane is proposed. We calculate the average swimming velocity as a function of the disk size and the arm length. Due to the presence of the hydrodynamic screening length in the quasi two-dimensional fluid, the geometric factor appearing in the average velocity exhibits three different asymptotic behaviors depending on the microswimmer size and the hydrodynamic screening length. This is in sharp contrast with a microswimmer in a three-dimensional bulk fluid that shows only a single scaling behavior. We also find that the maximum velocity is obtained when the disks are equal-sized, whereas it is minimized when the average arm lengths are identical. The intrinsic drag of the disks on the substrate does not alter the scaling behaviors of the geometric factor.

cond-mat.soft↗

arXiv2018

Dynamics of a bilayer membrane with membrane-solvent partial slip boundary conditions

We discuss the dynamics of a bilayer membrane with partial slip boundary conditions between the monolayers and the bulk fluid. Using Onsager's variational principle to account for the associated dissipations, we derive the coupled dynamic equations for the membrane height and the excess lipid density. The newly introduced friction coefficients appear in the renormalized fluid viscosities. For ordinary lipid bilayer membranes, we find that it is generally justified to ignore the effects of permeation and parallel slip at the membrane surface.

cond-mat.soft↗

arXiv2018

Thermal and active fluctuations of a compressible bilayer vesicle

We discuss thermal and active fluctuations of a compressible bilayer vesicle by using the results of hydrodynamic theory for vesicles. Coupled Langevin equations for the membrane deformation and the density fields are employed to calculate the power spectral density matrix of membrane fluctuations. Thermal contribution is obtained by means of the fluctuation dissipation theorem, whereas active contribution is calculated from exponentially decaying time correlation functions of active random forces. We obtain the total power spectral density as a sum of thermal and active contributions. An apparent response function is further calculated in order to compare with the recent microrheology experiment on red blood cells. An enhanced response is predicted in the low-frequency regime for non-thermal active fluctuations.

cond-mat.soft↗

arXiv2017

Thermally Driven Elastic Micromachines

We discuss the directional motion of an elastic three-sphere micromachine in which the spheres are in equilibrium with independent heat baths having different temperatures. Even in the absence of prescribed motion of springs, such a micromachine can gain net motion purely because of thermal fluctuations. A relation connecting the average velocity and the temperatures of the spheres is analytically obtained. This velocity can also be expressed in terms of the average heat flows in the steady state. Our model suggests a new mechanism for the locomotion of micromachines in nonequilibrium biological systems.

cond-mat.soft↗

arXiv2017

Elastic three-sphere microswimmer in a viscous fluid

We discuss the dynamics of a generalized three-sphere microswimmer in which the spheres are connected by two elastic springs. The natural length of each spring is assumed to undergo a prescribed cyclic change. We analytically obtain the average swimming velocity as a function of the frequency of the cyclic change in the natural length. In the low-frequency region, the swimming velocity increases with the frequency and its expression reduces to that of the original three-sphere model by Najafi and Golestanian. In the high-frequency region, conversely, the average velocity decreases with increasing the frequency. Such a behavior originates from the intrinsic spring relaxation dynamics of an elastic swimmer moving in a viscous fluid.

cond-mat.soft↗

arXiv2017

Lateral diffusion induced by active proteins in a biomembrane

We discuss the hydrodynamic collective effects due to active protein molecules that are immersed in lipid bilayer membranes and modeled as stochastic force dipoles. We specifically take into account the presence of the bulk solvent which surrounds the two-dimensional fluid membrane. Two membrane geometries are considered: the free membrane case and the confined membrane case. Using the generalized membrane mobility tensors, we estimate the active diffusion coefficient and the drift velocity as a function of the size of a diffusing object. The hydrodynamic screening lengths distinguish the two asymptotic regimes of these quantities. Furthermore, the competition between the thermal and non-thermal contributions in the total diffusion coefficient is characterized by two length scales corresponding to the two membrane geometries. These characteristic lengths describe the crossover between different asymptotic behaviors when they are larger than the hydrodynamic screening lengths.

cond-mat.soft↗