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Villalobos C, Cordero ML, Clément E, Soto R. Recovering the activity parameters of an active fluid confined in a sphere. Phys Rev E 2024; 110:014610. [PMID: 39160977 DOI: 10.1103/physreve.110.014610] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2024] [Accepted: 07/08/2024] [Indexed: 08/21/2024]
Abstract
The properties of an active fluid, for example, a bacterial bath or a collection of microtubules and molecular motors, can be accessed through the dynamics of passive particle probes. Here, in the perspective of analyzing experimental situations of confinement in droplets, we consider the kinematics of a negatively buoyant probe particle in an active fluid, both confined within a spherical domain. The active bath generates a fluctuating flow that pushes the particle with a velocity that is modeled as a colored stochastic noise, characterized by two parameters, the intensity and memory time of the active flow. When the particle departs a little from the bottom of the spherical domain, the configuration is well approximated by a particle in a two-dimensional harmonic trap subjected to the colored noise, in which case an analytical solution exists, which is the base for quantitative analysis. We numerically simulate the dynamics of the particle and use the planar, two-dimensional mean square displacement to recover the activity parameters of the bath. This approach yields satisfactory results as long as the particle remains relatively confined; that is, as long as the intensity of the colored noise remains low.
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Goswami K, Metzler R. Trapped tracer in a non-equilibrium bath: dynamics and energetics. SOFT MATTER 2023; 19:8802-8819. [PMID: 37946588 DOI: 10.1039/d3sm01177a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2023]
Abstract
We study the dynamics of a tracer that is elastically coupled to active particles being kept at two different temperatures, as a prototype of tracer dynamics in a non-equilibrium bath. Employing analytical techniques, we find the exact solution of the probability density function for the effective motion of the tracer. The analytical results are supported by numerical simulations. By combining the experimentally accessible quantities such as the response function and the power spectrum, we measure the non-equilibrium fluctuations in terms of the effective temperature. In addition, we compute the energy dissipation rate to find the precise effects of activity. Our study is relevant in understanding athermal fluctuations arising in cytoskeletal networks or inside a chromosome.
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Affiliation(s)
- Koushik Goswami
- Institute of Physics & Astronomy, University of Potsdam, 14476 Potsdam-Golm, Germany.
| | - Ralf Metzler
- Institute of Physics & Astronomy, University of Potsdam, 14476 Potsdam-Golm, Germany.
- Asia Pacific Centre for Theoretical Physics, Pohang 37673, Republic of Korea.
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Sarkar R, Santra I, Basu U. Stationary states of activity-driven harmonic chains. Phys Rev E 2023; 107:014123. [PMID: 36797958 DOI: 10.1103/physreve.107.014123] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2022] [Accepted: 12/22/2022] [Indexed: 01/19/2023]
Abstract
We study the stationary state of a chain of harmonic oscillators driven by two active reservoirs at the two ends. These reservoirs exert correlated stochastic forces on the boundary oscillators which eventually leads to a nonequilibrium stationary state of the system. We consider three most well-known dynamics for the active force, namely, the active Ornstein-Uhlenbeck process, run-and-tumble process, and active Brownian process, all of which have exponentially decaying two-point temporal correlations but very different higher-order fluctuations. We show that, irrespective of the specific dynamics of the drive, the stationary velocity fluctuations are Gaussian in nature with a kinetic temperature which remains uniform in the bulk. Moreover, we find the emergence of an "equipartition of energy" in the bulk of the system-the bulk kinetic temperature equals the bulk potential temperature in the thermodynamic limit. We also calculate the stationary distribution of the instantaneous energy current in the bulk which always shows a logarithmic divergence near the origin and asymmetric exponential tails. The signatures of specific active driving become visible in the behavior of the oscillators near the boundary. This is most prominent for the RTP- and ABP-driven chains where the boundary velocity distributions become non-Gaussian and the current distribution has a finite cutoff.
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Affiliation(s)
- Ritwick Sarkar
- S. N. Bose National Centre for Basic Sciences, Kolkata 700106, India
| | - Ion Santra
- Raman Research Institute, Bengaluru 560080, India
| | - Urna Basu
- S. N. Bose National Centre for Basic Sciences, Kolkata 700106, India.,Raman Research Institute, Bengaluru 560080, India
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Granek O, Kafri Y, Tailleur J. Anomalous Transport of Tracers in Active Baths. PHYSICAL REVIEW LETTERS 2022; 129:038001. [PMID: 35905354 DOI: 10.1103/physrevlett.129.038001] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/18/2021] [Revised: 12/23/2021] [Accepted: 06/21/2022] [Indexed: 06/15/2023]
Abstract
We derive the long-time dynamics of a tracer immersed in a one-dimensional active bath. In contrast to previous studies, we find that the damping and noise correlations possess long-time tails with exponents that depend on the tracer symmetry. For generic tracers, shape asymmetry induces ratchet effects that alter fluctuations and lead to superdiffusion and friction that grows with time when the tracer is dragged at a constant speed. In the singular limit of a completely symmetric tracer, we recover normal diffusion and finite friction. Furthermore, for small symmetric tracers, the active contribution to the friction becomes negative: active particles enhance motion rather than oppose it. These results show that, in low-dimensional systems, the motion of a passive tracer in an active bath cannot be modeled as a persistent random walker with a finite correlation time.
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Affiliation(s)
- Omer Granek
- Department of Physics, Technion-Israel Institute of Technology, Haifa 3200003, Israel
| | - Yariv Kafri
- Department of Physics, Technion-Israel Institute of Technology, Haifa 3200003, Israel
| | - Julien Tailleur
- Université de Paris, Laboratoire Matière et Systèmes Complexes (MSC), UMR 7057 CNRS, F-75205 Paris, France
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Goswami K. Inertial particle under active fluctuations: Diffusion and work distributions. Phys Rev E 2022; 105:044123. [PMID: 35590542 DOI: 10.1103/physreve.105.044123] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2021] [Accepted: 03/30/2022] [Indexed: 06/15/2023]
Abstract
We study the underdamped motion of a passive particle in an active environment. Using the phase space path integral method we find the probability distribution function of position and velocity for a free and a harmonically bound particle. The environment is characterized by an active noise which is described as the Ornstein-Uhlenbeck process (OUP). Taking two similar, yet slightly different OUP models, it is shown how inertia along with other relevant parameters affect the dynamics of the particle. Further we investigate the work fluctuations of a harmonically trapped particle by considering the trap center being pulled at a constant speed. Finally, the fluctuation theorem of work is validated with an effective temperature in the steady-state limit.
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Affiliation(s)
- Koushik Goswami
- Department of Chemistry, Indian Institute of Technology Bombay, Mumbai, Powai 400076, India and Institute of Physics & Astronomy, University of Potsdam, Karl-Liebknecht-Straße 24/25, 14476 Potsdam-Golm, Germany
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Goswami K, Chakrabarti R. Motion of an active particle with dynamical disorder. SOFT MATTER 2022; 18:2332-2345. [PMID: 35244134 DOI: 10.1039/d1sm01816g] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
We propose a model for investigating the motion of a single active particle in a heterogeneous environment where the heterogeneity may arise due to crowding, conformational fluctuations and/or slow rearrangement of the surroundings. Describing the active particle in terms of the Ornstein-Uhlenbeck process (OUP) and incorporating heterogeneity in a thermal bath using two separate models, namely "diffusing diffusivity" and "switching diffusion", we explore the essential dynamical properties of the particle for its one-dimensional motion. In addition, we show how the dynamical behavior is controlled by dynamical variables associated with active noise such as strength and persistence time. Our model is relevant in the context of single particle dynamics in a crowded environment, driven by activity.
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Affiliation(s)
- Koushik Goswami
- Department of Chemistry, Indian Institute of Technology Bombay, Mumbai, Powai 400076, India.
| | - Rajarshi Chakrabarti
- Department of Chemistry, Indian Institute of Technology Bombay, Mumbai, Powai 400076, India.
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Goswami K, Chakrabarti R. Stochastic resetting and first arrival subjected to Gaussian noise and Poisson white noise. Phys Rev E 2021; 104:034113. [PMID: 34654068 DOI: 10.1103/physreve.104.034113] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2021] [Accepted: 08/26/2021] [Indexed: 01/25/2023]
Abstract
We study the dynamics of an overdamped Brownian particle subjected to Poissonian stochastic resetting in a nonthermal bath, characterized by a Poisson white noise and a Gaussian noise. Applying the renewal theory we find an exact analytical expression for the spatial distribution at the steady state. Unlike the single exponential distribution as observed in the case of a purely thermal bath, the distribution is double exponential. Relaxation of the transient spatial distributions to the stationary one, for the limiting cases of Poissonian rate, is investigated carefully. In addition, we study the first-arrival properties of the system in the presence of a delta-function sink with strength κ, where κ=0 and κ=∞ correspond to fully nonreactive and fully reactive sinks, respectively. We explore the effect of two competitive mechanisms: the diffusive spread in the presence of two noises and the increase in probability density around the initial position due to stochastic resetting. We show that there exists an optimal resetting rate, which minimizes the mean first-arrival time (MFAT) to the sink for a given value of the sink strength. We also explore the effect of the strength of the Poissonian noise on MFAT, in addition to sink strength. Our formalism generalizes the diffusion-limited reaction under resetting in a nonequilibrium bath and provides an efficient search strategy for a reactant to find a target site, relevant in a range of biophysical processes.
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Affiliation(s)
- Koushik Goswami
- Department of Chemistry, Indian Institute of Technology Bombay, Mumbai, Powai 400076, India
| | - Rajarshi Chakrabarti
- Department of Chemistry, Indian Institute of Technology Bombay, Mumbai, Powai 400076, India
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Ye S, Liu P, Ye F, Chen K, Yang M. Active noise experienced by a passive particle trapped in an active bath. SOFT MATTER 2020; 16:4655-4660. [PMID: 32373861 DOI: 10.1039/d0sm00006j] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
We study the properties of active noise experienced by a passive particle harmonically trapped in an active bath. The active bath is either explicitly simulated by an ensemble of active Brownian particles or abstractly represented by an active colored noise in theory. Assuming the equivalence of the two descriptions of the active bath, the active noise in the simulation system, which is directly extracted by fitting theoretical predictions to simulation measurements, is shown to depend on the constraint suffered by the passive tracer. This scenario is in significant contrast to the case of thermal noise that is independent of external trap potentials. The constraint dependence of active noise arises from the fact that the persistent force on the passive particle from the active bath can be influenced by the particle relaxation dynamics. Moreover, due to the interplay between the active collisions and particle relaxation dynamics, the effective temperature of the passive tracer quantified as the ratio of fluctuation to dissipation increases as the constraint strengthens, while the average potential and kinetic energies of the passive particle both decrease.
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Affiliation(s)
- Simin Ye
- Beijing National Laboratory for Condensed Matter Physics and Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China. and School of Physical Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Peng Liu
- Beijing National Laboratory for Condensed Matter Physics and Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China. and School of Physical Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Fangfu Ye
- Beijing National Laboratory for Condensed Matter Physics and Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China. and School of Physical Sciences, University of Chinese Academy of Sciences, Beijing 100049, China and Songshan Lake Materials Laboratory, Dongguan, Guangdong 523808, China and Wenzhou Institute, University of Chinese Academy of Sciences, Wenzhou, Zhejiang 325001, China
| | - Ke Chen
- Beijing National Laboratory for Condensed Matter Physics and Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China. and School of Physical Sciences, University of Chinese Academy of Sciences, Beijing 100049, China and Songshan Lake Materials Laboratory, Dongguan, Guangdong 523808, China
| | - Mingcheng Yang
- Beijing National Laboratory for Condensed Matter Physics and Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China. and School of Physical Sciences, University of Chinese Academy of Sciences, Beijing 100049, China
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