Physical Review E最新文献_第8页

Universality of giant diffusion in tilted periodic potentials.

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2025-02-01 DOI: 10.1103/PhysRevE.111.024113

Kento Iida, Takuma Akimoto, Andreas Dechant

引用次数: 0

Weakly nonlinear analysis of Turing pattern dynamics on curved surfaces.

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2025-02-01 DOI: 10.1103/PhysRevE.111.024208

Ryosuke Nishide, Shuji Ishihara

{"title":"Weakly nonlinear analysis of Turing pattern dynamics on curved surfaces.","authors":"Ryosuke Nishide, Shuji Ishihara","doi":"10.1103/PhysRevE.111.024208","DOIUrl":"https://doi.org/10.1103/PhysRevE.111.024208","url":null,"abstract":"Pattern dynamics on curved surfaces are ubiquitous. Although the effect of surface topography on pattern dynamics has gained much interest, there is a limited understanding of the roles of surface geometry and topology in pattern dynamics. Recently, we reported that a static pattern on a flat plane can become a propagating pattern on a curved surface [Phys. Rev. Lett. 128, 224101 (2022)10.1103/PhysRevLett.128.224101]. By examining reaction-diffusion equations on axisymmetric surfaces, certain conditions for the onset of pattern propagation were determined. However, this analysis was limited by the assumption that the pattern propagates at a constant speed. Here, we investigate the pattern propagation driven by surface curvature using weakly nonlinear analysis, which enables a more comprehensive approach to the aforementioned problem. The analysis reveals consistent conditions of the pattern propagation similar to our previous results, and further predicts that rich dynamics other than pattern propagation, such as periodic and chaotic behaviors, can arise depending on the surface geometry. This study provides a perspective on the relationship between surfaces and pattern dynamics and a basis for controlling pattern dynamics on surfaces.","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"111 2-1","pages":"024208"},"PeriodicalIF":2.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143658796","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Generalized Hamiltonian of mean-force approach to open quantum systems coupled to finite baths in thermoequilibrium.

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2025-02-01 DOI: 10.1103/PhysRevE.111.024139

Xuerui Du, Jianhui Wang, Yongli Ma

{"title":"Generalized Hamiltonian of mean-force approach to open quantum systems coupled to finite baths in thermoequilibrium.","authors":"Xuerui Du, Jianhui Wang, Yongli Ma","doi":"10.1103/PhysRevE.111.024139","DOIUrl":"https://doi.org/10.1103/PhysRevE.111.024139","url":null,"abstract":"The prevailing method for addressing strong-coupling thermodynamics typically involves open quantum systems coupled to infinite baths in equilibrium through the Hamiltonian of mean force (HMF). However, its applicability to finite baths remains limited. In this work, we transcend this limit by considering the impacts of system-bath coupling which is not only on the system but also on the finite bath feedback. When the bath and system sizes are comparable, they act as each other's effective 'bath'. We introduce a parameter α within [0,1], where α and 1-α act as weighting factors to distribute the system-bath coupling between the system and the bath. Our approach innovatively incorporates the effect of coupling on the respective effective 'bath' into both the system and bath in the statistical factor form. We generalize the HMF and propose quantum Hamiltonians of mean forces to handle the distributed coupling of the system to finite baths. The additional parameter α is determined by minimizing the joint free energy density and is a new thermodynamic quantity representing the finite bath's influence. Examining the damped quantum harmonic oscillator with a finite bath, we find that α affects both states, leading to a complex phase diagram with unique phenomena at critical temperatures T_{L} and T_{R}, including valleys, peaks, negative values, and discontinuities in entropy and specific heat. Notably, these anomalies disappear when α→1, both at high temperatures and in the thermodynamic limit, indicating the negligible influence of coupling on the bath states and reverting to the HMF. Thus, studying finite-sized baths holds substantial significance in small quantum systems.","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"111 2-1","pages":"024139"},"PeriodicalIF":2.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143659123","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Controlling multistimuli elastic response by bistable micromodules.

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2025-02-01 DOI: 10.1103/PhysRevE.111.025403

Sven Pattloch, Joachim Dzubiella

{"title":"Controlling multistimuli elastic response by bistable micromodules.","authors":"Sven Pattloch, Joachim Dzubiella","doi":"10.1103/PhysRevE.111.025403","DOIUrl":"https://doi.org/10.1103/PhysRevE.111.025403","url":null,"abstract":"Controlling the elastic response of materials to multiple stimuli is a key prerequisite for the design of adaptive soft matter, e.g., for applications in medicine or soft robotics. Here, we discuss a statistical mechanics model in which the nonlinear elastic response is governed by mechanically coupled bistable micromodules which can be switched by external stimuli. Exact analytical solutions show complex stimuli-mediated, nonlinear stiffening/softening responses tuneable by the microscopic switching parameters. Importantly, we report up to two maxima in the softness (compliance) originating from cooperative transitions and show how to control their existence and properties. We demonstrate the usefulness of the model by fitting it to experimental extension-force data on various scales. We further illustrate how to explore the entire nonlinear response map as a function of multiple stimuli, utilizing distinct pathways to either cancel/reset or amplify the elastic responses through a combination of these stimuli. Our analysis should be useful for the design of nonlinear elasticity, e.g., in bistable microgel networks or mechanical metamaterials.","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"111 2-2","pages":"025403"},"PeriodicalIF":2.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143659211","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Local nearby bifurcations lead to synergies in critical slowing down: The case of mushroom bifurcations.

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2025-02-01 DOI: 10.1103/PhysRevE.111.024213

Mariona Fucho-Rius, Smitha Maretvadakethope, Àlex Haro, Tomás Alarcón, Josep Sardanyés, Rubén Pérez-Carrasco

{"title":"Local nearby bifurcations lead to synergies in critical slowing down: The case of mushroom bifurcations.","authors":"Mariona Fucho-Rius, Smitha Maretvadakethope, Àlex Haro, Tomás Alarcón, Josep Sardanyés, Rubén Pérez-Carrasco","doi":"10.1103/PhysRevE.111.024213","DOIUrl":"https://doi.org/10.1103/PhysRevE.111.024213","url":null,"abstract":"The behavior of nonlinear systems near critical transitions has significant implications for stability, transients, and resilience in complex systems. Transient times, τ, become extremely long near phase transitions (or bifurcations) in a phenomenon known as critical slowing down, and are observed in electronic circuits, circuit quantum electrodynamics, ecosystems, and gene regulatory networks. Critical slowing down typically follows universal laws of the form τ∼|μ-μ_{c}|^{β}, with μ being the control parameter and μ_{c} its critical value. For instance, β=-1/2 close to saddle-node bifurcations. Despite intensive research on slowing down phenomena for single bifurcations, both local and global, the behavior of transients when several bifurcations are close to each other remains unknown. Here, we investigate transients near two saddle-node bifurcations merging into a transcritical one. Using a nonlinear gene-regulatory model and a normal form exhibiting a mushroom bifurcation diagram we show, both analytically and numerically, a synergistic, i.e., nonadditive, lengthening of transients due to coupled ghost effects and transcritical slowing down. We also show that intrinsic and extrinsic noise play opposite roles in the slowing down of the transition, allowing us to control the timing of the transition without compromising the precision of timing. This establishes molecular strategies to generate genetic timers with transients much larger than the typical timescales of the reactions involved.","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"111 2-1","pages":"024213"},"PeriodicalIF":2.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143659224","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Local topology and perestroikas in protein structure and folding dynamics.

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2025-02-01 DOI: 10.1103/PhysRevE.111.024406

Alexander Begun, Maxim N Chernodub, Alexander Molochkov, Antti J Niemi

{"title":"Local topology and perestroikas in protein structure and folding dynamics.","authors":"Alexander Begun, Maxim N Chernodub, Alexander Molochkov, Antti J Niemi","doi":"10.1103/PhysRevE.111.024406","DOIUrl":"https://doi.org/10.1103/PhysRevE.111.024406","url":null,"abstract":"Methods of local topology are introduced to the field of protein physics. This is done by interpreting the folding and unfolding processes of a globular protein in terms of conformational bifurcations that alter the local topology of the proteins Cα backbone. The mathematical formulation extends Arnold's perestroikas to piecewise linear chains using the discrete Frenet frame formalism. In the low-temperature folded phase, the backbone geometry generalizes the concept of a Peano curve, with its modular building blocks modeled by soliton solutions of a discretized nonlinear Schrödinger equation. The onset of thermal unfolding begins when perestroikas change the flattening and branch points that determine the centers of solitons. When temperature increases, the perestroikas cascade, which leads to a progressive disintegration of the modular structures. The folding and unfolding processes are quantitatively characterized by a correlation function that describes the evolution of perestroikas under temperature changes. The approach provides a comprehensive framework for understanding the Physics of protein folding and unfolding transitions, contributing to the broader field of protein structure and dynamics.","PeriodicalId":48698,"journal":{"name":"Physical Review E","volume":"111 2-1","pages":"024406"},"PeriodicalIF":2.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143659229","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"物理与天体物理","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Oscillatory and chaotic pattern dynamics driven by surface curvature.

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2025-02-01 DOI: 10.1103/PhysRevE.111.L022202

Ryosuke Nishide, Shuji Ishihara

引用次数: 0

Memory of rotation in residual stress of paste.

IF 2.2 3区物理与天体物理

Physical Review E Pub Date : 2025-02-01 DOI: 10.1103/PhysRevE.111.025502

Hiroki Matsuda, Michio Otsuki

引用次数: 0

Power-efficiency constraint for chemical motors.