arXiv subjects

Ramin Golestanian

Publications and source records attributed to Ramin Golestanian.

At least 37 records · Page 2Linked to original sources

arXiv2025

Phase separation in a mixture of proliferating and motile active matter

Proliferation and motility are ubiquitous drivers of activity in biological systems. Here, we study a dense binary mixture of motile and proliferating particles with exclusively repulsive interactions, where homeostasis in the proliferating subpopulation is maintained by pressure-induced removal. Using computer simulations, we show that phase separation emerges naturally in this system at high density and weak enough self-propulsion. We show that condensation is caused by interactions between motile particles induced by the growing phase, and recapitulate this behavior in an effective model of only motile particles with attractive interactions. Our results establish a new type of phase transition and pave a way to reinterpret the physics of dense cellular populations, such as bacterial colonies or tumors, as systems of mixed active matter.

cond-mat.soft↗

arXiv2025

Mechanistic rules for de novo design of enzymes

Enzymes are nano-scale machines that have evolved to drive chemical reactions out of equilibrium in the right place at the right time. Given the complexity and specificity of enzymatic function, bottom-up design of enzymes presents a daunting task that is far more challenging than making passive molecules with specific binding affinities or building nano-scale mechanically active devices. We present a thermodynamically-consistent model for the operation of such a fuelled enzyme, which uses the energy from a favourable reaction to undergo non-equilibrium conformational changes that in turn catalyze a chemical reaction on an attached substrate molecule. We show that enzymatic function can emerge through a bifurcation upon appropriate implementation of momentum conservation on the effective reaction coordinates of the low dimensional description of the enzyme, and thanks to a generically present dissipative coupling. Our results can complement the recently developed strategies for de novo enzyme design based on machine learning approaches.

cond-mat.soft↗

arXiv2025

Topological phase locking in stochastic oscillators

The dynamics of many nanoscale biological and synthetic systems such as enzymes and molecular motors are activated by thermal noise, and driven out-of-equilibrium by local energy dissipation. Because the energies dissipated in these systems are comparable to the thermal energy, one would generally expect their dynamics to be highly stochastic. Here, by studying a thermodynamically-consistent model of two coupled noise-activated oscillators, we show that this is not always the case. Thanks to a novel phenomenon that we term topological phase locking (TPL), the coupled dynamics become quasi-deterministic, resulting in a greatly enhanced average speed of the oscillators. TPL is characterized by the emergence of a band of periodic orbits that form a torus knot in phase space, along which the two oscillators advance in rational multiples of each other. The effectively conservative dynamics along this band coexists with the basin of attraction of the dissipative fixed point. We further show that TPL arises as a result of a complex, infinite hierarchy of global bifurcations. Our results have implications for understanding the dynamics of a wide range of systems, from biological enzymes and molecular motors to engineered nanoscale electronic, optical, or mechanical oscillators.

cond-mat.stat-mech↗

arXiv2025

Hydrodynamically consistent many-body Harada-Sasa relation

The effect of hydrodynamic interactions on the non-equilibrium stochastic dynamics of particles -- arising from the conservation of momentum in the fluid medium -- is examined in the context of the relationship between fluctuations, response functions, and the entropy production rate. The multiplicative nature of the hydrodynamic interactions is shown to introduce subtleties that preclude a straightforward extension of the Harada-Sasa relation. A generalization of the definitions involved in the framework is used to propose a new form of the relation applicable to systems with hydrodynamic interactions. The resulting framework will enable characterization of the non-equilibrium properties of living and active matter systems, which are predominantly in suspensions.

cond-mat.stat-mech↗

arXiv2025

Non-reciprocal mixtures in suspension: the role of hydrodynamic interactions

The collective chasing dynamics of non-reciprocally coupled densities leads to stable travelling waves which can be mapped to a model for emergent flocking. In this work, we couple the non-reciprocal Cahn-Hilliard model (NRCH) to a fluid to minimally describe scalar active mixtures in a suspension, with the aim to explore the stability of the waves, i.e. the emergent flock in the presence of self-generated fluid flows. We show that the emergent polarity is linearly unstable to perturbations for a specific sign of the active stress recalling instabilities of orientational order in a fluid. Using numerical simulations, we find however that non-reciprocity stabilizes the waves against the linear instability in a large region of the phase space.

cond-mat.soft↗

arXiv2025

Hydrodynamic stresses in a multi-species suspension of active Janus colloids

A realistic description of active particles should include interactions with the medium, commonly a momentum-conserving simple fluid, in which they are suspended. In this work, we consider a multi-species suspension of self-diffusiophoretic Janus colloids interacting via chemical and hydrodynamic fields. Through a systematic coarse-graining of the microscopic dynamics, we calculate the multi-component contribution to the hydrodynamic stress tensor of the incompressible Stokesian fluid in which the particles are immersed. For a single species, we find that the strength of the stress produced by the gradients of the number density field is determined by the particles' self-propulsion and chemotactic alignment, and can be tuned to be either contractile or extensile. For a multi-species system, we unveil how different forms of activity modify the stress tensor, and how non-reciprocity in hydrodynamic interactions emerges in an active binary mixture.

cond-mat.stat-mech↗

arXiv2025

Emergent polar order in non-polar mixtures with non-reciprocal interactions

Phenomenological rules that govern the collective behaviour of complex physical systems are powerful tools because they can make concrete predictions about their universality class based on generic considerations, such as symmetries, conservation laws, and dimensionality. While in most cases such considerations are manifestly ingrained in the constituents, novel phenomenology can emerge when composite units associated with emergent symmetries dominate the behaviour of the system. We study a generic class of active matter systems with non-reciprocal interactions and demonstrate the existence of true long-range polar order in two dimensions and above, both at the linear level and by including all relevant nonlinearities in the Renormalization Group sense. We achieve this by uncovering a mapping of our scalar active mixture theory to the Toner-Tu theory of dry polar active matter by employing a suitably defined polar order parameter. We then demonstrate that the complete effective field theory -- which includes all the soft modes and the relevant nonlinear terms -- belongs to the (Burgers-) Kardar-Parisi-Zhang universality class. This classification allows us to prove the stability of the emergent polar long-range order in scalar non-reciprocal mixtures in two dimensions, and hence a conclusive violation of the Mermin-Wagner theorem.

cond-mat.soft↗

arXiv2024

Nonlinear response theory of molecular machines

Chemical affinities are responsible for driving active matter systems out of equilibrium. At the nano-scale, molecular machines interact with the surrounding environment and are subjected to external forces. The mechano-chemical coupling which arises naturally in these systems reveals a complex interplay between chemical and mechanical degrees of freedom with strong impact on their active mechanism. By considering various models far from equilibrium, we show that the tuning of applied forces give rise to a nonlinear response that causes a non-monotonic behaviour in the machines' activity. Our findings have implications in understanding, designing, and triggering such processes by controlled application of external fields, including the collective dynamics of larger non-equilibrium systems where the total dissipation and performance might be affected by internal and inter-particle interactions.

cond-mat.soft↗

arXiv2024

Phase Coexistence in Nonreciprocal Quorum-Sensing Active Matter

Motility and nonreciprocity are two primary mechanisms for self-organization in active matter. In a recent study [Phys. Rev. Lett. 131, 148301 (2023)], we explored their joint influence in a minimal model of two-species quorum-sensing active particles interacting via mutual motility regulation. Our results notably revealed a highly dynamic phase of chaotic chasing bands that is absent when either nonreciprocity or self-propulsion is missing. Here, we examine further the phase behavior of nonreciprocal quorum-sensing active particles, distinguishing between the regimes of weak and strong nonreciprocity. In the weakly nonreciprocal regime, this system exhibits multi-component motility-induced phase separation. We establish an analytical criterion for the associated phase coexistence, enabling a quantitative prediction of the phase diagram. For strong nonreciprocity, where the dynamics is chase-and-run-like, we numerically determine the phase behavior and show that it strongly depends on the scale of observation. In small systems, our numerical simulations reveal a phenomenology consistent with phenomenological models, comprising traveling phase-separated domains and spiral-like defect patterns. However, we show that these structures are generically unstable in large systems, where they are superseded by bulk phase coexistence between domains that are either homogeneous or populated by mesoscopic chasing bands. Crucially, this implies that collective motion totally vanishes at large scales, while the breakdown of our analytical criterion for this phase coexistence with multi-scale structures prevents us from predicting the corresponding phase diagram.

cond-mat.soft↗

arXiv2024

Thermodynamic inference of correlations in nonequilibrium collective dynamics

The theory of stochastic thermodynamics has revealed many useful fluctuation relations, with the thermodynamic uncertainty relation (TUR) being a theorem of major interest. When many nonequilibrium currents interact with each other, a naive application of the TUR to an individual current can result in an apparent violation of the TUR bound. Here, we explore how such an apparent violation can be used to put a lower bound on the strength of correlations $C$ as well as the number $N$ of interacting currents in collective dynamics. This lower bound is a combined bound on $C(N-1)$ if only one current is measured, or a bound on $N$ if two currents are measured. Our proposed protocol allows for the inference of hidden correlations in experiment, for example when a team of molecular motors pulls on the same cargo but only one or a subset of them is fluorescently tagged. By solving analytically and numerically several models of many-body nonequilibrium dynamics, we ascertain under which conditions this strategy can be applied and the inferred bound on correlations becomes tight.

cond-mat.stat-mech↗

arXiv2024

Isovolumetric dividing active matter

We introduce and theoretically investigate a minimal particle-based model for a new class of active matter where particles exhibit directional, volume-conserving division in confinement while interacting sterically, mimicking cells in early embryogenesis. We find that complex motion, synchronized within division cycles, displays strong collective effects and becomes self-similar in the long-time limit. Introducing the method of normalized retraced trajectories, we show that the transgenerational motion caused by cell division can be mapped to a time-inhomogenous random walk with an exponentially decreasing length scale. Analytical predictions for this stochastic process allow us to extract effective parameters, indicating unusual effects of crowding and absence of jamming. Robustness of our findings against desynchronized divisions, cell size dispersity, and variations in confinement hints at universal behavior. Our results establish an understanding of complex dynamics exhibited by isovolumentric division over long timescales, paving the way for new bioengineering strategies and perspectives on living matter.

cond-mat.soft↗

arXiv2024

A minimal model of smoothly dividing disk-shaped cells

Replication through cell division is one of the most fundamental processes of life and a major driver of dynamics in systems ranging from bacterial colonies to embryogenesis, tissues and tumors. While regulation often plays a role in shaping self-organization, mounting evidence suggests that many biologically relevant behaviors exploit principles based on a limited number of physical ingredients, and particle-based models have become a popular platform to reconstitute and investigate these emergent dynamics. However, incorporating division into such models often leads to aberrant mechanical fluctuations that hamper physically meaningful analysis. Here, we present a minimal model focusing on mechanical consistency during division. Cells are comprised of two nodes, overlapping disks which separate from each other during cell division, resulting in transient dumbbell shapes. Internal degrees of freedom, cell-cell interactions and equations of motion are designed to ensure force continuity at all times, including through division, both for the dividing cell itself as well as interaction partners, while retaining the freedom to define arbitrary anisotropic mobilities. As a benchmark, we also translate an established model of proliferating spherocylinders with similar dynamics into our theoretical framework. Numerical simulations of both models demonstrate force continuity of the new disk cell model and quantify our improvements. We also investigate some basic collective behaviors related to alignment and orientational order and find consistency both between the models and with the literature. A reference implementation of the model is freely available as a package in the Julia programming language based on $\mathit{InPartS}$. Our model is ideally suited for the investigation of mechanical observables such as velocities and stresses, and is easily extensible with additional features.

cond-mat.soft↗

arXiv2024

Enhanced stability and chaotic condensates in multi-species non-reciprocal mixtures

Random non-reciprocal interactions between a large number of conserved densities are shown to enhance the stability of the system towards pattern formation. The enhanced stability is an exact result when the number of species approaches infinity and is confirmed numerically by simulations of the multi-species non-reciprocal Cahn-Hilliard model. Furthermore, the diversity in dynamical patterns increases with increasing number of components and novel steady states such as pulsating or spatiotemporally chaotic condensates are observed. Our results may help to unravel the mechanisms by which living systems self-organise via metabolism.

cond-mat.soft↗

arXiv2024

Chirotactic response of microswimmers in fluids with odd viscosity

Odd viscosity is a property of chiral active fluids with broken time-reversal and parity symmetries. We show that the flow of such a fluid around a rotating axisymmetric body is exactly solvable and use this solution to determine the orientational dynamics of surface-driven microswimmers. Swimmers with a force-dipole moment exhibit precession around the axis of the odd viscosity. In addition, pushers show bimodal chirotaxis, i.e., alignment parallel or antiparallel to the axis, while pullers orbit in a plane perpendicular to it. A chiral swimmer that itself has a broken parity symmetry can exhibit unimodal chirotaxis and always align in the same direction.

cond-mat.soft↗

arXiv2024

Collective self-caging of active filaments in virtual confinement

Motility coupled to responsive behavior is essential for many microorganisms to seek and establish appropriate habitats. One of the simplest possible responses, reversing the direction of motion, is believed to enable filamentous cyanobacteria to form stable aggregates or accumulate in suitable light conditions. Here, we demonstrate that filamentous morphology in combination with responding to light gradients by reversals has consequences far beyond simple accumulation: Entangled aggregates form at the boundaries of illuminated regions, harnessing the boundary to establish local order. We explore how the light pattern, in particular its boundary curvature, impacts aggregation. A minimal mechanistic model of active flexible filaments resembles the experimental findings, thereby revealing the emergent and generic character of these structures. This phenomenon may enable elongated microorganisms to generate adaptive colony architectures in limited habitats, or guide the assembly of biomimetic fibrous materials.

physics.bio-ph↗

arXiv2024

Defect interactions in the non-reciprocal Cahn-Hilliard model

We present a computational study of the pairwise interactions between defects in the recently introduced non-reciprocal Cahn-Hilliard model. The evolution of a defect pair exhibits dependence upon their corresponding topological charges, initial separation, and the non-reciprocity coupling constant $α$. We find that the stability of isolated topologically neutral targets significantly affects the pairwise defect interactions. At large separations, defect interactions are negligible and a defect pair is stable. When positioned in relatively close proximity, a pair of oppositely charged spirals or targets merge to form a single target. At low $α$, like-charged spirals form rotating bound pairs, which are however torn apart by spontaneously formed targets at high $α$. Similar preference for charged or neutral solutions is also seen for a spiral target pair where the spiral dominates at low $α$, but concedes to the target at large $α$. Our work sheds light on the complex phenomenology of non-reciprocal active matter systems when their collective dynamics involves topological defects.

cond-mat.soft↗

arXiv2024

Escaping kinetic traps using non-reciprocal interactions

Kinetic traps are a notorious problem in equilibrium statistical mechanics, where temperature quenches ultimately fail to bring the system to low energy configurations. Using multifarious self-assembly as a model system, we introduce a mechanism to escape kinetic traps by utilizing non-reciprocal interactions between components. Introducing non-equilibrium effects offered by broken action-reaction symmetry in the system, we can push the trajectory of the system out of arrested dynamics. The dynamics of the model is studied using tools from the physics of interfaces and defects. Our proposal can find applications in self-assembly, glassy systems and systems with arrested dynamics.

cond-mat.stat-mech↗

arXiv2024

Defect Solutions of the Non-reciprocal Cahn-Hilliard Model: Spirals and Targets

We study the defect solutions of the Non-reciprocal Cahn-Hilliard model (NRCH). We find two kinds of defects, spirals with unit magnitude topological charge, and topologically neutral targets. These defects generate radially outward travelling waves and thus break the parity and time-reversal symmetry. For a given strength of non-reciprocity, spirals and targets with unique asymptotic wavenumber and amplitude are selected. We use large-scale simulations to show that at low non-reciprocity $α$, a quenched disordered state evolves into quasi-stationary spiral networks. With increasing $α$, we observe networks composed primarily of targets. Beyond a critical threshold $α_c$, a disorder-order transition from defect networks to travelling waves emerges. The transition is marked by a sharp rise in the global polar order.

cond-mat.soft↗