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D. A. Matoz-Fernandez

Publications and source records attributed to D. A. Matoz-Fernandez.

17 recordsLinked to original sources

Curvature-induced host-mediated polarization of active particles

Polar collective motion commonly arises from alignment interactions, particle anisotropy, or an imposed directional bias. Here we identify a distinct route to polar order that does not rely on alignment interactions between the active particles. We show that non-aligning active Brownian particles embedded in a dense passive medium can develop polar coherence when confined to a compact curved surface. Persistent active motion redistributes stress through the host and creates passive-depleted regions. When the stress-spreading length becomes comparable to the sphere radius, these regions merge into elongated scars that channel active motion and, through feedback with the active flux, promote a common direction of motion. Removing the passive host suppresses polar coherence even though the active particles continue to cluster on the same sphere. Our results establish an environment-mediated route to collective polarity in which symmetry breaking emerges from the coupling between active motion, passive stress redistribution, and compact geometry.

cond-mat.soft↗

Persistence-Driven Void Formation in Dense Active-Passive Mixtures

It is well established that dilute active dopants can melt an arrested amorphous solid by enhancing cage breaking and accelerating structural relaxation. Yet it remains unclear whether increasing persistence simply amplifies this effective melting or instead reorganizes the fluidization mechanism itself. Here we show that, in a minimal active-passive mixture, increasing persistence drives a crossover from homogeneous fluidization to a localized mechanical instability, demonstrating that sustained active forcing restructures relaxation in space rather than merely strengthening it. Persistent dopants accumulate stress and nucleate voids as their mechanically perturbed regions overlap. In this regime, rearrangements localize at void boundaries, and active and passive particles exhibit comparable mobility, producing dynamics reminiscent of crowd mosh pits. Persistence therefore reorganizes fluidization through stress accumulation and confinement, revealing a distinct nonequilibrium localization mechanism in disordered solids.

cond-mat.soft↗

Active Filaments on Curved Surfaces: From Single Filaments to Dilute Suspensions

Curvature plays a central organizational role in active polymer dynamics. Using large-scale Langevin-dynamics simulations, we study active semiflexible filaments confined to smooth curved surfaces and map how curvature, bending rigidity, and activity interact. We find geodesic alignment, curvature lensing, and curvature-induced trapping. In particular, regions of negative Gaussian curvature localize filaments and hinder global surface exploration. These results show how surface geometry can be used to control the organization and transport of active matter on curved substrates

cond-mat.soft↗

Density and inertia effects on two-dimensional active semiflexible filament suspensions

We examine the influence of density on the transition between chain and spiral structures in planar assemblies of active semiflexible filaments, utilizing detailed numerical simulations. We focus on how increased density, and higher Péclet numbers, affect the activity-induced transition spiral state in a semiflexible, self-avoiding active chain. Our findings show that increasing the density causes the spiral state to break up, reverting to a motile chain-like shape. This results in a density-dependent reentrant phase transition from spirals back to open chains. We attribute this phenomenon to an inertial effect observed at the single polymer level, where increased persistence length due to inertia has been shown in recent three-dimensional studies to cause polymers to open up. Our two-dimensional simulations further reveal that a reduction in the damping coefficient leads to partial unwinding of the spirals, forming longer arms. In suspension, interactions among these extended arms can trigger a complete unwinding of the spirals, driven by the combined effects of density and inertia.

cond-mat.soft↗

PyMembrane: A flexible framework for efficient simulations of elastic and liquid membranes

PyMembrane is a software package for simulating liquid and elastic membranes using a discretisation of the continuum description based on unstructured triangulated two-dimensional meshes embedded in three-dimensional space. The package is written in C++, with a flexible and intuitive Python interface, allowing for a quick setup, execution and analysis of complex simulations. PyMembrane follows modern software engineering principles and features a modular design that allows for straightforward implementation of custom extensions while ensuring consistency and enabling inexpensive maintenance. A hallmark feature of this design is the use of a standardized C++ interface which streamlines adding new functionalities. Furthermore, PyMembrane uses data structures optimised for unstructured meshes, ensuring efficient mesh operations and force calculations. By providing several templates for typical simulations supplemented by extensive documentation, the users can seamlessly set up and run research-level simulations and extend the package to integrate additional features, underscoring PyMembrane's commitment to user-centric design.

cond-mat.soft↗

Dynamical steady-states of active colloids interacting via chemical fields

We study the dynamical steady-states of a monolayer of chemically active self-phoretic colloids as a function of packing fraction and self-propulsion speed by means of Brownian dynamics simulations. We focus on the case that a chemical field induces competing attractive positional and repulsive orientational interactions. Analyzing the distribution of cluster size and local density as well as the hexatic order parameter, we distinguish four distinct dynamical states which include collapsed, active gas, dynamical clustering, and motility-induced phase-separated states. The long-range chemical field-induced interactions shift the onset of motility-induced phase separation (MIPS) to very low packing fractions at intermediate self-propulsion speeds. We also find that the fraction of particles in the largest clusters is a suitable order parameter characterizing the dynamical phase transitions from an active gas or dynamical clustering steady-state to a phase-separated state upon increase of the packing fraction. The order parameter changes discontinuously when going from an active gas to a MIPS-like state at intermediate self-propulsion speeds, whereas it changes continuously at larger activities where the system undergoes a transition from a dynamical clustering state to MIPS-like state.

cond-mat.soft↗

Wrinkle patterns in active viscoelastic thin sheets

We show that a viscoelastic thin sheet driven out of equilibrium by active structural remodelling develops a rich variety of shapes as a result of a competition between viscous relaxation and activity. In the regime where active processes are faster than viscoelastic relaxation, wrinkles that are formed due to remodelling are unable to relax to a configuration that minimises the elastic energy and the sheet is inherently out of equilibrium. We argue that this non-equilibrium regime is of particular interest in biology as it allows the system to access morphologies that are unavailable if restricted to the adiabatic evolution between configurations that minimise the elastic energy alone. Here, we introduce activity using the formalism of evolving target metric and showcase the diversity of wrinkling morphologies arising from out of equilibrium dynamics.

cond-mat.soft↗

Cell division and death inhibit glassy behaviour of confluent tissues

We investigate the effects of cell division and apopotosis on collective dynamics in two-dimensional epithelial tissues. Our model includes three key ingredients observed across many epithelia, namely cell-cell adhesion, cell death and a cell division process that depends on the surrounding environment. We show a rich non-equilibrium phase diagram depending on the ratio of cell death to cell division and on the adhesion strength. For large apopotosis rates, cells die out and the tissue disintegrates. As the death rate decreases, however, we show, consecutively, the existence of a gas-like phase, a gel-like phase, and a dense confluent (tissue) phase. Most striking is the observation that the tissue is self-melting through its own internal activity, ruling out the existence of any glassy phase.

cond-mat.soft↗

Nonlinear Rheology in a Model Biological Tissue

Mechanical signaling plays a key role in biological processes like embryo development and cancer growth. One prominent way to probe mechanical properties of tissues is to study their response to externally applied forces. Using a particle-based model featuring random apoptosis and environment-dependent division rates, we evidence a crossover from linear flow to a shear-thinning regime with increasing shear rate. To rationalize this non-linear flow we derive a theoretical mean-field scenario that accounts for the interplay of mechanical and active noise in local stresses. These noises are respectively generated by the elastic response of the cell matrix to cell rearrangements and by the internal activity.

cond-mat.soft↗

Jamming and percolation in random sequential adsorption of straight rigid rods on a two-dimensional triangular lattice

Monte Carlo simulations and finite-size scaling analysis have been performed to study the jamming and percolation behavior of linear $k$-mers (also known as rods or needles) on the two-dimensional triangular lattice, considering an isotropic RSA process on a lattice of linear dimension $L$ and periodic boundary conditions. Extensive numerical work has been done to extend previous studies to larger system sizes and longer $k$-mers, which enables the confirmation of a nonmonotonic size dependence of the percolation threshold and the estimation of a maximum value of $k$ from which percolation would no longer occurs. Finally, a complete analysis of critical exponents and universality have been done, showing that the percolation phase transition involved in the system is not affected, having the same universality class of the ordinary random percolation.

cond-mat.stat-mech↗

Unconventional critical activated scaling of two-dimensional quantum spin-glasses

We study the critical behavior of two-dimensional short-range quantum spin glasses by numerical simulations. Using a parallel tempering algorithm, we calculate the Binder cumulant for the Ising spin glass in a transverse magnetic field with two different short-range bond distributions, the bimodal and the Gaussian ones. Through an exhaustive finite-size scaling analysis, we show that the universality class does not depend on the exact form of the bond distribution but, most important, that the quantum critical behavior is governed by an infinite randomness fixed point.

cond-mat.stat-mech↗

Quasi-chemical approximation for polyatomic mixtures

The statistical thermodynamics of binary mixtures of polyatomic species was developed on a generalization in the spirit of the lattice-gas model and the quasi-chemical approximation (QCA). The new theoretical framework is obtained by combining: (i) the exact analytical expression for the partition function of non-interacting mixtures of linear $k$-mers and $l$-mers (species occupying $k$ sites and $l$ sites, respectively) adsorbed in one dimension, and its extension to higher dimensions; and (ii) a generalization of the classical QCA for multicomponent adsorbates and multisite-occupancy adsorption. The process is analyzed through the partial adsorption isotherms corresponding to both species of the mixture. Comparisons with analytical data from Bragg-Williams approximation (BWA) and Monte Carlo simulations are performed in order to test the validity of the theoretical model. Even though a good fitting is obtained from BWA, it is found that QCA provides a more accurate description of the phenomenon of adsorption of interacting polyatomic mixtures.

physics.chem-ph↗

Adsorption preference reversal phenomenon from multisite-occupancy theory fortwo-dimensional lattices

The statistical thermodynamics of polyatomic species mixtures adsorbed on two-dimensional substrates was developed on a generalization in the spirit of the lattice-gas model and the classical Guggenheim-DiMarzio approximation. In this scheme, the coverage and temperature dependence of the Helmholtz free energy and chemical potential are given. The formalism leads to the exact statistical thermodynamics of binary mixtures adsorbed in one dimension, provides a close approximation for two-dimensional systems accounting multisite occupancy and allows to discuss the dimensionality and lattice structure effects on the known phenomenon of adsorption preference reversal.

cond-mat.stat-mech↗

Statistical thermodynamics of long straight rigid rods on triangular lattices: nematic order and adsorption thermodynamic functions

The statistical thermodynamics of straight rigid rods of length $k$ on triangular lattices was developed on a generalization in the spirit of the lattice-gas model and the classical Guggenheim-DiMarzio approximation. In this scheme, the Helmholtz free energy and its derivatives were written in terms of the order parameter $δ$, which characterizes the nematic phase occurring in the system at intermediate densities. Then, using the principle of minimum free energy with $δ$ as a parameter, the main adsorption properties were calculated. Comparisons with Monte Carlo simulations and experimental data were performed in order to evaluate the reaches and limitations of the theoretical model.

cond-mat.stat-mech↗

Nonmonotonic size dependence of the critical concentration in 2D percolation of straight rigid rods under equilibrium conditions

Numerical simulations and finite-size scaling analysis have been carried out to study the percolation behavior of straight rigid rods of length $k$ ($k$-mers) on two-dimensional square lattices. The $k$-mers, containing $k$ identical units (each one occupying a lattice site), were adsorbed at equilibrium on the lattice. The process was monitored by following the probability $R_{L,k}(θ)$ that a lattice composed of $L \times L$ sites percolates at a concentration $θ$ of sites occupied by particles of size $k$. A nonmonotonic size dependence was observed for the percolation threshold, which decreases for small particles sizes, goes through a minimum, and finally asymptotically converges towards a definite value for large segments. This striking behavior has been interpreted as a consequence of the isotropic-nematic phase transition occurring in the system for large values of $k$. Finally, the universality class of the model was found to be the same as for the random percolation model.

cond-mat.stat-mech↗

Critical behavior of long straight rigid rods on two-dimensional lattices: Theory and Monte Carlo simulations

The critical behavior of long straight rigid rods of length $k$ ($k$-mers) on square and triangular lattices at intermediate density has been studied. A nematic phase, characterized by a big domain of parallel $k$-mers, was found. This ordered phase is separated from the isotropic state by a continuous transition occurring at a intermediate density $θ_c$. Two analytical techniques were combined with Monte Carlo simulations to predict the dependence of $θ_c$ on $k$, being $θ_c(k) \propto k^{-1}$. The first involves simple geometrical arguments, while the second is based on entropy considerations. Our analysis allowed us also to determine the minimum value of $k$ ($k_{min}=7$), which allows the formation of a nematic phase on a triangular lattice.

cond-mat.stat-mech↗

Determination of the Critical Exponents for the Isotropic-Nematic Phase Transition in a System of Long Rods on Two-dimensional Lattices: Universality of the Transition

Monte Carlo simulations and finite-size scaling analysis have been carried out to study the critical behavior and universality for the isotropic-nematic phase transition in a system of long straight rigid rods of length $k$ ($k$-mers) on two-dimensional lattices. The nematic phase, characterized by a big domain of parallel $k$-mers, is separated from the isotropic state by a continuous transition occurring at a finite density. The determination of the critical exponents, along with the behavior of Binder cumulants, indicate that the transition belongs to the 2D Ising universality class for square lattices and the three-state Potts universality class for triangular lattices.

cond-mat.stat-mech↗