arXiv subjects

Arik Yochelis

Publications and source records attributed to Arik Yochelis.

At least 19 recordsLinked to original sources

arXiv2026

Localized spatiotemporal reaction-diffusion patterns on a line and a disk arising from a subcritical finite wavenumber Hopf instability

Spatiotemporal localized and extended structures associated with a subcritical finite wavenumber Hopf bifurcation are studied in the Purwins model (a three-variable FitzHugh-Nagumo version). Steady and time-dependent numerical continuation procedures are used to investigate snaking behavior of localized standing and traveling waves on the real line, and the results are corroborated using weakly nonlinear theory. The results shed light on the origin of so-called jumping oscillons and the organization of a nontypical homoclinic snaking structure of traveling pulses. The computations are extended to moderate size disks and used to identify wall-attached spots that travel along the disk boundary as well as wall-attached spots that oscillate in place and wall-attached jumping oscillons. The one-dimensional results are shown to be useful in interpreting the two-dimensional results. Domain-filling and mixed structures are also studied, demonstrating the variety of extended and localized states that emerge in two-space dimensions, ranging from periodic to disordered. The latter are potentially important for observations of waves in far-from-equilibrium media, such as those often observed in cell biology.

nlin.PS↗

arXiv2026

Nonuniform relaxation oscillations near SNIPER bifurcations

Properties of spatially dependent relaxation oscillations near a SNIPER bifurcation are described. A SNIPER bifurcation creates a large-amplitude long-period periodic orbit via the annihilation of a pair of fixed points in a saddle-node bifurcation. We show that in spatially extended media, this orbit may undergo a long-wavelength instability, leading to spatially modulated oscillations that persist on both sides of the SNIPER. The oscillations take different forms depending on the system: a chimera state in a theta-reaction-diffusion model, and chaotic spiking in an activator-inhibitor-substrate model. The results are expected to have applications in a number of physical systems exhibiting SNIPER bifurcations, ranging from models of the nervous system through chemical reactions to nonlinear optics.

nlin.PS↗

arXiv2025

Bistability of travelling waves and wave-pinning states in a mass-conserved reaction-diffusion system: From bifurcations to implications for actin waves

Eukaryotic cells demonstrate a wide variety of dynamic patterns of filamentous actin (F-actin) and its regulators. Some of these patterns play important roles in cell functions, such as distinct motility modes, which motivate this study. We devise a mass-conserved reaction-diffusion model for active and inactive Rho-GTPase and F-actin in the cell cortex. The mass-conserved Rho-GTPase system promotes F-actin, which feeds back to inactivate the former. We study the model on a 1D periodic domain (edge of thin sheet-like cell) using bifurcation theory in the framework of spatial dynamics, complemented with numerical simulations. Among several discussed bifurcations, the analysis centers on the study of the codimension-2 long wavelength and finite wavenumber Hopf instability, in which we describe a rich structure of steady wave-pinning states (a.k.a. mesas, obeying the Maxwell construction), propagating coherent solutions (fronts and excitable pulses), and travelling and standing waves, all distinguished by mass conservation regimes and classified by domain sizes. Specifically, we highlight the unexpected conditions for bistability between steady wave-pinning and travelling wave states on moderate domain sizes, i.e., unfolding through domain length. These results uncover and exemplify possible mechanisms of coexistence, robustness, and transitions between distinct cellular motility modes, including directed migration, turning, and ruffling. More broadly, the results indicate that non-gradient reaction-diffusion models comprising mass conservation have distinct pattern formation mechanisms that motivate further investigations, such as the unfolding of codimension-3 instabilities and T-points.

nlin.PS↗

arXiv2025

A mass conserved reaction-diffusion system reveals switching between coexisting polar and oscillatory cell motility states

Motile eukaryotic cells display distinct modes of migration that often occur within the same cell type. It remains unclear, however, whether transitions between the migratory modes require changes in external conditions, or whether the different modes are coexisting states that emerge from the underlying signaling network. Using a simplified mass-conserved reaction-diffusion model of small GTPase signaling with F-actin mediated feedback, we uncover a distinct bistable mechanism (involving gradient-like phase-separation and traveling waves) and a regime where a polarized mode of migration coexists with spatiotemporal oscillations; the latter, in larger domains, including in three-dimensional surface geometry, result in disordered patterns even in the absence of noise or shape deformations. Indeed, experimental observations of D. discoideum show that, upon collision with a rigid boundary, cells may switch from polarized to disordered motion.

nlin.PS↗

arXiv2024

Emergence of rogue-like waves in a reaction-diffusion system: Stochastic output from deterministic dissipative dynamics

Rogue waves are an intriguing nonlinear phenomenon arising across different scales, ranging from ocean waves through optics to Bose-Einstein condensates. We describe the emergence of rogue-like wave dynamics in a reaction-diffusion system that arise as a result of a subcritical Turing instability. This state is present in a regime where all time-independent states are unstable, and consists of intermittent excitation of spatially localized spikes, followed by collapse to an unstable state and subsequent regrowth. We characterize the spatiotemporal organization of spikes and show that in sufficiently large domains the dynamics are consistent with a memoryless process.

nlin.PS↗

arXiv2023

Front propagation and global bifurcations in a multivariable reaction-diffusion model

We study the existence and stability of propagating fronts in Meinhardt's multivariable reaction-diffusion model of branching in one spatial dimension. We identify a saddle-node-infinite-period (SNIPER) bifurcation of fronts that leads to episodic front propagation in the parameter region below propagation failure and show that this state is stable. Stable constant speed fronts exist only above this parameter value. We use numerical continuation to show that propagation failure is a consequence of the presence of a T-point corresponding to the formation of a heteroclinic cycle in a spatial dynamics description. Additional T-points are identified that are responsible for a large multiplicity of different unstable traveling front-peak states. The results indicate that multivariable models may support new types of behavior that are absent from typical two-variable models but may nevertheless be important in developmental processes such as branching and somitogenesis.

nlin.PS↗

arXiv2022

Instability mechanisms of repelling peak solutions in a multi-variable activator-inhibitor system

We study the linear stability properties of spatially localized single- and multi-peak states generated in a subcritical Turing bifurcation in the Meinhardt model of branching. In one spatial dimension, these states are organized in a foliated snaking structure owing to peak-peak repulsion but are shown to be all linearly unstable, with the number of unstable modes increasing with the number of peaks present. Despite this, in two spatial dimensions direct numerical simulations reveal the presence of stable single- and multi-spot states whose properties depend on the repulsion from nearby spots as well as the shape of the domain and the boundary conditions imposed thereon. Front propagation is shown to trigger the growth of new spots while destabilizing others. The results indicate that multi-variable models may support new types of behavior that are absent from typical two-variable models.

nlin.PS↗

arXiv2021

Origin of Jumping Oscillons in an Excitable Reaction-Diffusion System

Oscillons, i.e., immobile spatially localized but temporally oscillating structures, are the subject of intense study since their discovery in Faraday wave experiments. However, oscillons can also disappear and reappear at a shifted spatial location, becoming jumping oscillons (JOs). We explain here the origin of this behavior in a three-variable reaction-diffusion system via numerical continuation and bifurcation theory, and show that JOs are created via a modulational instability of excitable traveling pulses (TPs). We also reveal the presence of bound states of JOs and TPs and patches of such states (including jumping periodic patterns) and determine their stability. This rich multiplicity of spatiotemporal states lends itself to information and storage handling.

nlin.PS↗

arXiv2021

The nonlinear initiation of side--branching by activator-inhibitor-substrate (Turing) morphogenesis

An understanding of the underlying mechanism of side--branching is paramount in controlling and/or therapeutically treating mammalian organs, such as lungs, kidneys, and glands. Motivated by an activator-inhibitor-substrate approach that is conjectured to dominate the initiation of side--branching in pulmonary vascular pattern, I demonstrate a distinct transverse front instability in which new fingers grow out of an oscillatory breakup dynamics at the front line, without any typical length scale. These two features are attributed to unstable peak solutions in 1D that subcritically emanate from the Turing bifurcation and that exhibit repulsive interactions. The results are based on a bifurcation analysis and numerical simulations, and provide a potential strategy toward developing a framework of side--branching also of other biological systems, such as plant roots and cellular protrusions.

nlin.PS↗

arXiv2021

Stationary peaks in a multivariable reaction--diffusion system: Foliated snaking due to subcritical Turing instability

An activator-inhibitor-substrate model of side-branching used in the context of pulmonary vascular and lung development is considered on the supposition that spatially localized concentrations of the activator trigger local side-branching. The model consists of four coupled reaction-diffusion equations and its steady localized solutions therefore obey an eight-dimensional spatial dynamical system in one dimension (1D). Stationary localized structures within the model are found to be associated with a subcritical Turing instability and organized within a distinct type of foliated snaking bifurcation structure. This behavior is in turn associated with the presence of an exchange point in parameter space at which the complex leading spatial eigenvalues of the uniform concentration state are overtaken by a pair of real eigenvalues; this point plays the role of a Belyakov-Devaney point in this system. The primary foliated snaking structure consists of periodic spike or peak trains with $N$ identical equidistant peaks, $N=1,2,\dots \,$, together with cross-links consisting of nonidentical, nonequidistant peaks. The structure is complicated by a multitude of multipulse states, some of which are also computed, and spans the parameter range from the primary Turing bifurcation all the way to the fold of the $N=1$ state. These states form a complex template from which localized physical structures develop in the transverse direction in 2D.

nlin.PS↗

arXiv2020

Bending and pinching of three-phase stripes: From secondary instabilities to morphological deformations in organic photovoltaics

Optimizing the properties of the mosaic morphology of bulk heterojunction (BHJ) organic photovoltaics (OPV) is not only challenging technologically but also intriguing from the mechanistic point of view. Among the recent breakthroughs is the identification and utilization of a three-phase (donor/mixed/acceptor) BHJ, where the (intermediate) mixed-phase can inhibit morphological changes, such as phase separation. Using a mean-field approach, we reveal and distinguish, between generic mechanisms that alter through transverse instabilities the evolution of stripes: the bending (zigzag mode) and the pinching (cross-roll mode) of the donor/acceptor domains. The results are summarized in a parameter plane spanned by the mixing energy and illumination, and show that donor-acceptor mixtures with higher mixing energy are more likely to develop pinching under charge-flux boundary conditions. The latter is notorious as it leads to the formation of disconnected domains and hence to loss of charge flux. We believe that these results provide a qualitative road-map for BHJ optimization, using mixed-phase composition and therefore, an essential step toward long-lasting OPV. More broadly, the results are also of relevance to study the coexistence of multiple-phase domains in material science, such as in ion-intercalated rechargeable batteries.

nlin.PS↗

arXiv2020

Why A Large Scale Mode Can Be Essential For Understanding Intracellular Actin Waves

During the last decade, intracellular actin waves have attracted much attention due to their essential role in various cellular functions, ranging from motility to cytokinesis. Experimental methods have advanced significantly and can capture the dynamics of actin waves over a large range of spatio-temporal scales. However, the corresponding coarse-grained theory mostly avoids the full complexity of this multi-scale phenomenon. In this perspective, we focus on a minimal continuum model of activator-inhibitor type and highlight the qualitative role of mass-conservation, which is typically overlooked. Specifically, our interest is to connect between the mathematical mechanisms of pattern formation in the presence of a large-scale mode, due to mass-conservation, and distinct behaviors of actin waves.

q-bio.CB↗

arXiv2020

Spatial asymmetries of resonant oscillations in periodically forced heterogeneous media

Spatially localized oscillations in periodically forced systems are intriguing phenomena. They may occur in spatially homogeneous media (oscillons), but quite often emerge in heterogeneous media, such as the auditory system, where localized oscillations are believed to play an important role in frequency discrimination of incoming sound waves. In this paper, we use an amplitude-equation approach to study the spatial profile of the oscillations and the factors that affect it. More specifically, we use a variant of the forced complex Ginzburg-Landau (FCGL) equation to describes an oscillatory system below the Hopf bifurcation with space-dependent Hopf frequency, subject to both parametric and additive forcing. We show that spatial heterogeneity, combined with bistability of system states, results in spatial asymmetry of the localized oscillations. We further identify parameters that control that asymmetry, and characterize the spatial profile of the oscillations in terms of maximum amplitude, location, width and asymmetry. Our results bear qualitative similarities to empirical observation trends that have found in the auditory system.

nlin.PS↗

arXiv2020

Stripes on finite domains: Why the zigzag instability is only a partial story

Stationary periodic patterns are widespread in natural sciences, ranging from nano-scale electrochemical and amphiphilic systems to mesoscale fluid, chemical and biological media and to macro-scale vegetation and cloud patterns. Their formation is usually due to a primary symmetry breaking of a uniform state to stripes, often followed by secondary instabilities to form zigzag and labyrinthine patterns. These secondary instabilities are well studied under idealized conditions of an infinite domain, however, on finite domains, the situation is more subtle since the unstable modes depend also on boundary conditions. Using two prototypical models, the Swift-Hohenberg equation and the forced complex Ginzburg-Landau equation, we consider bounded domains with no flux boundary conditions transversal to the stripes, and reveal a distinct mixed-mode instability that lies in between the classical zigzag and the Eckhaus lines. This explains the stability of stripes in the mildly zigzag unstable regime, and, after crossing the mixed-mode line, the evolution of zigzag stripes in the bulk of the domain and the formation of defects near the boundaries. The results are of particular importance for problems with large time scale separation, such as bulk-heterojunction deformations in organic photovoltaic and vegetation in semi-arid regions, where early temporal transients may play an important role.

nlin.PS↗

arXiv2020

Excitable solitons: Annihilation, crossover, and nucleation of pulses in mass-conserving activator-inhibitor media

Excitable pulses are among the most widespread dynamical patterns that occur in many different systems, ranging from biological cells to chemical reactions and ecological populations. Traditionally, the mutual annihilation of two colliding pulses is regarded as their prototypical signature. Here we show that colliding excitable pulses may exhibit soliton-like crossover and pulse nucleation if the system obeys a mass conservation constraint. In contrast to previous observations in systems without mass conservation, these alternative collision scenarios are robustly observed over a wide range of parameters. We demonstrate our findings using a model of intracellular actin waves since, on time scales of wave propagations over the cell scale, cells obey the conservation of actin monomers. The results provide a key concept to understand the ubiquitous occurrence of actin waves in cells, suggesting why they are so common, and why their dynamics is robust and long-lived.

nlin.PS↗

arXiv2020

Spatial heterogeneity may form an inverse camel shape Arnol'd tongue in parametrically forced oscillations

Frequency locking in forced oscillatory systems typically occurs in 'V'-shaped domains in the plane spanned by the forcing frequency and amplitude, the so-called Arnol'd tongues. Here, we show that if the medium is spatially extended and monotonically heterogeneous, e.g., through spatially-dependent natural frequency, the resonance tongues can also display 'U' and 'W' shapes; to the latter, we refer as "inverse camel" shape. We study the generic forced complex Ginzburg-Landau equation for damped oscillations under parametric forcing and, using linear stability analysis and numerical simulations, uncover the mechanisms that lead to these distinct shapes. Additionally, we study the effects of discretization, by exploring frequency locking of oscillators chains. Since we study a normal-form equation, the results are model-independent near the onset of oscillations, and, therefore, applicable to inherently heterogeneous systems in general, such as the cochlea. The results are also applicable to controlling technological performances in various contexts, such as arrays of mechanical resonators, catalytic surface reactions, and nonlinear optics.

nlin.PS↗

arXiv2018

Pattern formation aspects of electrically charged tri-stable media with implications to bulk heterojunction in organic photovoltaics

A common thread in designing electrochemically-based renewable energy devices comprises materials that exploit nano-scale morphologies, e.g., supercapacitors, batteries, fuel cells, and bulk heterojunction organic photovoltaics. In these devices, however, Coulomb forces often influence the fine nano-details of the morphological structure of active layers leading to a notorious decrease in performance. By focusing on bulk heterojunction organic photovoltaics as a case model, a self-consistent mean-field framework that combines binary (bi-stable) and ternary (tri-stable) morphologies with electrokinetics is presented and analyzed, i.e., undertaking the coupling between the spatiotemporal evolution of the material and charge dynamics along with charge transfer at the device electrodes. Particularly, it is shown that tri-stable composition may stabilize stripe morphology that is ideal bulk heterojuction. Moreover, since the results rely on generic principles they are expected to be applicable to a broad range of electrically charged amphiphilic-type mixtures, such as emulsions, polyelectrolytes, and ionic liquids.

nlin.PS↗

arXiv2018

Controlling the interfacial and bulk concentrations of spontaneously charged colloids in non-polar media

Stabilization and dispersion of electrical charge by colloids in non-polar media, such as nano-particles or inverse micelles, is significant for a variety of chemical and technological applications, ranging from drug delivery to e-ink. Many applications require knowledge about concentrations near the solid|liquid interface and the bulk, particularly in media where colloids exhibit spontaneous charging properties. By modification of the mean field equations to include the finite size effects that are typical in concentrated electrolytes along with disproportionation kinetics, and by considering high potentials, it is possible to evaluate the width of the condensed double layers near planar electrodes and the bulk concentrations of colloids at steady state. These quantities also provide an estimate of the minimum initial colloid concentration that is required to support electroneutrality in the dispersion bulk, and thus provide insights into the quasi-steady state currents that have been observed in inverse micellar media.

physics.chem-ph↗