arXiv subjects

Jean-François Joanny

Publications and source records attributed to Jean-François Joanny.

At least 19 recordsLinked to original sources

arXiv2026

Active colloidal rafts perform swimming strokes that propel their host droplets

Active particles confined in droplets can set their host droplet into motion. This phenomenon is usually attributed to direct hydrodynamic forcing by the enclosed particles. Here we reveal a different mechanism: we show that a self-propelled raft of active colloids confined in a thin oil droplet at the surface of water typically follows an off-centered orbit, thus periodically deforming the droplet's contact line in an anisotropic way. This non-reciprocal deformation acts as a swimming stroke and propels the droplet according to the principles of low-Reynolds-number swimming. The effect is absent for a single colloid and arises from the intrinsically many-body dynamics of the raft, which we capture with a dynamical model coupling viscous hydrodynamics and many-body active dynamics. Our results show how collective internal activity can be converted into locomotion through deformation of a soft confining boundary.

cond-mat.soft↗

arXiv2025

Dynamical arrest in active nematic turbulence

Active fluids display spontaneous turbulent-like flows known as active turbulence. Recent work revealed that these flows have universal features, independent of the material properties and of the presence of topological defects. However, the differences between defect-laden and defect-free active turbulence remain largely unexplored. Here, by means of large-scale numerical simulations, we show that defect-free active nematic turbulence can undergo dynamical arrest. This state is characterized by an emergent network of nematic domain walls that channels coherent streams and suppresses chaotic flows. As the system evolves, the branched wall network produces a large-scale pattern with tree-like topological properties. We find that flow alignment -- the tendency of nematics to reorient under shear -- enhances large-scale chaotic jets in contractile rodlike systems while promoting dynamical arrest in extensile systems. We further show that dynamical arrest persists regardless of whether defects are prohibited by construction or simply fail to form due to a high energy cost of defect cores. Taken together, our findings reveal a striking pattern-formation mechanism, with labyrinths emerging from active turbulence, and illuminate the rich transitional regime between defect-free and defect-laden dynamics. These behaviors call for the experimental realization of active nematics at vanishing or low defect densities, and underscore that, in extensile rodlike nematics, topological defects enable turbulence by preventing dynamical arrest.

cond-mat.soft↗

arXiv2025

Statistical physics of active matter, cell division and cell aggregation

In these Lecture Notes we aim at clarifying how soft matter physics, and herein notably statistical mechanics and fluid mechanics, can be engaged to understand and manipulate non-equilibrium systems consisting of numerous (microscopic) constituents that convert (chemical) energy to mechanical energy, or vice versa, and that are known as active matter. Hydrodynamic theory, vitally extended to include (anisotropic) active stress, provides an astonishingly successful scaffold for tackling the problem of spontaneous flow in active nematics, all the way to active turbulence. The laws of physics, nonchalantly tresspassing the border crossing between inanimate particle and living cell, are seen to perform cum laude in describing the bi-directional coupling between division and apoptosis on the one hand and mechanical stress on the other. Fluidization of cellular tissue by cell division is a conceptual leap in this arena. The active behavior of nematic tissues (cell extrusion, multilayer formation, ...) turns out to be controlled by topological defects in the orientational order. Playgrounds by excellence for exhibiting stress-growth coupling are multicellular spheroids serving as model tumors, and cysts used as stem cell factories for cell therapy. Finally, our study of villi and crypts in the intestine furnishes a synthesis of various concepts explored. Cell mechanical pressure and cell layer geometrical curvature turn out to provide the dynamical ingredients which, when coupled to the cell division rate, allow one to develop a physical theory of tissue morphology which hopefully will have practical impact on cancer research.

cond-mat.soft↗

arXiv2024

Environment-stored memory in active nematics and extra-cellular matrix remodeling

Many active systems display nematic order, while interacting with their environment. In this work, we show theoretically how environment-stored memory acts an effective external field that aligns active nematics. The coupling to the environment leads to substantial modifications of the known phase diagram and dynamics of active nematics, including nematic order at arbitrarily low densities and arrested domain coarsening. We are motivated mainly by cells that remodel fibers in their extra-cellular matrix (ECM), while being directed by the fibers during migration. Our predictions indicate that remodeling promotes cellular and ECM alignment, and possibly limits the range of ordered ECM domains, in accordance with recent experiments.

cond-mat.soft↗

arXiv2024

Nonlinear spontaneous flow instability in active nematics

Active nematics exhibit spontaneous flows through a well-known linear instability of the uniformly-aligned quiescent state. Here we show that even a linearly stable uniform state can experience a nonlinear instability, resulting in a discontinuous transition to spontaneous flows. In this case, quiescent and flowing states may coexist. Through a weakly nonlinear analysis and a numerical study, we trace the bifurcation diagram of striped patterns and show that the underlying pitchfork bifurcation switches from supercritical (continuous) to subcritical (discontinuous) by varying the flow-alignment parameter. We predict that the discontinuous spontaneous flow transition occurs for a wide range of parameters, including systems of contractile flow-aligning rods. Our predictions are relevant to active nematic turbulence and can potentially be tested in experiments on either cell layers or active cytoskeletal suspensions.

cond-mat.soft↗

arXiv2022

Permeation Instabilities in Active, Polar Gels

We present a theory of active, permeating, polar gels, based on a two-fluid model. An active relative force between the gel components creates a steady-state current. We analyze its stability, while considering two polar coupling terms to the relative current: a permeation-deformation term, which describes network deformation by the solvent flow, and a permeation-alignment term, which describes the alignment of the polarization field by the network deformation and flow. Novel instability mechanisms emerge at finite wave vectors, suggesting the formation of periodic domains and mesophases. Our results can be used to determine the physical conditions required for various types of multicellular migration across tissues.

cond-mat.soft↗

arXiv2022

Active-gel Theory for Multicellular Migration of Polar Cells in the Extra-cellular Matrix

We formulate an active-gel theory for multicellular migration in the extra-cellular matrix (ECM). The cells are modeled as an active, polar solvent, and the ECM as a viscoelastic solid. Our theory enables to analyze the dynamic reciprocity between the migrating cells and their environment in terms of distinct relative forces and alignment mechanisms. We analyze the linear stability of polar cells migrating homogeneously in the ECM. Our theory predicts that, as a consequence of cell-matrix alignment, contractile cells migrate homogeneously for small wave vectors, while sufficiently extensile cells migrate in domains. Homogeneous cell migration of both extensile and contractile cells may be unstable for larger wave vectors, due to active forces and the alignment of cells with their concentration gradient. These mechanisms are stabilized by cellular alignment to the migration flow and matrix stiffness. They are expected to be suppressed entirely for rigid matrices with elastic moduli of order 10 kPa. Our theory should be useful in analyzing multicellular migration and ECM patterning at the mesoscopic scale.

physics.bio-ph↗

arXiv2022

Spontaneous flow created by active topological defects

Topological defects are at the root of the large-scale organization of liquid crystals. In two-dimensional active nematics, two classes of topological defects of charges $\pm 1/2$ are known to play a major role due to active stresses. Despite this importance, few analytical results have been obtained on the flow-field and active-stress patterns around active topological defects. Using the generic hydrodynamic theory of active systems, we investigate the flow and stress patterns around these topological defects in unbounded, two-dimensional active nematics. Under generic assumptions, we derive analytically the spontaneous velocity and stall force of self-advected defects in the presence of both shear and rotational viscosities. Applying our formalism to the dynamics of monolayers of elongated cells at confluence, we show that the non-conservation of cell number generically increases the self-advection velocity and could provide an explanation for their observed role in cellular extrusion and multilayering. We finally investigate numerically the influence of the Ericksen stress. Our work paves the way to a generic study of the role of topological defects in active nematics, and in particular in monolayers of elongated cells.

cond-mat.soft↗

arXiv2021

Long-time diffusion and energy transfer in polydisperse mixtures of particles with different temperatures

Evidence suggests that the transport rate of a passive particle at long timescales is enhanced due to interactions with the surrounding active ones in a size- and composition-dependent manner. Using a system of particles with different temperatures, we probe these effects in dilute solutions and derive long-time friction and self-diffusion coefficients as functions of volume fractions, sizes and temperatures of particles in $d=2$ and 3 dimensions. Thus, we model excluded-volume interactions for nonequilibrium systems but also extend the scope to short-range soft potentials and compare our results to Brownian-dynamics simulations. Remarkably, we show that both viscosity and energy flux display a nonlinear dependence on size. The simplicity of our formalism allows to discover various interesting scenarios that can be relevant for biological systems and active colloids.

cond-mat.soft↗

arXiv2021

Steric interactions and out-of-equilibrium processes control the internal organization of bacteria

Despite the absence of a membrane-enclosed nucleus, the bacterial DNA is typically condensed into a compact body - the nucleoid. This compaction influences the localization and dynamics of many cellular processes including transcription, translation, and cell division. Here, we develop a model that takes into account steric interactions among the components of the Escherichia coli transcriptional-translational machinery (TTM) and out-of-equilibrium effects of mRNA transcription, translation, and degradation, in order to explain many observed features of the nucleoid. We show that steric effects, due to the different molecular shapes of the TTM components, are sufficient to drive equilibrium phase separation of the DNA, explaining the formation and size of the nucleoid. In addition, we show that the observed positioning of the nucleoid at midcell is due to the out-of-equilibrium process of messenger RNA (mRNA) synthesis and degradation: mRNAs apply a pressure on both sides of the nucleoid, localizing it to midcell. We demonstrate that, as the cell grows, the production of these mRNAs is responsible for the nucleoid splitting into two lobes, and for their well-known positioning to 1/4 and 3/4 positions on the long cell axis. Finally, our model quantitatively accounts for the observed expansion of the nucleoid when the pool of cytoplasmic mRNAs is depleted. Overall, our study suggests that steric interactions and out-of-equilibrium effects of the TTM are key drivers of the internal spatial organization of bacterial cells.

q-bio.CB↗

arXiv2021

Active Turbulence

Active fluids exhibit spontaneous flows with complex spatiotemporal structure, which have been observed in bacterial suspensions, sperm cells, cytoskeletal suspensions, self-propelled colloids, and cell tissues. Despite occurring in the absence of inertia, chaotic active flows are reminiscent of inertial turbulence, and hence they are known as active turbulence. Here, we survey the field, providing a unified perspective over different classes of active turbulence. To this end, we divide our review in sections for systems with either polar or nematic order, and with or without momentum conservation (wet/dry). Comparing to inertial turbulence, we highlight the emergence of power-law scaling with either universal or non-universal exponents. We also contrast scenarios for the transition from steady to chaotic flows, and we discuss the absence of energy cascades. We link this feature to both the existence of intrinsic length scales and the self-organized nature of energy injection in active turbulence, which are fundamental differences with inertial turbulence. We close by outlining the emerging picture, remaining challenges, and future directions.

cond-mat.soft↗

arXiv2021

Scaling regimes of active turbulence with external dissipation

Active fluids exhibit complex turbulent-like flows at low Reynolds number. Recent work predicted that 2d active nematic turbulence follows universal scaling laws. However, experimentally testing these predictions is conditioned by the coupling to the 3d environment. Here, we measure the spectrum of the kinetic energy, $E(q)$, in an active nematic film in contact with a passive oil layer. At small and intermediate scales, we find the scaling regimes $E(q)\sim q^{-4}$ and $E(q)\sim q^{-1}$, respectively, in agreement with the theoretical prediction for 2d active nematics. At large scales, however, we find a new scaling $E(q)\sim q$, which emerges when the dissipation is dominated by the 3d oil layer. In addition, we derive an explicit expression for the spectrum that spans all length scales, thus explaining and connecting the different scaling regimes. This allows us to fit the data and extract the length scale that controls the crossover to the new large-scale regime, which we tune by varying the oil viscosity. Overall, our work experimentally demonstrates the emergence of universal scaling laws in active turbulence, and it establishes how the spectrum is affected by external dissipation.

cond-mat.soft↗

arXiv2020

Mechanical behavior of multi-cellular spheroids under osmotic compression

The internal and external mechanical environment plays an important role in tumorogenesis. As a proxy of an avascular early state tumor, we use multicellular spheroids, a composite material made of cells, extracellular matrix and permeating fluid. We characterize its effective rheology at the timescale of minutes to hours by compressing the aggregates with osmotic shocks and modeling the experimental results with an active poroelastic material that reproduces the stress and strain distributions in the aggregate. The model also predicts how the emergent bulk modulus of the aggregate as well as the hydraulic diffusion of the percolating interstitial fluid are modified by the preexisting active stress within the aggregate. We further show that the value of these two phenomenological parameters can be rationalized by considering that, in our experimental context, the cells are effectively impermeable and incompressible inclusions nested in a compressible and permeable matrix.

physics.bio-ph↗

arXiv2020

Universal scaling of active nematic turbulence

A landmark of turbulence is the emergence of universal scaling laws, such as Kolmogorov's $E(q)\sim q^{-5/3}$ scaling of the kinetic energy spectrum of inertial turbulence with the wave vector $q$. In recent years, active fluids have been shown to exhibit turbulent-like flows at low Reynolds number. However, the existence of universal scaling properties in these flows has remained unclear. To address this issue, here we propose a minimal defect-free hydrodynamic theory for two-dimensional active nematic fluids at vanishing Reynolds number. By means of large-scale simulations and analytical arguments, we show that the kinetic energy spectrum exhibits a universal scaling $E(q)\sim q^{-1}$ at long wavelengths. We find that the energy injection due to activity has a peak at a characteristic length scale, which is selected by a nonlinear mechanism. In contrast to inertial turbulence, energy is entirely dissipated at the scale where it is injected, thus precluding energy cascades. Nevertheless, the non-local character of the Stokes flow establishes long-ranged velocity correlations, which lead to the scaling behavior. We conclude that active nematic fluids define a distinct universality class of turbulence at low Reynolds number.

cond-mat.soft↗

arXiv2020

Phase separation and nucleation in mixtures of particles with different temperatures

Differences in activities in colloidal particles are sufficient to drive phase separation between active and passive (or less active) particles, even if they have only excluded volume interactions. In this paper, we study the phase separation kinetics and propose a theory of phase separation of colloidal mixtures in the diffusive limit. Our model considers a mixture of diffusing particles coupled to different thermostats, it thus has a non-equilibrium nature due to the temperature differences. However, we show that indeed the system recovers an effective equilibrium thermodynamics in the dilute limit. We obtain phase diagrams showing the asymmetry in concentrations due to activity differences. By using a more general approach, we show the equivalence of phase separation kinetics with the well known Cahn-Hilliard theory. On the other hand, higher order expansions in concentration indicate the emergence of non-equilibrium effects leading to a breakdown of the equilibrium analogy. We lay out the general theory in terms of accessible parameters which we demonstrate by several applications. In this simple formalism, we capture a positive surface tension for hard spheres}, and interesting scaling laws for interfacial properties, droplet growth dynamics, and phase segregation conditions. \rev{Several of our results are in agreement with existing numerical simulations while we also propose testable predictions.

cond-mat.soft↗

arXiv2018

Pressure and Flow of Exponentially Self-Correlated Active Particles

Microscopic swimming particles, which dissipate energy to execute persistent directed motion, are a classic example of a non-equilibrium system. We investigate the non-interacting Ornstein--Uhlenbeck Particle (OUP), which is propelled through a viscous medium by a force which is correlated over a finite time. We obtain an exact expression for the steady state phase-space density of a single OUP confined by a quadratic potential, and use the result to explore more complex geometries, both through analytical approximations and numerical simulations. In a "Casimir"-style setup involving two narrowly-spaced walls, we describe a particle-trapping phenomenon, which leads to a repulsive effective interaction between the walls; while in a two-dimensional annulus geometry, we observe net stresses which resemble the Laplace pressure.

cond-mat.soft↗

arXiv2015

An interplay of migratory and division forces as a generic mechanism for stem cell patterns

In many adult tissues, stem cells and differentiated cells are not homogeneously distributed : stem cells are arranged in periodic "niches", and differentiated cells are constantly produced and migrate out of these niches. In this article, we provide a general theoretical framework to study mixtures of dividing and actively migrating particles, which we apply to biological tissues. We show in particular that the interplay between the stresses arising from active cell migration and stem cell division give rise to robust stem cell patterns. The instability of the tissue leads to spatial patterns which are either steady or oscillating in time. The wavelength of the instability has an order of magnitude consistent with the biological observations. We also discuss the implications of these results for future in vitro and in vivo experiments.

physics.bio-ph↗

arXiv2015

A Reaction-Diffusion Model of the Cadherin-Catenin System: A Possible Mechanism for Contact Inhibition and Implications for Tumorigenesis

Contact inhibition is the process by which cells switch from a motile growing state to a passive and stabilized state upon touching their neighbors. When two cells touch, an adhesion link is created between them by means of transmembrane E-cadherin proteins. Simultaneously, their actin filaments stop polymerizing in the direction perpendicular to the membrane and reorganize to create an apical belt that colocalizes with the adhesion links. Here, we propose a detailed quantitative model of the role of the cytoplasmic $β$-catenin and $α$-catenin proteins in this process, treated as a reaction-diffusion system. Upon cell-cell contact, the concentration in $α$-catenin dimers increases, inhibiting actin branching and thereby reducing cellular motility and expansion pressure. This model provides a mechanism for contact inhibition that could explain previously unrelated experimental findings on the role played by E-cadherin, $β$-catenin and $α$-catenin in the cellular phenotype and in tumorigenesis. In particular, we address the effect of a knockout of the adenomatous polyposis coli tumor suppressor gene. Potential direct tests of our model are discussed.

physics.bio-ph↗