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Jean-Baptiste Fournier

Publications and source records attributed to Jean-Baptiste Fournier.

At least 19 recordsLinked to original sources

Self-Trapping of Microorganisms Steering Toward their Own Trail

Active matter systems comprise self-propelled particles that move on a substrate while leaving chemical trails that influence other particles through chemotaxis (e.g., slime-depositing bacteria). Orientational chemotaxis manifests as a torque that steers the particle toward the chemical gradient. As each particle is coupled to its own trail, the dynamics exhibits an instability: when the particle gently diffuses, it abruptly transitions to trajectories with a radius of curvature comparable to its own size, becoming apparently trapped. We argue that, contrary to intuition, this trajectory instability occurs for any chemotactic coupling strength. Depending on the coupling regime, this arises either through a potential-barrier first-passage problem or from a rare event analysis.

cond-mat.soft

Spatiotemporal patterns in the active cyclic Potts model

The nonequilibrium dynamics of a cycling three-state Potts model is studied on a square lattice using Monte Carlo simulations and continuum theory. This model is relevant to chemical reactions on a catalytic surface and to molecular transport across a membrane. Several characteristic modes are formed depending on the flipping energies between successive states and the contact energies between neighboring sites. Under cyclic symmetry conditions, cycling homogeneous phases and spiral waves form at low and high flipping energies, respectively. In the intermediate flipping energy regime, these two modes coexist temporally in small systems and/or at low contact energies. Under asymmetric conditions, we observed small biphasic domains exhibiting amoeba-like locomotion and temporal coexistence of spiral waves and a dominant non-cyclic one-state phase. An increase in the flipping energy between two successive states, say state 0 and state 1, while keeping the other flipping energies constant, induces the formation of the third phase (state 2), owing to the suppression of the nucleation of state 0 domains. Under asymmetric conditions regarding the contact energies, two different modes can appear depending on the initial state, due to a hysteresis phenomenon.

cond-mat.stat-mech

Membrane protein clustering from tension and multibody interactions

The point-curvature model for membrane protein inclusions is shown to capture multibody interactions very well. Using this model, we find that the interplay between membrane tension and multibody interactions results in a collective attraction of oppositely curved inclusions tending to form antiferromagnetic structures with a square lattice. This attraction can produce a phase separation between curved and non-curved proteins, resulting in the clustering of curved proteins. We also show that the many-body repulsion between identical curved proteins is enhanced by membrane tension. This can lead to the dissolution of clusters stabilized by short-range forces when the tension is increased. These new phenomena are biologically relevant and could be investigated experimentally

cond-mat.soft

Cycling and spiral-wave modes in an active cyclic Potts model

We studied the nonequilibrium dynamics of a cycling three-state Potts model using simulations and theory. This model can be tuned from thermal-equilibrium to far-from-equilibrium conditions. At low cycling energy, the homogeneous dominant state cycles via nucleation and growth, while spiral waves are formed at high energy. For large systems, a discontinuous transition occurs from these cyclic homogeneous phases to spiral waves, while the opposite transition is absent. Conversely, these two modes can coexist for small systems. The waves can be reproduced by a continuum theory, and the transition can be understood from the competition between nucleation and growth.

cond-mat.stat-mech

Binding of thermalized and active membrane curvature-inducing proteins

Membrane phase behavior induced by the binding of curvature-inducing proteins is studied by a combination of analytical and numerical approaches. In thermal equilibrium under the detailed balance between binding and unbinding, the membrane exhibits three phases: an unbound uniform flat phase (U), a bound uniform flat phase (B), and a separated/corrugated phase (SC). In the SC phase, the bound proteins form hexagonally-ordered bowl-shaped domains. The transitions between the U and SC phases and between the B and SC phases are second order and first order, respectively. At a small spontaneous curvature of the protein or high surface tension, the transition between B and SC phases becomes continuous. Moreover, a first-order transition between the U and B phases is found at zero spontaneous curvature driven by the Casimir-like interactions between rigid proteins. Furthermore, nonequilibrium dynamics is investigated by the addition of active binding and unbinding at a constant rate. The active binding and unbinding processes alter the stability of the SC phase.

cond-mat.soft

Field-mediated interactions of passive and conformation-active particles: multibody and retardation effects

Particles in soft matter often interact through the deformation field they create, as in the "cheerios" effect or the curvature-mediated interactions of membrane proteins. Using a simple model for field-mediated interactions between passive particles, or active particles that switch conformation randomly or synchronously, we derive generic results concerning multibody interactions, activity driven patterns, and retardation effects.

cond-mat.soft

Saffman-Delbrück and beyond: a pointlike approach

We show that a very good analytical approximation of Saffman-Delbrück's (SD) law (mobility of a bio-membrane inclusion) can be obtained easily from the velocity field produced by a pointlike force in a 2D fluid embedded in a solvent, by using a small wavelength cutoff of the order of the particle's radius~$a$. With this method, we obtain analytical generalizations of the SD law that take into account the bilayer nature of the membrane and the intermonolayer friction $b$. We also derive, in a calculation that consistently couples the quasi-planar two-dimensional (2D) membrane flow with the 3D solvent flow, the correction to the SD law arising when the inclusion creates a local spontaneous curvature. For an inclusion spanning a flat bilayer, the SD law is found to hold simply upon replacing the 2D viscosity $η_2$ of the membrane by the sum of the monolayer viscosities, without influence of $b$ as long as $b$ is above a threshold in practice well below known experimental values. For an inclusion located in only one of the two monolayers (or adhering to one monolayer), the SD law is influenced by $b$ when $b<η_2/(4a^2)$. In this case, the mobility can be increased by up to a factor of two, as the opposite monolayer is not fully dragged by the inclusion. For an inclusion creating a local spontaneous curvature, we show that the total friction is the sum of the SD friction and that due to the pull-back created by the membrane deformation, a point that was assumed without demonstration in the literature.

cond-mat.soft

Spatial Organization of Active Particles with Field Mediated Interactions

We consider a system of independent point-like particles performing a Brownian motion while interacting with a Gaussian fluctuating background. These particles are in addition endowed with a discrete two-state internal degree of freedom that is subjected to a nonequilibrium source of noise, which affects their coupling with the background field. We explore the phase diagram of the system and pinpoint the role of the nonequilibrium drive in producing a nontrivial patterned spatial organization. We are able, by means of a weakly nonlinear analysis, to account for the parameter-dependence of the boundaries of the phase and pattern diagram in the stationary state.

cond-mat.soft

Membrane-mediated interactions

Interactions mediated by the cell membrane between inclusions, such as membrane proteins or antimicrobial peptides, play important roles in their biological activity. They also constitute a fascinating challenge for physicists, since they test the boundaries of our understanding of self-assembled lipid membranes, which are remarkable examples of two-dimensional complex fluids. Inclusions can couple to various degrees of freedom of the membrane, resulting in different types of interactions. In this chapter, we review the membrane-mediated interactions that arise from direct constraints imposed by inclusions on the shape of the membrane. These effects are generic and do not depend on specific chemical interactions. Hence, they can be studied using coarse-grained soft matter descriptions. We deal with long-range membrane-mediated interactions due to the constraints imposed by inclusions on membrane curvature and on its fluctuations. We also discuss the shorter-range interactions that arise from the constraints on membrane thickness imposed by inclusions presenting a hydrophobic mismatch with the membrane.

physics.bio-ph

Interaction and self-assembly of membrane-binding and membrane-excluding colloids embedded in lamellar phases

Within the framework of a discrete Gaussian model, we present analytical results for the interaction induced by a lamellar phase between small embedded colloids. We consider the two limits of particles strongly adherent to the adjacent membranes and of particles impenetrable to the membranes. Our approach takes into account the finite size of the colloids, the discrete nature of the layers, and includes the Casimir-like effect of fluctuations, which is very important for dilute phases. Monte Carlo simulations of the statistical behavior of the membrane-interacting colloids account semi-quantitatively, without any adjustable parameters, for the experimental data measured on silica nanospheres inserted within lyotropic smectics. We predict the existence of finite-size and densely packed particle aggregates originating from the competition between attractive interactions between colloids in the same layer and repulsion between colloids one layer apart.

cond-mat.soft

Dynamics of a bilayer membrane with membrane-solvent partial slip boundary conditions

We discuss the dynamics of a bilayer membrane with partial slip boundary conditions between the monolayers and the bulk fluid. Using Onsager's variational principle to account for the associated dissipations, we derive the coupled dynamic equations for the membrane height and the excess lipid density. The newly introduced friction coefficients appear in the renormalized fluid viscosities. For ordinary lipid bilayer membranes, we find that it is generally justified to ignore the effects of permeation and parallel slip at the membrane surface.

cond-mat.soft

Coupling between Inclusions and Membranes at the Nanoscale

The activity of cell membrane inclusions (such as ion channels) is influenced by the host lipid membrane, to which they are elastically coupled. This coupling concerns the hydrophobic thickness of the bilayer (imposed by the length of the channel, as per the hydrophobic matching principle) but also its slope at the boundary of the inclusion. However, this parameter has never been measured so far. We combine small-angle x-ray scattering data and a complete elastic model to measure the slope for the model gramicidin channel and show that it is surprisingly steep, in two membrane systems with very different elastic properties. This conclusion is confirmed and generalized by the comparison with recent results in the simulation literature and with conductivity measurements.

cond-mat.soft

Field-Embedded Particles Driven by Active Flips

Systems of independent active particles embedded into a fluctuating environment are relevant to many areas of soft-matter science. We use a minimal model of noninteracting spin-carrying Brownian particles in a Gaussian field and show that activity-driven spin dynamics leads to patterned order. We find that the competition between mediated interactions and active noise alone can yield such diverse behaviors as phase transitions and microphase separation, from lamellar up to hexagonal ordering of clusters of opposite magnetization. These rest on complex multibody interactions. We find regimes of stationary patterns, but also dynamical regimes of relentless birth and growth of lumps of magnetization opposite to the surrounding one. Our approach combines Monte-Carlo simulations with analytical methods based on dynamical density functional approaches.

cond-mat.soft

Dynamics of a Bilayer Membrane Coupled to a Two-dimensional Cytoskeleton: Scale Transfers of Membrane Deformations

We theoretically investigate the dynamics of a floating lipid bilayer membrane coupled with a two-dimensional cytoskeleton network, taking into explicitly account the intermonolayer friction, the discrete lattice structure of the cytoskeleton, and its prestress. The lattice structure breaks lateral continuous translational symmetry and couples Fourier modes with different wavevectors. It is shown that within a short time interval a long-wavelength deformation excites a collection of modes with wavelengths shorter than the lattice spacing. These modes relax slowly with a common renormalized rate originating from the long-wavelength mode. As a result, and because of the prestress, the slowest relaxation is governed by the intermonolayer friction. Reversely, and most interestingly, forces applied at the scale of the cytoskeleton for a sufficiently long time can cooperatively excite large-scale modes.

cond-mat.soft

Membrane structure formation induced by two types of banana-shaped proteins

The assembly of banana-shaped rodlike proteins on membranes, and the associated membrane shape transformations, are investigated by analytical theory and coarse-grained simulations. The membrane-mediated interactions between two banana-shaped inclusions are derived theoretically using a point-like formalism based on fixed anisotropic curvatures, both for zero surface tension and for finite surface tension. On a larger scale, the interactions between assemblies of such rodlike inclusions are determined analytically. Meshless membrane simulations are performed in the presence of a large number of inclusions of two types, corresponding to curved rods of opposite curvatures, both for flat membranes and vesicles. Rods of the same type aggregate into linear assemblies perpendicular to the rod axis, leading to membrane tubulation. However, rods of the other type, those of opposite curvature, are attracted to the lateral sides of these assemblies, and stabilize a straight bump structure that prevents tubulation. When the two types of rods have almost opposite curvatures, the bumps attract one another, forming a stripe structure. Positive surface tension is found to stabilize the stripe formation. The simulation results agree well with the theoretical predictions provided the point-like curvatures of the model are scaled-down to account for the effective flexibility of the simulated rods.

cond-mat.soft

Hydrodynamics of bilayer membranes with diffusing transmembrane proteins

We consider the hydrodynamics of lipid bilayers containing transmembrane proteins of arbitrary shape. This biologically-motivated problem is relevant to the cell membrane, whose fluctuating dynamics play a key role in phenomena ranging from cell migration, intercellular transport, and cell communication. Using Onsager's variational principle, we derive the equations that govern the relaxation dynamics of the membrane shape, of the mass densities of the bilayer leaflets, and of the diffusing proteins' concentration. With our generic formalism, we obtain several results on membrane dynamics. We find that proteins that span the bilayer increase the intermonolayer friction coefficient. The renormalization, which can be significant, is in inverse proportion to the protein's mobility. Second, we find that asymmetric proteins couple to the membrane curvature and to the difference in monolayer densities. For practically all accessible membrane tensions ($σ> 10^{-8}$ N/m) we show that the protein density is the slowest relaxing variable. Furthermore, its relaxation rate decreases at small wavelengths due to the coupling to curvature. We apply our formalism to the large-scale diffusion of a concentrated protein patch. We find that the diffusion profile is not self-similar, owing to the wavevector dependence of the effective diffusion coefficient.

cond-mat.soft

Relaxation dynamics of two-component fluid bilayer membranes

We theoretically investigate the relaxation dynamics of a nearly-flat binary lipid bilayer membrane by taking into account the membrane tension, hydrodynamics of the surrounding fluid, inter-monolayer friction and mutual diffusion in each monolayer. We find that two relaxation modes associated with the mutual diffusion appear in addition to the three previously discussed relaxation modes reflecting the bending and compression of the membrane. Because of the symmetry, only one of the two diffusive mode is coupled to the bending mode. The two diffusive modes are much slower than the bending and compression modes in the entire realistic wave number range. This means that the long time relaxation behavior is dominated by the mutual diffusion in binary membranes. The two diffusive modes become even slower in the vicinity of the unstable region towards phase separation, while the other modes are almost unchanged. In short time scales, on the other hand, the lipid composition heterogeneity induces in-plane compression and bending of the bilayer.

cond-mat.soft

Monte Carlo study of the frame, fluctuation and internal tensions of fluctuating membranes with fixed area

Three types of surface tensions can be defined for lipid membranes: the internal tension, $σ$, conjugated to the real membrane area in the Hamiltonian, the mechanical frame tension, $τ$, conjugated to the projected area, and the "fluctuation tension", $r$, obtained from the fluctuation spectrum of the membrane height. We investigate these surface tensions by means of a Monge gauge lattice Monte Carlo simulation involving the exact, nonlinear, Helfrich Hamiltonian and a measure correction for excess entropy of the Monge gauge. Our results for the relation between $σ$ and $τ$ agrees well with the theoretical prediction of [J.-B. Fournier and C. Barbetta, Phys. Rev. Lett., 2008, 100, 078103] based on a Gaussian approximation. This provides a valuable knowledge of~$τ$ in the standard Gaussian models where the tension is controlled by $σ$. However, contrary to the conjecture in the above paper, we find that $r$ exhibits no significant difference from $τ$ over more than five decades of tension. Our results appear to be valid in the thermodynamic limit and are robust to changing the ensemble in which the membrane area is controlled.

cond-mat.soft