arXiv subjects

Charlie Duclut

Publications and source records attributed to Charlie Duclut.

17 recordsLinked to original sources

arXiv2025

TopoSPAM: Topology grounded Simulation Platform for morphogenesis and biological Active Matter

We present a topology grounded, multiscale simulation platform for morphogenesis and biological active matter. Morphogenesis and biological active matter represent keystone problems in biology with additional, far-reaching implications across the biomedical sciences. Addressing these problems will require flexible, cross-scale models of tissue shape, development, and dysfunction that can be tuned to understand, model, and predict relevant individual cases. Current approaches to simulating anatomical or cellular subsystems tend to rely on static, assumed shapes. Meanwhile, the potential for topology to provide natural dimensionality reduction and organization of shape and dynamical outcomes is not fully exploited. TopoSPAM combines ease of use with powerful simulation algorithms and methodological advances, including active nematic gels, topological-defect-driven shape dynamics, and an active 3D vertex model of tissues. It is capable of determining emergent flows and shapes across scales.

physics.bio-ph↗

arXiv2024

Fluctuation-Induced First Order Transition to Collective Motion

The nature of the transition to collective motion in assemblies of aligning self-propelled particles remains a long-standing matter of debate. In this article, we focus on dry active matter and show that weak fluctuations suffice to generically turn second-order mean-field transitions into a `discontinuous' coexistence scenario. Our theory shows how fluctuations induce a density-dependence of the polar-field mass, even when this effect is absent at mean-field level. In turn, this dependency on density triggers a feedback loop between ordering and advection that ultimately leads to an inhomogeneous transition to collective motion and the emergence of inhomogeneous travelling bands. Importantly, we show that such a fluctuation-induced first order transition is present in both metric models, in which particles align with neighbors within a finite distance, and in `topological' ones, in which alignment is based on more complex constructions of neighbor sets. We compute analytically the noise-induced renormalization of the polar-field mass using stochastic calculus, which we further back up by a one-loop field-theoretical analysis. Finally, we confirm our analytical predictions by numerical simulations of fluctuating hydrodynamics as well as of topological particle models with either k-nearest neighbors or Voronoi alignment.

cond-mat.soft↗

arXiv2023

Probe particles in odd active viscoelastic fluids: how activity and dissipation determine linear stability

Odd viscoelastic materials are constrained by fewer symmetries than their even counterparts. The breaking of these symmetries allow these materials to exhibit different features, which have attracted considerable attention in recent years. Immersing a bead in such complex fluids allows for probing their physical properties, highlighting signatures of their oddity and exploring consequences of these broken symmetries. We present the conditions under which the activity of an odd viscoelastic fluid can give rise to linear instabilities in the motion of the probe particle and unveil how the features of the probe particle dynamics depend on the oddity and activity of the viscoelastic medium in which it is immersed.

cond-mat.soft↗

arXiv2023

Lift force in odd compressible fluids

We compute the response matrix for a tracer particle in a compressible fluid with odd viscosity living on a two-dimensional surface. Unlike the incompressible case, we find that an odd compressible fluid can produce an odd lift force on a tracer particle. Using a "shell localization" formalism, we provide analytic expressions for the drag and odd lift forces acting on the tracer particle in a steady state and also at finite frequency. Importantly, we find that the existence of an odd lift force in a steady state requires taking into account the non-conservation of the fluid mass density due to the coupling between the two-dimensional surface and the three-dimensional bulk fluid.

cond-mat.soft↗

arXiv2023

Nematic Torques in Scalar Active Matter: when Fluctuations Favor Polar Order and Persistence

We study the impact of nematic alignment on scalar active matter in the disordered phase. We show that nematic torques control the emergent physics of particles interacting via pairwise forces and can either induce or prevent phase separation. The underlying mechanism is a fluctuation-induced renormalization of the mass of the polar field that generically arises from nematic torques. The correlations between the fluctuations of the polar and nematic fields indeed conspire to increase the particle persistence length, contrary to what phenomenological computations predict. This effect is generic and our theory also quantitatively accounts for how nematic torques enhance particle accumulation along confining boundaries and opposes demixing in mixtures of active and passive particles.

cond-mat.stat-mech↗

arXiv2022

Random traction yielding transition in epithelial tissues

We investigate how randomly oriented cell traction forces lead to fluidisation in a vertex model of epithelial tissues. We find that the fluidisation occurs at a critical value of the traction force magnitude $F_c$. We show that this transition exhibits critical behaviour, similar to the yielding transition of sheared amorphous solids. However, we find that it belongs to a different universality class, even though it satisfies the same scaling relations between critical exponents established in the yielding transition of sheared amorphous solids. Our work provides a fluidisation mechanism through active force generation that could be relevant in biological tissues.

cond-mat.soft↗

arXiv2022

Passive odd viscoelasticity

Active chiral viscoelastic materials exhibit elastic responses perpendicular to the applied stresses, referred to as odd elasticity. We use a covariant formulation of viscoelasticity combined with an entropy production analysis to show that odd elasticity is not only present in active systems but also in broad classes of passive chiral viscoelastic fluids. In addition, we demonstrate that linear viscoelastic chiral solids do require activity in order to manifest odd elastic responses. In order to model the phenomenon of passive odd viscoelasticity we propose a chiral extension of Jeffreys model. We apply our covariant formalism in order to derive the dispersion relations of hydrodynamic modes and obtain clear imprints of odd viscoelastic behavior.

cond-mat.soft↗

arXiv2022

Active T1 transitions in cellular networks

In amorphous solids as in tissues, neighbor exchanges can relax local stresses and allow the material to flow. In this paper, we use an anisotropic vertex model to study T1 rearrangements in polygonal cellular networks. We consider two different physical realizations of the active anisotropic stresses: (i) anisotropic bond tension and (ii) anisotropic cell stress. Interestingly, the two types of active stress lead to patterns of relative orientation of T1 transitions and cell elongation that are different. Our work suggests that these two realizations of anisotropic active stresses can be observed \textit{in vivo}. We describe and explain these results through the lens of a continuum description of the tissue as an anisotropic active material. We furthermore discuss the energetics of the dynamic tissue and express the energy balance in terms of internal elastic energy, mechanical work, chemical work and heat. This allows us to define active T1 transitions that can perform mechanical work while consuming chemical energy.

physics.bio-ph↗

arXiv2021

Stochastic dynamics of chemotactic colonies with logistic growth

The interplay between cellular growth and cell-cell signaling is essential for the aggregation and proliferation of bacterial colonies, as well as for the self-organization of cell tissues. To investigate this interplay, we focus here on the collective properties of dividing chemotactic cell colonies by studying their long-time and large-scale dynamics through a renormalization group (RG) approach. The RG analysis reveals that a relevant but unconventional chemotactic interaction -- corresponding to a polarity-induced mechanism -- is generated by fluctuations at macroscopic scales, even when an underlying mechanism is absent at the microscopic level. This emerges from the interplay of the well-known Keller--Segel (KS) chemotactic nonlinearity and cell birth and death processes. At one-loop order, we find no stable fixed point of the RG flow equations. We discuss a connection between the dynamics investigated here and the celebrated Kardar--Parisi--Zhang (KPZ) equation with long-range correlated noise, which points at the existence of a strong-coupling, nonperturbative fixed point.

cond-mat.stat-mech↗

arXiv2021

Coarse-grained curvature tensor on polygonal surfaces

Using concepts from integral geometry, we propose a definition for a local coarse-grained curvature tensor that is well-defined on polygonal surfaces. This coarse-grained curvature tensor shows fast convergence to the curvature tensor of smooth surfaces, capturing with accuracy not only the principal curvatures but also the principal directions of curvature. Thanks to the additivity of the integrated curvature tensor, coarse-graining procedures can be implemented to compute it over arbitrary patches of polygons. When computed for a closed surface, the integrated curvature tensor is identical to a rank-2 Minkowski tensor. We also provide an algorithm to extend an existing C++ package, that can be used to compute efficiently local curvature tensors on triangulated surfaces.

cond-mat.soft↗

arXiv2021

Hydraulic and electric control of cell spheroids

We use a theoretical approach to examine the effect of a radial fluid flow or electric current on the growth and homeostasis of a cell spheroid. Such conditions may be generated by a drain of micrometric diameter. To perform this analysis, we describe the tissue as a continuum. We include active mechanical, electric, and hydraulic components in the tissue material properties. We consider a spherical geometry and study the effect of the drain on the dynamics of the cell aggregate. We show that a steady fluid flow or electric current imposed by the drain could be able to significantly change the spheroid long-time state. In particular, our work suggests that a growing spheroid can systematically be driven to a shrinking state if an appropriate external field is applied. Order-of-magnitude estimates suggest that such fields are of the order of the indigenous ones. Similarities and differences with the case of tumors and embryo development are briefly discussed.

physics.bio-ph↗

arXiv2021

Nonlinear rheology of cellular networks

Morphogenesis depends crucially on the complex rheological properties of cell tissues and on their ability to maintain mechanical integrity while rearranging at long times. In this paper, we study the rheology of polygonal cellular networks described by a vertex model in the presence of fluctuations. We use a triangulation method to decompose shear into cell shape changes and cell rearrangements. Considering the steady-state stress under constant shear, we observe nonlinear shear-thinning behavior at all magnitudes of the fluctuations, and an even stronger nonlinear regime at lower values of the fluctuations. We successfully capture this nonlinear rheology by a mean-field model that describes the tissue in terms of cell elongation and cell rearrangements. We furthermore introduce anisotropic active stresses in the vertex model and analyze their effect on rheology. We include this anisotropy in the mean-field model and show that it recapitulates the behavior observed in the simulations. Our work clarifies how tissue rheology is related to stochastic cell rearrangements and provides a simple biophysical model to describe biological tissues. Further, it highlights the importance of nonlinearities when discussing tissue mechanics.

cond-mat.soft↗

arXiv2020

Nonequilibrium polarity-induced mechanism for chemotaxis: emergent Galilean symmetry and exact scaling exponents

A generically observed mechanism that drives the self-organization of living systems is interaction via chemical signals among the individual elements -- which may represent cells, bacteria, or even enzymes. Here we propose a novel mechanism for such interactions, in the context of chemotaxis, which originates from the polarity of the particles and which generalizes the well-known Keller--Segel interaction term. We study the resulting large-scale dynamical properties of a system of such chemotactic particles using the exact stochastic formulation of Dean and Kawasaki along with dynamical renormalization group analysis of the critical state of the system. At this critical point, an emergent "Galilean" symmetry is identified, which allows us to obtain the dynamical scaling exponents exactly; these exponents reveal superdiffusive density fluctuations and non-Poissonian number fluctuations. We expect our results to shed light on how molecular regulation of chemotactic circuits can determine large-scale behavior of cell colonies and tissues.

cond-mat.stat-mech↗

arXiv2019

Fluid pumping and active flexoelectricity can promote lumen nucleation in cell assemblies

We discuss the physical mechanisms that promote or suppress the nucleation of a fluid-filled lumen inside a cell assembly or a tissue. We discuss lumen formation in a continuum theory of tissue material properties in which the tissue is described as a two-fluid system to account for its permeation by the interstitial fluid, and we include fluid pumping as well as active electric effects. Considering a spherical geometry and a polarized tissue, our work shows that fluid pumping and tissue flexoelectricity play a crucial role in lumen formation. We furthermore explore the large variety of long-time states that are accessible for the cell aggregate and its lumen. Our work reveals a role of the coupling of mechanical, electrical and hydraulic phenomena in tissue lumen formation.

physics.bio-ph↗

arXiv2017

Non-universality in the erosion of tilted landscapes

The anisotropic model for landscapes erosion proposed by Pastor-Satorras and Rothman in [R. Pastor-Satorras and D. H. Rothman, Phys. Rev. Lett. 80, 4349 (1998)] is believed to capture the physics of erosion at intermediate length scale ($\lesssim3$ km), and to account for the large value of the roughness exponent $α$ observed in real data at this scale. Our study of this model -- conducted using the nonperturbative renormalization group (NPRG) -- concludes on the nonuniversality of this exponent because of the existence of a line of fixed points. Thus the roughness exponent depends (weakly) on the details of the soil and the erosion mechanisms. We conjecture that this feature, while preserving the generic scaling observed in real data, could explain the wide spectrum of values of $α$ measured for natural landscapes.

cond-mat.stat-mech↗

arXiv2017

Frequency regulators for the nonperturbative renormalization group: A general study and the model A as a benchmark

We derive the necessary conditions for implementing a regulator that depends on both momentum and frequency in the nonperturbative renormalization group flow equations of out-of-equilibrium statistical systems. We consider model A as a benchmark and compute its dynamical critical exponent $z$. This allows us to show that frequency regulators compatible with causality and the fluctuation-dissipation theorem can be devised. We show that when the Principle of Minimal Sensitivity (PMS) is employed to optimize the critical exponents $η$, $ν$ and $z$, the use of frequency regulators becomes necessary to make the PMS a self-consistent criterion.

cond-mat.stat-mech↗

arXiv2012

Hysteresis, Phase Transitions and Dangerous Transients in Electrical Power Distribution Systems

The majority of dynamical studies in power systems focus on the high voltage transmission grids where models consider large generators interacting with crude aggregations of individual small loads. However, new phenomena have been observed indicating that the spatial distribution of collective, nonlinear contribution of these small loads in the low-voltage distribution grid is crucial to outcome of these dynamical transients. To elucidate the phenomenon, we study the dynamics of voltage and power flows in a spatially-extended distribution feeder (circuit) connecting many asynchronous induction motors and discover that this relatively simple 1+1 (space+time) dimensional system exhibits a plethora of nontrivial spatio-temporal effects, some of which may be dangerous for power system stability. Long-range motor-motor interactions mediated by circuit voltage and electrical power flows result in coexistence and segregation of spatially-extended phases defined by individual motor states--a "normal" state where the motors' mechanical (rotation) frequency is slightly smaller than the nominal frequency of the basic AC flows and a "stalled" state where the mechanical frequency is small. Transitions between the two states can be initiated by a perturbation of the voltage or base frequency at the head of the distribution feeder. Such behavior is typical of first-order phase transitions in physics, and this 1+1 dimensional model shows many other properties of a first-order phase transition with the spatial distribution of the motors' mechanical frequency playing the role of the order parameter. In particular we observe (a) propagation of the phase-transition front with the constant speed very long feeders; and (b) hysteresis in transitions between the normal and stalled (or partially stalled) phases.

physics.soc-ph↗