arXiv subjects

Marcel Mokbel

Publications and source records attributed to Marcel Mokbel.

4 recordsLinked to original sources

arXiv2023

A simulation method for the wetting dynamics of liquid droplets on deformable membranes

Biological cells utilize membranes and liquid-like droplets, known as biomolecular condensates, to structure their interior. The interaction of droplets and membranes, despite being involved in several key biological processes, is so far little understood. Here, we present a first numerical method to simulate the continuum dynamics of droplets interacting with deformable membranes via wetting. The method combines the advantages of the phase-field method for multi-phase flow simulation and the arbitrary Lagrangian-Eulerian (ALE) method for an explicit description of the elastic surface. The model is thermodynamically consistent, coupling bulk hydrodynamics with capillary forces, as well as bending, tension, and stretching of a thin membrane. The method is validated by comparing simulations for single droplets to theoretical results of shape equations, and its capabilities are illustrated in 2D and 3D axisymmetric scenarios.

cond-mat.soft↗

arXiv2021

Post-buckling Dynamics of Spherical Shells

We explore the intrinsic dynamics of spherical shells immersed in a fluid in the vicinity of their buckled state, through experiments and 3D axisymmetric simulations. The results are supported by a theoretical model that accurately describes the buckled shell as a two-variable-only oscillator. We quantify the effective "softening" of shells above the buckling threshold, as observed in recent experiments on interactions between encapsulated microbubbles and acoustic waves. The main dissipation mechanism in the neighboring fluid is also evidenced.

cond-mat.soft↗

arXiv2020

An ALE method for simulations of axisymmetric elastic surfaces in flow

The dynamics of membranes, shells and capsules in fluid flow has become an active research area in computational physics and computational biology. The small thickness of these elastic materials enables their efficient approximation as a hypersurface which exhibits an elastic response to in-plane stretching and out-of-plane bending, possibly accompanied by a surface tension force. In this work, we present a novel ALE method to simulate such elastic surfaces immersed in Navier-Stokes fluids. The method combines high accuracy with computational efficiency, since the grid is matched to the elastic surface and can therefore be resolved with relatively few grid points. The focus of this work is on axisymmetric shapes and flow conditions which are present in a wide range of biophysical problems. We formulate axisymmetric elastic surface forces and propose a discretization with surface finite-differences coupled to evolving finite elements. We further develop an implicit coupling strategy to reduce time step restrictions. We show in several numerical test cases that accurate results can be achieved at computational times on the order of minutes on a single core CPU. We demonstrate two state-of-the-art applications which to our knowledge cannot be simulated with any other numerical method so far: We present first simulations of the observed shape oscillations of novel microswimming shells and the uniaxial compression of the cortex of a biological cell during an AFM experiment.

physics.comp-ph↗

arXiv2019

The Poisson ratio of the cellular actin cortex is frequency-dependent

Cell shape changes are vital for many physiological processes such as cell proliferation, cell migration and morphogenesis. They emerge from an orchestrated interplay of active cellular force generation and passive cellular force response - both crucially influenced by the actin cytoskeleton. To model cellular force response and deformation, cell mechanical models commonly describe the actin cytoskeleton as a contractile isotropic incompressible material. However, in particular at slow frequencies, there is no compelling reason to assume incompressibility as the water content of the cytoskeleton may change. Here we challenge the assumption of incompressibility by comparing computer simulations of an isotropic actin cortex with tunable Poisson ratio to measured cellular force response. Comparing simulation results and experimental data, we determine the Poisson ratio of the cortex in a frequency-dependent manner. We find that the Poisson ratio of the cortex decreases with frequency likely due to actin cortex turnover leading to an over-proportional decrease of shear stiffness at larger time scales. We thus report a trend of the Poisson ratio similar to that of glassy materials, where the frequency-dependence of jamming leads to an analogous effect.

physics.bio-ph↗