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Alexander Farutin

Publications and source records attributed to Alexander Farutin.

17 recordsLinked to original sources

Amoeboid cell migration and shape dynamics driven by actin polymerization

Cell migration is fundamental to development, tissue organization, immune response, and disease progression. Amoeboid motility is distinguished by rapid motion and strongly fluctuating cell shapes, reflecting the intrinsically nonlinear nature of active living matter far from equilibrium. Here we introduce a minimal active-shell model of an amoeboid cell that couples actin polymerization, cortical flows, and membrane deformation through nonlocal mechanical interactions. The model gives rise to a rich spectrum of emergent behaviors. A symmetric non-motile state can spontaneously break symmetry and transition toward persistent directed migration driven solely by polymerization-induced retrograde flow, even in the absence of shape deformation. Increasing activity further triggers a cascade of dynamical states, including circular trajectories, oscillatory zigzag motion, and irregular chaotic-like migration with fluctuating protrusions and multi-lobed morphologies. Although these migratory modes are observed experimentally in distinct cellular contexts, our results show that they can emerge from the same underlying physical mechanism, providing a unified framework for amoeboid dynamics. Notably, contractile stresses induced by molecular motors are not required to generate spontaneous motility, polarity, or complex migration patterns. Our findings highlight how collective active processes at the cellular scale can self-organize into complex dynamical states, revealing generic principles of nonlinear behavior in living systems.

cond-mat.soft

When Blood Parts Ways: Phase Separation in Microstructured Environments

Understanding how red blood cell (RBC) suspensions navigate porous materials is critical for for both fundamental physiology, such as maternal-fetal exchange in the placenta, and transformative biomedical applications, including rapid, low-cost disease diagnostics from a single drop of blood in resource-constrained settings. Here we elucidate how RBC movement through fibrous microporous structures is influenced by cell aggregation agents, emphasizing the impact of their clustering, membrane flexibility, and confinement. By varying the volume fraction of the RBC (hematocrit) and aggregation strength, we reveal a surprising phase separation: a dense RBC core surrounded by a cell-free layer, an effect not previously reported in whole blood studies. This separation is shown to be more pronounced with rigidified cells and persists even at high hematocrit levels, unlike in healthy samples. By connecting RBC deformability and aggregability to pore-mediated phase dynamics, our study provides a foundation for new diagnostic tools capable of classifying blood disorders or evaluating blood quality using only a sheet of structured paper, seamlessly integrating fundamental fluid mechanics with translational biomedical innovation in a previously unexplored manner.

cond-mat.soft

Contactless indentation of a soft boundary by a rigid particle in shear flow

The dynamics of a rigid particle above a fluid-fluid interface in shear flow is studied here numerically and analytically as a function of the downward force applied on the particle. It is found here that the particle goes below the equilibrium level of the interface for a strong enough downward force. Such states remain stable under flow, with a fluid film of a well-defined thickness separating the particle from the indented interface. This result contradicts the classical lubrication theory, which predicts an infinitely large downward force being necessary for the particle to approach the equilibrium level of the interface. It is found that the classical lubrication approximation is only valid in a narrow range of shear rates, which shrinks to a point when the particle approaches the equilibrium level of the interface. The gap renormalization model, proposed here, cures this limitation of the classical lubrication theory, showing quantitative agreement with the numerical results when the particle touches the equilibrium level of the interface. It is found that the gap renormalization model provides a quantitative interpretation of the recent experimental results, including the range of particle heights above the interface for which the classical lubrication approximation breaks down.

cond-mat.soft

Myosin-independent amoeboid cell motility

Mammalian cell polarization and motility are important processes involved in many physiological and pathological phenomena, such as embryonic development, wound healing, and cancer metastasis. The traditional view of mammalian cell motility suggests that molecular motors, adhesion, and cell deformation are all necessary components for mammalian cell movement. However, experiments on immune system cells have shown that the inhibition of molecular motors does not significantly affect cell motility. We present a new theory and simulations demonstrating that actin polymerization alone is sufficient to induce spontaneously cell polarity accompanied by the retrograde flow. These findings provide a new understanding of the fundamental mechanisms of cell movement and at the same time provide a simple mechanism for cell motility in diverse configurations, e.g. on an adherent substrate, in a non-adherent matrix, or in liquids.

cond-mat.soft

Towards a universal law for blood flow

Despite decades of research on blood flow, an analogue of Navier-Stokes equations that accurately describe blood flow properties has not been established yet. The reason behind this is that the properties of blood flow seem à priori non universal as they depend on various factors such as global concentration of red blood cells (RBCs) and channel width. Here, we have discovered a universal law when the stress and strain rate are measured at a given local RBCs concentration. However, the local concentration must be determined in order to close the problem. We propose a non-local diffusion equation of RBCs concentration that agrees with the full simulation. The universal law is exemplified for both shear and pressure driven flows. While the theory is restricted to a simplistic geometry (straight channel) it provides a fundamental basis for future research on blood flow dynamics and could lead to the development of a new theory that accurately describes blood flow properties under various conditions, such as in complex vascular networks.

physics.flu-dyn

A numerical framework for phoretic particles

We develop a numerical a framework to study phoretic particle dynamics in two dimensions. The particles are modeled as chemically active rigid circles, which can emit or absorb a solute into surrounding fluid. The interaction between particles and solute induces a slip flow on particle surfaces, and the solute is advected by the fluid flow and diffuses with a constant diffusivity. The fluid-structure interaction is resolved by a boundary integral method accelerated by Ewald-like decomposition. The sharp resolution of moving boundaries for solute kinetics is performed thanks to an overlapping mesh method. The framework is validated separately for the Stokes problem and the advection--diffusion problem, reaching relatively high order of accuracy. Moreover, we employ the framework to more general problems, including particles in nearly infinite domain and straight channels, and multiparticle motions.

cond-mat.soft

Singular Bifurcations : a Regularization Theory

Several nonlinear and nonequilibrium driven as well as active systems (e.g. microswimmers) show bifurcations from one state to another (for example a transition from a non motile to motile state for microswimmers) when some control parameter reaches a critical value. Bifurcation analysis relies either on a regular perturbative expansion close to the critical point, or on a direct numerical simulation. While many systems exhibit a regular bifurcation such as a pitchfork one, other systems undergo a singular bifurcation not falling in the classical nomenclature, in that the bifurcation normal form is not analytic. We present a swimmer model which offers an exact solution showing a singular normal form, and serves as a guide for the general theory. We provide an adequate general regularization theory that allows us to handle properly the limit of singular bifurcations, and provide several explicit examples of normal forms of singular bifurcations. This study fills a longstanding gap in bifurcations theory.

cond-mat.soft

Swirling and snaking, 3D oscillatory bifurcations of vesicle dynamics in microcirculation

Vesicles are soft elastic bodies with distinctive mechanical properties such as bending resistance, membrane fluidity, and their strong ability to deform, mimicking some properties of biological cells. While previous three-dimensional (3D) studies have identified stationary shapes such as slipper and axisymmetric ones, we report a complete phase diagram of 3D vesicle dynamics in a bounded Poiseuille flow with two more oscillatory dynamics, 3D snaking and swirling. 3D snaking is characterized by planar oscillatory motion of the mass center and shape deformations, which is unstable and leads to swirling or slipper. Swirling emerges from supercritical pitchfork bifurcation. The mass center moves along a helix, the preserved shape rolls on itself and spins around the flow direction. Swirling can coexist with slipper.

cond-mat.soft

Erythrocyte-erythrocyte aggregation dynamics under shear flow

Red blood cells (RBCs) -- erythrocytes -- suspended in plasma tend to aggregate and form rouleaux. During aggregation the first stage consists in the formation of RBC doublets [Blood cells, molecules, and diseases 25, 339 (1999)]. While aggregates are normally dissociated by moderate flow stresses, under some pathological conditions the aggregation becomes irreversible, which leads to high blood viscosity and vessel occlusion. We perform here two-dimensional simulations to study the doublet dynamics under shear flow in different conditions and its impact on rheology. We sum up our results on the dynamics of doublet in a rich phase diagram in the parameter space (flow strength, adhesion energy) showing four different types of doublet configurations and dynamics. We find that membrane tank-treading plays an important role in doublet disaggregation, in agreement with experiments on RBCs. A remarkable feature found here is that when a single cell performs tumbling (by increasing vesicle internal viscosity) the doublet formed due to adhesion (even very weak) remains stable even under a very strong shear rate. It is seen in this regime that an increase of shear rate induces an adaptation of the doublet conformation allowing the aggregate to resist cell-cell detachment. We show that the normalized effective viscosity of doublet suspension increases significantly with the adhesion energy, a fact which should affect blood perfusion in microcirculation.

physics.bio-ph

Crawling in a fluid

There is increasing evidence that mammalian cells not only crawl on substrates but can also swim in fluids. To elucidate the mechanisms of the onset of motility of cells in suspension, a model which couples actin and myosin kinetics to fluid flow is proposed and solved for a spherical shape. The swimming speed is extracted in terms of key parameters. We analytically find super- and subcritical bifurcations from a non-motile to a motile state and also spontaneous polarity oscillations that arise from a Hopf bifurcation. Relaxing the spherical assumption, the obtained shapes show appealing trends.

physics.bio-ph

Predicting optimal hematocrit in silico

Optimal hematocrit $H_o$ maximizes oxygen transport. In healthy humans, the average hematocrit $H$ is in the range of 40-45$\%$, but it can significantly change in blood pathologies such as severe anemia (low $H$) and polycythemia (high $H$). Whether the hematocrit level in humans corresponds to the optimal one is a long standing physiological question. Here, using numerical simulations with the Lattice Boltzmann method and two mechanical models of the red blood cell (RBC) we predict the optimal hematocrit, and explore how altering the mechanical properties of RBCs affects $H_o$. We develop a simplified analytical theory that accounts for results obtained from numerical simulations and provides insight into the physical mechanisms determining $H_o$. Our numerical and analytical models can easily be modified to incorporate a wide range of mechanical properties of RBCs as well as other soft particles thereby providing means for the rational design of blood substitutes. Our work lays the foundations for systematic theoretical study of the optimal hematocrit and its link with pathological RBCs associated with various diseases (e.g. sickle cell anemia, diabetes mellitus, malaria, elliptocytosis).

cond-mat.soft

Blood crystal: emergent order of red blood cells under wall-confined shear flow

Driven or active suspensions can display fascinating collective behavior, where coherent motions or structures arise on a scale much larger than that of the constituent particles. Here, we report experiments and numerical simulations revealing that red blood cells (RBCs) assemble into regular patterns in a confined shear flow. The order is of pure hydrodynamic and inertialess origin, and emerges from a subtle interplay between (i) hydrodynamic repulsion by the bounding walls which drives deformable cells towards the channel mid-plane and (ii) intercellular hydrodynamic interactions which can be attractive or repulsive depending on cell-cell separation. Various crystal-like structures arise depending on RBC concentration and confinement. Hardened RBCs in experiments and rigid particles in simulations remain disordered under the same conditions where deformable RBCs form regular patterns, highlighting the intimate link between particle deformability and the emergence of order. The difference in structuring ability of healthy (deformable) and diseased (stiff) RBCs creates a flow signature potentially exploitable for diagnosis of blood pathologies.

physics.flu-dyn

Hydrodynamic pairing of soft particles in a confined flow

The mechanism of hydrodynamics-induced pairing of soft particles, namely closed bilayer membranes (vesicles, a model system for red blood cells) and drops, is studied numerically with a special attention paid to the role of the confinement (the particles are within two rigid walls). This study unveils the complexity of the pairing mechanism due to hydrodynamic interactions. We find both for vesicles and for drops that two particles attract each other and form a stable pair at weak confinement if their initial separation is below a certain value. If the initial separation is beyond that distance, the particles repel each other and adopt a longer stable interdistance. This means that for the same confinement we have (at least) two stable branches. To which branch a pair of particles relaxes with time depends only on the initial configuration. An unstable branch is found between these two stable branches. At a critical confinement the stable branch corresponding to the shortest interdistance merges with the unstable branch in the form of a saddle-node bifurcation. At this critical confinement we have a finite jump from a solution corresponding to the continuation of the unbounded case to a solution which is induced by the presence of walls. The results are summarized in a phase diagram, which proves to be of a complex nature. The fact that both vesicles and drops have the same qualitative phase diagram points to the existence of a universal behavior, highlighting the fact that with regard to pairing the details of mechanical properties of the deformable particles are unimportant. This offers an interesting perspective for simple analytical modeling.

physics.flu-dyn

Viscoelastic transient of confined Red Blood Cells

The unique ability of a red blood cell to flow through extremely small microcapillaries depends on the viscoelastic properties of its membrane. Here, we study in vitro the response time upon flow startup exhibited by red blood cells confined into microchannels. We show that the characteristic transient time depends on the imposed flow strength, and that such a dependence gives access to both the effective viscosity and the elastic modulus controlling the temporal response of red cells. A simple theoretical analysis of our experimental data, validated by numerical simulations, further allows us to compute an estimate for the two-dimensional membrane viscosity of red blood cells, $η_{mem}^{2D}\sim 10^{-7}$ N$\cdot$s$\cdot$m$^{-1}$. By comparing our results with those from previous studies, we discuss and clarify the origin of the discrepancies found in the literature regarding the determination of $η_{mem}^{2D}$, and reconcile seemingly conflicting conclusions from previous works.

cond-mat.soft

Shape diagram of vesicles in Poiseuille flow

Soft bodies flowing in a channel often exhibit parachute-like shapes usually attributed to an increase of hydrodynamic constraint (viscous stress and/or confinement). We show that the presence of a fluid membrane leads to the reverse phenomenon and build a phase diagram of shapes --- which are classified as bullet, croissant and parachute --- in channels of varying aspect ratio. Unexpectedly, shapes are relatively wider in the narrowest direction of the channel. We highlight the role of flow patterns on the membrane in this response to the asymmetry of stress distribution.

cond-mat.soft

New analytical progress in the theory of vesicles under linear flow

Vesicles are becoming a quite popular model for the study of red blood cells (RBCs). This is a free boundary problem which is rather difficult to handle theoretically. Quantitative computational approaches constitute also a challenge. In addition, with numerical studies, it is not easy to scan within a reasonable time the whole parameter space. Therefore, having quantitative analytical results is an essential advance that provides deeper understanding of observed features and can be used to accompany and possibly guide further numerical development. In this paper shape evolution equations for a vesicle in a shear flow are derived analytically with precision being cubic (which is quadratic in previous theories) with regard to the deformation of the vesicle relative to a spherical shape. The phase diagram distinguishing regions of parameters where different types of motion (tank-treading, tumbling and vacillating-breathing) are manifested is presented. This theory reveals unsuspected features: including higher order terms and harmonics (even if they are not directly excited by the shear flow) is necessary, whatever the shape is close to a sphere. Not only does this theory cure a quite large quantitative discrepancy between previous theories and recent experiments and numerical studies, but also it reveals a new phenomenon: the VB mode band in parameter space, which is believed to saturate after a moderate shear rate, exhibits a striking widening beyond a critical shear rate. The widening results from excitation of fourth order harmonic. The obtained phase diagram is in a remarkably good agreement with recent three dimensional numerical simulations based on the boundary integral formulation. Comparison of our results with experiments is systematically made.

cond-mat.soft

Numerical study of 3D vesicles under flow: discovery of new peculiar behaviors

The study of vesicles under flow, a model system for red blood cells (RBCs), is an essential step in understanding various intricate dynamics exhibited by RBCs in vivo and in vitro. Quantitative 3D analyses of vesicles under flow are presented. The regions of parameters to produce tumbling (TB), tank-treating (TT), vacillating-breathing (VB) {and even Kayaking (K)} modes are determined. New qualitative features are found: (i) a significant widening of the VB mode region in parameter space upon increasing shear rate $\dotγ$ and (ii) a striking robustness of period of TB and VB with $\dotγ$. Analytical support is also provided. These findings shed new light on the dynamics of blood flow.

cond-mat.soft