Recent developments in lipid membrane models for simulations are reviewed. To reduce computational costs, various coarse-grained molecular models have been proposed. Among them, implicit solvent (solvent-free) molecular models are relatively more coarse-grained and efficient for simulating large bilayer membranes. On a $μ$m scale, the molecular details are typically negligible and the membrane can be described as a continuous curved surface. The theoretical models for fluid and elastic membranes with mesh or meshless discretizations are presented. As examples of applications, the dynamics of vesicles in flows, vesicle formation, and membrane fusion are presented.
The effect of membrane viscosity on the dynamics of vesicles in shear flow is studied. We present a new simulation technique, which combines three-dimensional multi-particle collision dynamics for the solvent with a dynamically-triangulated membrane model. Vesicles are found to transit from steady tank-treading to unsteady tumbling motion with increasing membrane viscosity. Depending on the reduced volume and membrane viscosity, shear can induce both discocyte-to-prolate and prolate-to-discocyte transformations. This dynamical behavior can be understood from a simplified model.
When the charge densities on the inner and outer surface of the vesicle membrane are similar one may assume that the potential at a point closer to the outer/inner surface is more affected by the charges located at the outer/inner surface of the vesicle membrane. However, because of the curvature of the vesicle and the screening effect of the electrolyte ions the situation is more complicated. When the charge densities at the inner and outer surface of the vesicle membrane are the same then at any finite distance Z from the center of the vesicle the contribution of the charges, located at the …
One of the most widely used methods for determination of the bending elasticity modulus of model lipid membranes is the analysis of the shape fluctuations of nearly spherical lipid vesicles. The theoretical basis of this analysis is given by Milner and Safran. In their theory the stretching effects are not considered. In the present study we generalized their approach including the stretching effects deduced after an application of statistical mechanics of vesicles.
Cells offer numerous inspiring examples where proteins and membranes combine to form complex structures that are key to intracellular compartmentalization, cargo transport, and specialization of cell morphology. Despite this wealth of examples, we still lack the design principles to control membrane morphology in synthetic systems. Here we show that even the relatively simple case of spherical nanoparticles binding to lipid-bilayer membrane vesicles results in a remarkably rich set of morphologies that can be controlled quantitatively via the particle binding energy. We find that when the bind…
Lipid nanotube-vesicle networks are important channels for intercellular communication and transport of matter. Experimentally observed in neighboring mammalian cells, but also reproduced in model membrane systems, a broad consensus exists on their formation and stability. Lipid membranes must be composed of at least two molecular components, each stabilizing low (generally a phospholipid) and high curvatures. Strong anisotropy or enhanced conical shape of the second amphiphile is crucial for the formation of nanotunnels. Anisotropic driving forces generally favor nanotube protrusions from ves…
Liposome vesicles tend to align with an applied magnetic field. This is due to the directional magnetic susceptibility difference of the lipids which form the membrane of these vesicles. In this work a model of liposome vesicles exposed to magnetic field is presented. Starting from the base energy of a lipid membrane in a magnetic field, the force applied to the surrounding fluids is derived. This force is then used to investigate the dynamics of vesicle in the presence of magnetic fields.
Heterogeneities in the cell membrane due to coexisting lipid phases have been conjectured to play a major functional role in cell signaling and membrane trafficking. Thereby the material properties of multiphase systems, such as the line tension and the bending moduli, are crucially involved in the kinetics and the asymptotic behavior of phase separation. In this Letter we present a combined analytical and experimental approach to determine the properties of phase-separated vesicle systems. First we develop an analytical model for the vesicle shape of weakly budded biphasic vesicles. Subsequen…
We report results concerning the destabilisation of supported phospholipid bilayers in a well-defined geometry. When heating up supported phospholipid membranes deposited on highly hydrophilic glass slides from room temperature (i.e. with lipids in the gel phase), unbinding was observed around the main gel to fluid transition temperature of the lipids. It lead to the formation of relatively monodisperse vesicles, of which most remained tethered to the supported bilayer. We interpret these observations in terms of a sharp decrease of the bending rigidity modulus $κ$ in the transition region, co…
Lipid membranes, the barrier defining living cells and many of their sub-compartments, bind to a wide variety of nano- and micro-meter sized objects. In the presence of strong adhesive forces, membranes can strongly deform and wrap the particles, an essential step in crossing the membrane for a variety of health and disease-related processes. A large body of theoretical and numerical work has focused on identifying the physical properties that underly wrapping. Using a model system of micron-sized colloidal particles and giant unilamellar lipid vesicles with tunable adhesive forces, we measure…
We study the Schloegl model in a vesicle with semi-permeable membrane. The diffusion constant takes a smaller value in the membrane region, which prevents the outflow of self-catalytic product. A nonequilibrium state is stably maintained inside of the vesicle. Nutrients are absorbed and waste materials are exhausted through the membrane by diffusion. It is interpreted as a model of primitive metabolism in a cell.
The entropy of a polymer confined in a curved surface and the elastic free energy of a membrane consisting of polymers are obtained by scaling analysis. It is found that the elastic free energy of the membrane has the form of the in-plane strain energy plus Helfrich's curvature energy [Z. Naturforsch. C \textbf{28}, 693 (1973)]. The elastic constants in the free energy are obtained by discussing two simplified models: one is the polymer membrane without in-plane strains and asymmetry between its two sides, which is the counterpart of quantum mechanics in curved surface [Jensen and Koppe, Ann. …
We grafted polyacrylic acid brushes containing cysteine side chains at a defined surface density on planar lipid membranes. Specular X-ray reflectivity data indicated that the addition of Cd2+ ions induces the compaction of the polymer brush layer and modulates the adhesion of lipid vesicles. The critical threshold level inducing the switch from non-wetting to partial wetting state, [Cd2+] = 0.25 mM, was determined by microinterferometry. The interactions between vesicles and brushes were evaluated by height fluctuations of the membrane in contact with brushes and the shape of vesicles near th…
We have used an original analysis of reflection interference contrast microscopy (RICM) to detect an ultra-weak specific interaction between a glycolipid vesicle and a lectin-coated substrate. The membrane height fluctuations in the contact zone are observed with a high illumination aperture; the membrane profile and the membrane-substrate distance are quantitatively determined using the new analysis, which accounts for multiple interfaces and multiple incidence rays. We showed that this refined version of RICM theory is necessary, specifically in the case of intermediate membranesubstrate dis…
Recent experiments by Kantsler et. al. (2007) have shown that the relaxational dynamics of a vesicle in external elongation flow is accompanied by the formation of wrinkles on a membrane. Motivated by these experiments we present a theory describing the dynamics of a wrinkled membrane. Formation of wrinkles is related to the dynamical instability induced by negative surface tension of the membrane. For quasi-spherical vesicles we perform analytical study of the wrinkle structure dynamics. We derive the expression for the instability threshold and identify three stages of the dynamics. The scal…
Conical inclusions in a lipid bilayer generate an overall spontaneous curvature of the membrane that depends on concentration and geometry of the inclusions. Examples are integral and attached membrane proteins, viruses, and lipid domains. We propose an analytical model to study budding and vesiculation of the lipid bilayer membrane, which is based on the membrane bending energy and the translational entropy of the inclusions. If the inclusions are placed on a membrane with similar curvature radius, their repulsive membrane-mediated interaction is screened. Therefore, for high inclusion densit…
On elastic spherical membranes, there is no stress induced by the bending energy and the corresponding Laplace-Young law does not involve the elastic bending stiffness. However, when considering an axially symmetrical perturbation that pinches the sphere, it induces nontrivial stresses on the entire membrane. In this paper we introduce a theoretical framework to examine the stress induced by perturbations of geometry around the sphere. We find the local balance force equations along the normal direction to the vesicle, and along the unit binormal, tangent to the membrane; likewise, the global …
The disk-to-vesicle transition of a fluid membrane with no spontaneous curvature is well described by the competition between edge line and curvature energies. However, the transition of asymmetric membranes with spontaneous curvatures is not yet understood. In this study, the shape of the fluid membrane patch with a constant spontaneous curvature and its closing transition to a vesicle is investigated using theory and meshless membrane simulations. It is confirmed that the (meta)stable and transient membranes are well approximated by spherical caps. The membrane Gaussian modulus can be estima…
In spite of the great success that all-atom molecular dynamics simulations have seen in revealing the nature of the lipid bilayer, the interplay between a membrane's curvature and dynamics remains elusive. This is largely due to the computational challenges involved in simulating a highly curved membrane, as the one found in a small vesicle. In the present work, thanks to the computing power of Anton2, we present the first all-atom molecular dynamics simulation of a full-scale, realistically composed (both heterogeneous and asymmetric) vesicle of a meaningful time scale (over 10 microseconds),…
Can the presence of molecular-tilt order significantly affect the shapes of lipid bilayer membranes, particularly membrane shapes with narrow necks? Motivated by the propensity for tilt order and the common occurrence of narrow necks in the intermediate stages of biological processes such as endocytosis and vesicle trafficking, we examine how tilt order inhibits the formation of necks in the equilibrium shapes of vesicles. For vesicles with a spherical topology, point defects in the molecular order with a total strength of $+2$ are required. We study axisymmetric shapes and suppose that there …
The shape transformations of fluid membranes induced by curved protein rods are studied using meshless membrane simulations. The rod assembly at low rod density induces a flat membrane tube and oblate vesicle. It is found that the polyhedral shapes are stabilized at high rod densities. The discrete shape transition between triangular and buckled discoidal tubes is obtained and their curvature energies are analyzed by a simple geometric model. For vesicles, triangular hosohedron and elliptic-disk shapes are formed in equilibrium, whereas tetrahedral and triangular prism shapes are obtained as m…
A numerical and systematic parameter study of three-dimensional vesicle electrohydrodynamics is presented to investigate the effects of different fluid and membrane properties. The dynamics of vesicles in the presence of DC electric fields is considered, both in the presence and absence of linear shear flow. For suspended vesicles it is shown that the conductivity ratio and viscosity ratio between the interior and exterior fluids, as well as the vesicle membrane capacitance, substantially affect the minimum electric field strength required to induce a full Prolate-Oblate-Prolate transition.In …
Translocation of a polymer out of curved surface or membrane is studied via mean first passage time approach. Membrane curvature gives rise to a constraint on polymer conformation, which effectively drives the polymer to the outside of membrane where the available volume of polymer conformational fluctuation is larger. Considering a polymer release out of spherical vesicle, polymer translocation time $τ$ is changed to the scaling behavior $τ\sim L^2$ for $R<R_G$, from $τ\sim L^3$ for $R\gg R_G$, where $L$ is the polymer contour length and $R$, $R_G$ are vesicle radius and polymer radius of gyr…
We investigate the morphology of a toroidal fluid membrane vesicle confined inside a spherical container. The equilibrium shapes are assembled in a geometrical phase diagram as a function of scaled area and reduced volume of the membrane. For small area the vesicle can adopt its free form. When increasing the area, the membrane cannot avoid contact and touches the confining sphere along a circular contact line, which extends to a zone of contact for higher area. The elastic energies of the equilibrium shapes are compared to those of their confined counterparts of spherical topology to predict …
Lipid vesicles are known to undergo complex conformational transitions, but it remains challenging to systematically characterize non-equilibrium membrane shape dynamics. Here, we report the direct observation of lipid vesicle relaxation from highly deformed shapes using a Stokes trap. Vesicle shape relaxation is described by two distinct characteristic time scales governed by the bending modulus and membrane tension. Interestingly, experimental results are consistent with a viscoelastic model of a deformed membrane. Overall, these results show that vesicle relaxation is governed by an interpl…
Narrow membrane tubes are commonly pulled out from the surface of phospholipid vesicles using forces applied either through laser or magnetic tweezers or through the action of processive motor proteins. Recent examples have emerged where such tubes spontaneously grow from vesicles coated with bioactive cytoskeletal filaments (e.g. FtsZ, microtubule) in the presence GTP. We show how a soft vesicle deforms due to the interplay between its topology, local curvature and the forces due to the active filaments. We present results from Dynamically Triangulated Monte Carlo simulations of a spherical c…
We investigated the effect of charge on the membrane morphology of giant unilamellar vesicles (GUVs) composed of various mixtures containing charged lipids. We observed the membrane morphologies by fluorescent and confocal laser microscopy in lipid mixtures consisting of a neutral unsaturated lipid [dioleoylphosphatidylcholine (DOPC)], a neutral saturated lipid [dipalmitoylphosphatidylcholine (DPPC)], a charged unsaturated lipid [dioleoylphosphatidylglycerol (DOPG$^{\scriptsize{(-)}}$)], a charged saturated lipid [dipalmitoylphosphatidylglycerol (DPPG$^{\scriptsize{(-)}}$)], and cholesterol (C…
Cellular membranes exhibit a large variety of shapes, strongly coupled to their function. Many biological processes involve dynamic reshaping of membranes, usually mediated by proteins. This interaction works both ways: while proteins influence the membrane shape, the membrane shape affects the interactions between the proteins. To study these membrane-mediated interactions on closed and anisotropically curved membranes, we use colloids adhered to ellipsoidal membrane vesicles as a model system. We find that two particles on a closed system always attract each other, and tend to align with the…
While the behavior of vesicles in thermodynamic equilibrium has been studied extensively, how active forces control vesicle shape transformations is not understood. Here, we combine theory and simulations to study the shape behavior of vesicles containing active Brownian particles. We show that the combination of active forces, dimensionality and membrane bending free energy creates a plethora of novel phase transitions. At low swim pressure, the vesicle exhibits a discontinuous transition from a spherical to a prolate shape, which has no counterpart in two dimensions. At high swim pressure it…
Speed-quality tradeoff in a physical model of molecular sorting
University of Graz（格拉茨大学）；Politecnico di Torino（都灵理工大学）；Istituto Nazionale di Fisica Nucleare (INFN)（意大利国家核物理研究所）；Université Paris-Saclay（巴黎萨克雷大学）；Italian Institute for Genomic Medicine (IIGM)（意大利基因组医学研究所）；Candiolo Cancer Institute IRCCS（坎迪奥洛癌症研究所）
Acetaminophen (APAP) or Paracetamol, despite its wide and common use for pain and fever symptoms, shows a variety of side effects, toxic effects, and overdose effects. The most common form of toxic effects of APAP is in the liver where phosphatidylcholine is the major component of the cell membrane with additional associated functionalities. Although this is the case, the effects of APAP on pure phospholipid membranes have been largely ignored. Here, we used DOPC, a commonly found phospholipid in mammalian cell membranes to synthesize large unilamellar vesicles to investigate how the incorpora…
We use a coarse-grained molecular dynamics simulation to investigate the interaction between neutral or charged nanoparticles (NPs) and a vesicle consisting of neutral and negatively charged lipids. We focus on the interaction strengths of hydrophilic and hydrophobic attraction and electrostatic interactions between a lipid molecule and an NP. A neutral NP passes through the lipid membrane when the hydrophobic interaction is sufficiently strong. As the valence of the positively charged NP increases, the membrane permeation speed of the NP is increased compared with the neutral NP and charged l…
This paper reviews the research work on the liquid crystalline (LC) polymer vesicles (polymersomes), where the thermotropic nematic and smectic phases are displayed in the lyotropic bilayer polymer membrane. LC polymersomes possess the properties of both liquid crystals and polymers, the two essential soft matters. LC polymersomes offer, on the one hand, novel examples of the interplay between orientational order and the curved geometry of a two dimensional membrane. Spherical, ellipsoidal and tetrahedral vesicles are discussed. On the other hand, LC polymersomes enable novel design of stimuli…
We analyze the non-equilibrium shape fluctuations of giant unilamellar vesicles encapsulating motile bacteria. Owing to bacteria--membrane collisions, we experimentally observe a significant increase in the magnitude of membrane fluctuations at low wave numbers, compared to the well-known thermal fluctuation spectrum. We interrogate these results by numerically simulating membrane height fluctuations via a modified Langevin equation, which includes bacteria--membrane contact forces. Taking advantage of the length and time scale separation of these contact forces and thermal noise, we further c…
The assembly of curved protein rods on fluid membranes is studied using implicit-solvent meshless membrane simulations. As the rod curvature increases, the rods on a membrane tube assemble along the azimuthal direction first and subsequently along the longitudinal direction. Here, we show that both transition curvatures decrease with increasing rod stiffness. For comparison, curvature-inducing isotropic inclusions are also simulated. When the isotropic inclusions have the same bending rigidity as the other membrane regions, the inclusions are uniformly distributed on the membrane tubes and ves…
Endocytosis is an essential biological process for the trafficking of macromolecules (cargo) and membrane proteins in cells. In yeast cells, this involves the invagination of a tubular structure on the membrane and the formation of endocytic vesicles. Bin/Amphiphysin/Rvs (BAR) proteins holding a crescent-shape are generally assumed to be the active player to squeeze the tubular structure and pinch off the vesicle by forming a scaffold on the side of the tubular membrane. Here we use the extended Helfrich model to theoretically investigate how BAR proteins help drive the formation of vesicles v…
The mechanical properties of biological membranes play an important role in the structure and the functioning of living organisms. One of the most widely used methods for determination of the bending elasticity modulus of the model lipid membranes (simplified models of the biomembranes with similar mechanical properties) is analysis of the shape fluctuations of the nearly spherical lipid vesicles. A theoretical basis of such an analysis is developed by Milner and Safran. In the present studies we analyze their results using an approach based on the Bogoljubov inequalities and the approximating…
The external electric field deforms flaccid phospholipid vesicles into spheroidal bodies, with the rotational axis aligned with its direction. Deformation is frequency dependent: in the low frequency range (~ 1 kHz), the deformation is typically prolate, while increasing the frequency to the 10 kHz range changes the deformation to oblate. We attempt to explain this behaviour with a theoretical model, based on the minimization of the total free energy of the vesicle. The energy terms taken into account include the membrane bending energy and the energy of the electric field. The latter is calcu…
The dynamics of a single fluid bilayer membrane in an external hydrodynamic flow field is considered. The deterministic equation of motion for the configuration is derived taking into account both viscous dissipation in the surrounding liquid and local incompressibility of the membrane. For quasi-spherical vesicles in shear flow, thermal fluctuations can be incorporated in a Langevin-type equation of motion for the deformation amplitudes. The solution to this equation shows an overdamped oscillatory approach to a stationary tanktreading shape. Inclination angle and ellipiticity of the contour …
Bilayer vesicles form readily from mixtures of charged and neutral surfactants. When such a mixed vesicle binds an oppositely-charged object, its membrane partially demixes: the adhesion zone recruits more charged surfactants from the rest of the membrane. Given an unlimited supply of adhering objects one might expect the vesicle to remain attractive until it was completely covered. Contrary to this expectation, we show that a vesicle can instead exhibit {\it adhesion saturation,} partitioning spontaneously into an attractive zone with definite area fraction, and a repulsive zone. The latter z…
Motivated by a long-standing debate concerning the nature and interrelations of surface-tension variables in fluid membranes, we reformulate the thermodynamics of a membrane vesicle as a generic two-dimensional finite system enclosing a three-dimensional volume. The formulation is shown to require two tension variables, conjugate to the intensive constraints of area per molecule and volume-to-area ratio. We obtain the relation between these two variables in various scenarios, as well as their correspondence to other definitions of tension variables for membranes. Several controversies related …
The morphology of spherically confined flexoelectric fluid membrane vesicles in an external uniform electric field is studied numerically. Due to the deformations induced by the confinement, the membrane becomes polarized resulting in an interaction with the external field. The equilibrium shapes of the vesicle without electric field can be classified in a geometrical phase diagram as a function of scaled area and reduced volume [1,2]. When the area of the membrane is only slightly larger than the area of the confining sphere, a single axisymmetric invagination appears. A non-vanishing electri…
We discuss thermal and active fluctuations of a compressible bilayer vesicle by using the results of hydrodynamic theory for vesicles. Coupled Langevin equations for the membrane deformation and the density fields are employed to calculate the power spectral density matrix of membrane fluctuations. Thermal contribution is obtained by means of the fluctuation dissipation theorem, whereas active contribution is calculated from exponentially decaying time correlation functions of active random forces. We obtain the total power spectral density as a sum of thermal and active contributions. An appa…
Lipid bilayer membranes have a native (albeit small) permeability for water molecules. Under an external load, provided that the bilayer structure stays intact and does not suffer from poration or rupture, a lipid membrane deforms and its water influx/efflux is often assumed negligible in the absence of osmolarity. In this work we use boundary integral simulations to investigate the effects of water permeability on the vesicle hydrodynamics due to a mechanical load, such as the viscous stress from an external flow deforming a vesicle membrane in free space or pushing it through a confinement. …
The viscosity of lipid bilayer membranes plays an important role in determining the diffusion constant of embedded proteins and the dynamics of membrane deformations, yet it has historically proven very difficult to measure. Here we introduce a new method based on quantification of the large-scale circulation patterns induced inside vesicles adhered to a solid surface and subjected to simple shear flow in a microfluidic device. Particle Image Velocimetry based on spinning disk confocal imaging of tracer particles inside and outside of the vesicle, and tracking of phase-separated membrane domai…
We study the effect of permeabilizing electric fields applied to two different types of giant unilamellar vesicles, the first formed from EggPC lipids and the second formed from DOPC lipids. Experiments on vesicles of both lipid types show a decrease in vesicle radius which is interpreted as being due to lipid loss during the permeabilization process. We show that the decrease in size can be qualitatively explained as a loss of lipid area which is proportional to the area of the vesicle which is permeabilized. Three possible mechanisms responsible for lipid loss were directly observed: pore fo…
Shape transformations of flat bilayer membranes and vesicles induced by hydrolysis and condensation reactions of amphiphilic molecules are studied using coarse-grained molecular dynamics simulations. The hydrolysis and condensation reactions result in the formation and dissociation of amphiphilic molecules, respectively. Asymmetric reactions between the inner and outer leaflets of a vesicle can transport amphiphilic molecules between the leaflets. It is found that the resulting area difference between the two leaflets induces bilayer sheet protrusion~(BP) and budding at low reduced volumes of …
