1
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Azadbakht A, Weikl TR, Kraft DJ. Nonadditivity in Many-Body Interactions between Membrane-Deforming Spheres Increases Disorder. ACS NANO 2024; 18:23067-23076. [PMID: 39145618 PMCID: PMC11363220 DOI: 10.1021/acsnano.4c05222] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2024] [Revised: 08/01/2024] [Accepted: 08/05/2024] [Indexed: 08/16/2024]
Abstract
Membrane-induced interactions play an important role in organizing membrane proteins. Measurements of the interactions between two and three membrane deforming objects have revealed their nonadditive nature. They are thought to lead to complex many-body effects, however, experimental evidence is lacking. We here present an experimental method to measure many-body effects in membrane-mediated interactions using colloidal spheres placed between a deflated giant unilamellar vesicles and a planar substrate. The confined colloidal particles cause a large deformation of the membrane while not being physicochemically attached to it and interact through it. Two particles attract with a maximum force of 0.2 pN. For three particles, compact equilateral triangles were preferred over linear arrangements. We use numerical energy minimization to establish that the attraction stems from a reduction in the membrane-deformation energy caused by the particles. Confining up to 36 particles, we find a preference for hexagonally close packed clusters. However, with increasing number of particles the order of the confined particles decreases, at the same time, diffusivity of the particles increases. Our experiments show that the nonadditive nature of membrane-mediated interactions affects the interactions and arrangements and ultimately leads to spherical aggregates with liquid-like order of potential importance for cellular processes.
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Affiliation(s)
- Ali Azadbakht
- Soft
Matter Physics, Huygens-Kamerlingh Onnes Laboratory, Leiden University, PO Box 9504, 2300 RA Leiden, The Netherlands
| | - Thomas R. Weikl
- Department
of Biomolecular Systems, Max Planck Institute
of Colloids and Interfaces Am Mühlenberg 1, 14476 Potsdam, Germany
| | - Daniela J. Kraft
- Soft
Matter Physics, Huygens-Kamerlingh Onnes Laboratory, Leiden University, PO Box 9504, 2300 RA Leiden, The Netherlands
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2
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Redwan DA, Du K, Yong X. Probing wrapping dynamics of spherical nanoparticles by 3D vesicles using force-based simulations. SOFT MATTER 2024; 20:4548-4560. [PMID: 38502376 DOI: 10.1039/d3sm01600e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/21/2024]
Abstract
Nanoparticles present in various environments can interact with living organisms, potentially leading to deleterious effects. Understanding how these nanoparticles interact with cell membranes is crucial for rational assessment of their impact on diverse biological processes. While previous research has explored particle-membrane interactions, the dynamic processes of particle wrapping by fluid vesicles remain incompletely understood. In this study, we introduce a force-based, continuum-scale model utilizing triangulated mesh representation and discrete differential geometry to investigate particle-vesicle interaction dynamics. Our model captures the transformation of vesicle shape and nanoparticle wrapping by calculating the forces arising from membrane bending energy and particle adhesion energy. Inspired by cell phagocytosis of large particles, we focus on establishing a quantitative understanding of large-scale vesicle deformation induced by the interaction with particles of comparable sizes. We first examine the interactions between spherical vesicles and individual nanospheres, both externally and internally, and quantify energy landscapes across different wrapping fractions of the nanoparticles. Furthermore, we explore multiple particle interactions with biologically relevant fluid vesicles with nonspherical shapes. Our study reveals that initial particle positions and interaction sequences are critical in determining the final equilibrium shapes of the vesicle-particle complexes in these interactions. These findings emphasize the importance of nanoparticle positioning and wrapping fractions in the dynamics of particle-vesicle interactions, providing crucial insights for future research in the field.
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Affiliation(s)
- Didarul Ahasan Redwan
- Department of Mechanical Engineering, Binghamton University, Binghamton, New York 13902, USA.
| | - Ke Du
- Department of Chemical and Environmental Engineering, University of California Riverside, Riverside, California 92521, USA
| | - Xin Yong
- Department of Mechanical Engineering, Binghamton University, Binghamton, New York 13902, USA.
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3
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Sharma A, Zhu Y, Spangler EJ, Hoang TB, Laradji M. Highly Ordered Nanoassemblies of Janus Spherocylindrical Nanoparticles Adhering to Lipid Vesicles. ACS NANO 2024; 18:12957-12969. [PMID: 38720633 DOI: 10.1021/acsnano.4c01099] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2024]
Abstract
In recent years, there has been a heightened interest in the self-assembly of nanoparticles (NPs) that is mediated by their adsorption onto lipid membranes. The interplay between the adhesive energy of NPs on a lipid membrane and the membrane's curvature energy causes it to wrap around the NPs. This results in an interesting membrane curvature-mediated interaction, which can lead to the self-assembly of NPs on lipid membranes. Recent studies have demonstrated that Janus spherical NPs, which adhere to lipid vesicles, can self-assemble into well-ordered nanoclusters with various geometries, including a few Platonic solids. The present study explores the additional effect of geometric anisotropy on the self-assembly of Janus NPs on lipid vesicles. Specifically, the current study utilized extensive molecular dynamics simulations to investigate the arrangement of Janus spherocylindrical NPs on lipid vesicles. We found that the additional geometric anisotropy significantly expands the range of NPs' self-assemblies on lipid vesicles. The specific geometries of the resulting nanoclusters depend on several factors, including the number of Janus spherocylindrical NPs adhering to the vesicle and their aspect ratio. The lipid membrane-mediated self-assembly of NPs, demonstrated by this work, provides an alternative cost-effective route for fabricating highly engineered nanoclusters in three dimensions. Such structures, with the current wide range of material choices, have great potential for advanced applications, including biosensing, bioimaging, drug delivery, nanomechanics, and nanophotonics.
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Affiliation(s)
- Abash Sharma
- Department of Physics and Materials Science, The University of Memphis, Memphis, Tennessee 38152, United States
| | - Yu Zhu
- Department of Physics and Materials Science, The University of Memphis, Memphis, Tennessee 38152, United States
- Borch Department of Medicinal Chemistry and Molecular Pharmacology, Purdue University, West Lafayette, Indiana 47907, United States
| | - Eric J Spangler
- Department of Physics and Materials Science, The University of Memphis, Memphis, Tennessee 38152, United States
| | - Thang B Hoang
- Department of Physics and Materials Science, The University of Memphis, Memphis, Tennessee 38152, United States
| | - Mohamed Laradji
- Department of Physics and Materials Science, The University of Memphis, Memphis, Tennessee 38152, United States
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4
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Johnson DH, Kou OH, Bouzos N, Zeno WF. Protein-membrane interactions: sensing and generating curvature. Trends Biochem Sci 2024; 49:401-416. [PMID: 38508884 PMCID: PMC11069444 DOI: 10.1016/j.tibs.2024.02.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/23/2023] [Revised: 02/20/2024] [Accepted: 02/23/2024] [Indexed: 03/22/2024]
Abstract
Biological membranes are integral cellular structures that can be curved into various geometries. These curved structures are abundant in cells as they are essential for various physiological processes. However, curved membranes are inherently unstable, especially on nanometer length scales. To stabilize curved membranes, cells can utilize proteins that sense and generate membrane curvature. In this review, we summarize recent research that has advanced our understanding of interactions between proteins and curved membrane surfaces, as well as work that has expanded our ability to study curvature sensing and generation. Additionally, we look at specific examples of cellular processes that require membrane curvature, such as neurotransmission, clathrin-mediated endocytosis (CME), and organelle biogenesis.
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Affiliation(s)
- David H Johnson
- Mork Family Department of Chemical Engineering and Materials Science, University of Southern California, Los Angeles, CA 90089, USA
| | - Orianna H Kou
- Department of Physics and Astronomy, University of Southern California, Los Angeles, CA 90089, USA
| | - Nicoletta Bouzos
- Mork Family Department of Chemical Engineering and Materials Science, University of Southern California, Los Angeles, CA 90089, USA
| | - Wade F Zeno
- Mork Family Department of Chemical Engineering and Materials Science, University of Southern California, Los Angeles, CA 90089, USA.
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5
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van der Ham S, Agudo-Canalejo J, Vutukuri HR. Role of Shape in Particle-Lipid Membrane Interactions: From Surfing to Full Engulfment. ACS NANO 2024; 18:10407-10416. [PMID: 38513125 PMCID: PMC11025115 DOI: 10.1021/acsnano.3c11106] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2023] [Revised: 03/08/2024] [Accepted: 03/13/2024] [Indexed: 03/23/2024]
Abstract
Understanding and manipulating the interactions between foreign bodies and cell membranes during endo- and phagocytosis is of paramount importance, not only for the fate of living cells but also for numerous biomedical applications. This study aims to elucidate the role of variables such as anisotropic particle shape, curvature, orientation, membrane tension, and adhesive strength in this essential process using a minimal experimental biomimetic system comprising giant unilamellar vesicles and rod-like particles with different curvatures and aspect ratios. We find that the particle wrapping process is dictated by the balance between the elastic free energy penalty and adhesion free energy gain, leading to two distinct engulfment pathways, tip-first and side-first, emphasizing the significance of the particle orientation in determining the pathway. Moreover, our experimental results are consistent with theoretical predictions in a state diagram, showcasing how to control the wrapping pathway from surfing to partial to complete wrapping by the interplay between membrane tension and adhesive strength. At moderate particle concentrations, we observed the formation of rod clusters, which exhibited cooperative and sequential wrapping. Our study contributes to a comprehensive understanding of the mechanistic intricacies of endocytosis by highlighting how the interplay between the anisotropic particle shape, curvature, orientation, membrane tension, and adhesive strength can influence the engulfment pathway.
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Affiliation(s)
- Stijn van der Ham
- Active
Soft Matter and Bio-inspired Materials Lab, Faculty of Science and
Technology, MESA+ Institute, University
of Twente, 7500 AE Enschede, The Netherlands
| | - Jaime Agudo-Canalejo
- Department
of Living Matter Physics, Max Planck Institute
for Dynamics and Self-Organization, Göttingen, D-37077, Germany
- Department
of Physics and Astronomy, University College
London, London WC1E 6BT, United Kingdom
| | - Hanumantha Rao Vutukuri
- Active
Soft Matter and Bio-inspired Materials Lab, Faculty of Science and
Technology, MESA+ Institute, University
of Twente, 7500 AE Enschede, The Netherlands
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6
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Nambiar N, Loyd ZA, Abel SM. Particle Deformability Enables Control of Interactions between Membrane-Anchored Nanoparticles. J Chem Theory Comput 2024; 20:1732-1739. [PMID: 37844420 DOI: 10.1021/acs.jctc.3c00687] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2023]
Abstract
Nanoparticles adsorbed on a membrane can induce deformations of the membrane that give rise to effective interactions between the particles. Previous studies have focused primarily on rigid nanoparticles with fixed shapes. However, DNA origami technology has enabled the creation of deformable nanostructures with controllable shapes and mechanical properties, presenting new opportunities to modulate interactions between particles adsorbed on deformable surfaces. Here we use coarse-grained molecular dynamics simulations to investigate deformable, hinge-like nanostructures anchored to lipid membranes via cholesterol anchors. We characterize deformations of the particles and membrane as a function of the hinge stiffness. Flexible particles adopt open configurations to conform to a flat membrane, whereas stiffer particles induce deformations of the membrane. We further show that particles spontaneously aggregate and that cooperative effects lead to changes in their shape when they are close together. Using umbrella sampling methods, we quantify the effective interaction between two particles and show that stiffer hinge-like particles experience stronger and longer-ranged attraction. Our results demonstrate that interactions between deformable, membrane-anchored nanoparticles can be controlled by modifying mechanical properties of the particles, suggesting new ways to modulate the self-assembly of particles on deformable surfaces.
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Affiliation(s)
- Nikhil Nambiar
- Department of Chemical and Biomolecular Engineering, University of Tennessee, Knoxville, Tennessee 37996, United States
| | - Zachary A Loyd
- Department of Chemical and Biomolecular Engineering, University of Tennessee, Knoxville, Tennessee 37996, United States
| | - Steven M Abel
- Department of Chemical and Biomolecular Engineering, University of Tennessee, Knoxville, Tennessee 37996, United States
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7
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Azadbakht A, Meadowcroft B, Májek J, Šarić A, Kraft DJ. Nonadditivity in interactions between three membrane-wrapped colloidal spheres. Biophys J 2024; 123:307-316. [PMID: 38158654 PMCID: PMC10870171 DOI: 10.1016/j.bpj.2023.12.020] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2023] [Revised: 10/27/2023] [Accepted: 12/22/2023] [Indexed: 01/03/2024] Open
Abstract
Many cell functions require a concerted effort from multiple membrane proteins, for example, for signaling, cell division, and endocytosis. One contribution to their successful self-organization stems from the membrane deformations that these proteins induce. While the pairwise interaction potential of two membrane-deforming spheres has recently been measured, membrane-deformation-induced interactions have been predicted to be nonadditive, and hence their collective behavior cannot be deduced from this measurement. We here employ a colloidal model system consisting of adhesive spheres and giant unilamellar vesicles to test these predictions by measuring the interaction potential of the simplest case of three membrane-deforming, spherical particles. We quantify their interactions and arrangements and, for the first time, experimentally confirm and quantify the nonadditive nature of membrane-deformation-induced interactions. We furthermore conclude that there exist two favorable configurations on the membrane: (1) a linear and (2) a triangular arrangement of the three spheres. Using Monte Carlo simulations, we corroborate the experimentally observed energy minima and identify a lowering of the membrane deformation as the cause for the observed configurations. The high symmetry of the preferred arrangements for three particles suggests that arrangements of many membrane-deforming objects might follow simple rules.
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Affiliation(s)
- Ali Azadbakht
- Soft Matter Physics, Huygens-Kamerlingh Onnes Laboratory, Leiden University, Leiden, the Netherlands
| | - Billie Meadowcroft
- Institute of Science and Technology Austria, Klosterneuburg, Austria; Department of Physics and Astronomy, Institute for the Physics of Living Systems, University College London, London, United Kingdom
| | - Juraj Májek
- Institute of Science and Technology Austria, Klosterneuburg, Austria
| | - Anđela Šarić
- Institute of Science and Technology Austria, Klosterneuburg, Austria
| | - Daniela J Kraft
- Soft Matter Physics, Huygens-Kamerlingh Onnes Laboratory, Leiden University, Leiden, the Netherlands.
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8
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Zhu Y, Sharma A, Spangler EJ, Laradji M. Non-close-packed hexagonal self-assembly of Janus nanoparticles on planar membranes. SOFT MATTER 2023; 19:7591-7601. [PMID: 37755137 DOI: 10.1039/d3sm00984j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/28/2023]
Abstract
The adhesion modes of an ensemble of spherical Janus nanoparticles on planar membranes are investigated through large-scale molecular dynamics simulations of a coarse-grained implicit-solvent model. We found that the Janus nanoparticles adhering to planar membranes exhibit a rich phase behavior that depends on their adhesion energy density and areal number density. In particular, effective repulsive membrane-curvature-mediated interactions between the Janus nanoparticles lead to their self-assembly into an ordered hexagonal superlattice at intermediate densities and intermediate to high adhesion energy density, with a lattice constant determined by their areal density. The melting behavior of the hexagonal superlattice proceeds through a two-stage melting scenario in agreement with the Kosterlitz-Thouless-Halperin-Nelson-Young classical theory of two-dimensional melting.
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Affiliation(s)
- Yu Zhu
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
| | - Abash Sharma
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
| | - Eric J Spangler
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
| | - Mohamed Laradji
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
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9
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Lipowsky R, Ghosh R, Satarifard V, Sreekumari A, Zamaletdinov M, Różycki B, Miettinen M, Grafmüller A. Leaflet Tensions Control the Spatio-Temporal Remodeling of Lipid Bilayers and Nanovesicles. Biomolecules 2023; 13:926. [PMID: 37371505 DOI: 10.3390/biom13060926] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2023] [Revised: 05/24/2023] [Accepted: 05/26/2023] [Indexed: 06/29/2023] Open
Abstract
Biological and biomimetic membranes are based on lipid bilayers, which consist of two monolayers or leaflets. To avoid bilayer edges, which form when the hydrophobic core of such a bilayer is exposed to the surrounding aqueous solution, a single bilayer closes up into a unilamellar vesicle, thereby separating an interior from an exterior aqueous compartment. Synthetic nanovesicles with a size below 100 nanometers, traditionally called small unilamellar vesicles, have emerged as potent platforms for the delivery of drugs and vaccines. Cellular nanovesicles of a similar size are released from almost every type of living cell. The nanovesicle morphology has been studied by electron microscopy methods but these methods are limited to a single snapshot of each vesicle. Here, we review recent results of molecular dynamics simulations, by which one can monitor and elucidate the spatio-temporal remodeling of individual bilayers and nanovesicles. We emphasize the new concept of leaflet tensions, which control the bilayers' stability and instability, the transition rates of lipid flip-flops between the two leaflets, the shape transformations of nanovesicles, the engulfment and endocytosis of condensate droplets and rigid nanoparticles, as well as nanovesicle adhesion and fusion. To actually compute the leaflet tensions, one has to determine the bilayer's midsurface, which represents the average position of the interface between the two leaflets. Two particularly useful methods to determine this midsurface are based on the density profile of the hydrophobic lipid chains and on the molecular volumes.
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Affiliation(s)
- Reinhard Lipowsky
- Max Planck Institute of Colloids and Interfaces, Science Park Golm, 14424 Potsdam, Germany
| | - Rikhia Ghosh
- Max Planck Institute of Colloids and Interfaces, Science Park Golm, 14424 Potsdam, Germany
- Icahn School of Medicine Mount Sinai, New York, NY 10029, USA
| | - Vahid Satarifard
- Max Planck Institute of Colloids and Interfaces, Science Park Golm, 14424 Potsdam, Germany
- Yale Institute for Network Science, Yale University, New Haven, CT 06520, USA
| | - Aparna Sreekumari
- Max Planck Institute of Colloids and Interfaces, Science Park Golm, 14424 Potsdam, Germany
- Department of Physics, Indian Institute of Technology Palakkad, Palakkad 678 623, India
| | - Miftakh Zamaletdinov
- Max Planck Institute of Colloids and Interfaces, Science Park Golm, 14424 Potsdam, Germany
| | - Bartosz Różycki
- Max Planck Institute of Colloids and Interfaces, Science Park Golm, 14424 Potsdam, Germany
- Institute of Physics, Polish Academy of Sciences, Aleja Lotnikow 32/46, 02-668 Warsaw, Poland
| | - Markus Miettinen
- Max Planck Institute of Colloids and Interfaces, Science Park Golm, 14424 Potsdam, Germany
- Department of Chemistry, University of Bergen, 5020 Bergen, Norway
| | - Andrea Grafmüller
- Max Planck Institute of Colloids and Interfaces, Science Park Golm, 14424 Potsdam, Germany
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10
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Jung M, Jung G, Schmid F. Stability of Branched Tubular Membrane Structures. PHYSICAL REVIEW LETTERS 2023; 130:148401. [PMID: 37084449 DOI: 10.1103/physrevlett.130.148401] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2022] [Accepted: 02/15/2023] [Indexed: 05/03/2023]
Abstract
We study the energetics and stability of branched tubular membrane structures by computer simulations of a triangulated network model. We find that triple (Y) junctions can be created and stabilized by applying mechanical forces, if the angle between branches is 120°. The same holds for tetrahedral junctions with tetraeder angles. If the wrong angles are enforced, the branches coalesce to a linear structure, a pure tube. After releasing the mechanical force, Y-branched structures remain metastable if one constrains the enclosed volume and the average curvature (the area difference) to a fixed value; tetrahedral junctions however split up into two Y junctions. Somewhat counterintuitively, the energy cost of adding a Y branch is negative in structures with fixed surface area and tube diameter, even if one accounts for the positive contribution of the additional branch end. For fixed average curvature, however, adding a branch also enforces a thinning of tubes, therefore the overall curvature energy cost is positive. Possible implications for the stability of branched networks structures in cells are discussed.
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Affiliation(s)
- Maike Jung
- Institut für Physik, Johannes Gutenberg-Universität Mainz, Staudingerweg 9, 55128 Mainz, Germany
| | - Gerhard Jung
- Laboratoire Charles Coulomb (L2C), Université de Montpellier, CNRS, 34095 Montpellier, France
| | - Friederike Schmid
- Institut für Physik, Johannes Gutenberg-Universität Mainz, Staudingerweg 9, 55128 Mainz, Germany
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11
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Zhu Y, Sharma A, Spangler EJ, Carrillo JMY, Kumar PBS, Laradji M. Lipid vesicles induced ordered nanoassemblies of Janus nanoparticles. SOFT MATTER 2023; 19:2204-2213. [PMID: 36880601 DOI: 10.1039/d2sm01693a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
Since many advanced applications require specific assemblies of nanoparticles (NPs), considerable efforts have been made to fabricate nanoassemblies with specific geometries. Although nanoassemblies can be fabricated through top-down approaches, recent advances show that intricate nanoassemblies can also be obtained through self-assembly, mediated for example by DNA strands. Here, we show, through extensive molecular dynamics simulations, that highly ordered self-assemblies of NPs can be mediated by their adhesion to lipid vesicles (LVs). Specifically, Janus NPs are considered so that the amount by which they are wrapped by the LV is controlled. The specific geometry of the nanoassembly is the result of effective curvature-mediated repulsion between the NPs and the number of NPs adhering to the LV. The NPs are arranged on the LV into polyhedra which satisfy the upper limit of Euler's polyhedral formula, including several deltahedra and three Platonic solids, corresponding to the tetrahedron, octahedron, and icosahedron.
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Affiliation(s)
- Yu Zhu
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
| | - Abash Sharma
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
| | - Eric J Spangler
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
| | - Jan-Michael Y Carrillo
- Center for Nanophase Materials Sciences, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA
| | - P B Sunil Kumar
- Department of Physics, Indian Institute of Technology Madras, Chennai 600036, India
| | - Mohamed Laradji
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
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12
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Sharma A, Zhu Y, Spangler EJ, Carrillo JMY, Laradji M. Membrane-mediated dimerization of spherocylindrical nanoparticles. SOFT MATTER 2023; 19:1499-1512. [PMID: 36723357 DOI: 10.1039/d2sm01574a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/18/2023]
Abstract
We present a numerical investigation of the modes of adhesion and endocytosis of two spherocylindrical nanoparticles (SCNPs) on planar and tensionless lipid membranes, using systematic molecular dynamics simulations of an implicit-solvent model, with varying values of the SCNPs' adhesion strength and dimensions. We found that at weak values of the adhesion energy per unit of area, ξ, the SCNPs are monomeric and adhere to the membrane in the parallel mode. As ξ is slightly increased, the SCNPs dimerize into wedged dimers, with an obtuse angle between their major axes that decreases with increasing ξ. However, as ξ is further increased, we found that the final adhesion state of the two SCNPs is strongly affected by the initial distance, d0, between their centers of mass, upon their adhesion. Namely, the SCNPs dimerize into wedged dimers, with an acute angle between their major axes, if d0 is relatively small. However, for relatively high d0, they adhere individually to the membrane in the monomeric normal mode. For even higher values of ξ and small values of d0, the SCNPs cluster into tubular dimers. However, they remain monomeric if d0 is high. Finally, the SCNPs endocytose either as a tubular dimer, if d0 is low or as monomers for large d0, with the onset value of ξ of dimeric endocytosis being lower than that of monomeric endocytosis. Dimeric endocytosis requires that the SCNPs adhere simultaneously at nearby locations.
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Affiliation(s)
- Abash Sharma
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
| | - Yu Zhu
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
| | - Eric J Spangler
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
| | - Jan-Michael Y Carrillo
- Center for Nanophase Materials Sciences, Oak Ridge National Laboratory, Oak Ridge, TN 37831, USA
| | - Mohamed Laradji
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
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13
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Midya J, Auth T, Gompper G. Membrane-Mediated Interactions Between Nonspherical Elastic Particles. ACS NANO 2023; 17:1935-1945. [PMID: 36669092 PMCID: PMC9933614 DOI: 10.1021/acsnano.2c05801] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/13/2022] [Accepted: 01/06/2023] [Indexed: 06/17/2023]
Abstract
The transport of particles across lipid-bilayer membranes is important for biological cells to exchange information and material with their environment. Large particles often get wrapped by membranes, a process which has been intensively investigated in the case of hard particles. However, many particles in vivo and in vitro are deformable, e.g., vesicles, filamentous viruses, macromolecular condensates, polymer-grafted nanoparticles, and microgels. Vesicles may serve as a generic model system for deformable particles. Here, we study nonspherical vesicles with various sizes, shapes, and elastic properties at initially planar lipid-bilayer membranes. Using the Helfrich Hamiltonian, triangulated membranes, and energy minimization, we predict the interplay of vesicle shapes and wrapping states. Increasing particle softness enhances the stability of shallow-wrapped and deep-wrapped states over nonwrapped and complete-wrapped states. The free membrane mediates an interaction between partial-wrapped vesicles. For the pair interaction between deep-wrapped vesicles, we predict repulsion. For shallow-wrapped vesicles, we predict attraction for tip-to-tip orientation and repulsion for side-by-side orientation. Our predictions may guide the design and fabrication of deformable particles for efficient use in medical applications, such as targeted drug delivery.
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Affiliation(s)
- Jiarul Midya
- Theoretical Physics of Living Matter,
Institute for Biological Information Processing and Institute for
Advanced Simulation, Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Thorsten Auth
- Theoretical Physics of Living Matter,
Institute for Biological Information Processing and Institute for
Advanced Simulation, Forschungszentrum Jülich, 52425 Jülich, Germany
| | - Gerhard Gompper
- Theoretical Physics of Living Matter,
Institute for Biological Information Processing and Institute for
Advanced Simulation, Forschungszentrum Jülich, 52425 Jülich, Germany
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14
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Kumar G, Duggisetty SC, Srivastava A. A Review of Mechanics-Based Mesoscopic Membrane Remodeling Methods: Capturing Both the Physics and the Chemical Diversity. J Membr Biol 2022; 255:757-777. [PMID: 36197492 DOI: 10.1007/s00232-022-00268-4] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2022] [Accepted: 08/29/2022] [Indexed: 12/24/2022]
Abstract
Specialized classes of proteins, working together in a tightly orchestrated manner, induce and maintain highly curved cellular and organelles membrane morphology. Due to the various experimental constraints, including the resolution limits of imaging techniques, it is non-trivial to accurately elucidate interactions among the various components involved in membrane deformation. The spatial and temporal scales of the systems also make it formidable to investigate them using simulations with molecular details. Interestingly, mechanics-based mesoscopic models have been used with great success in recapitulating the membrane deformations observed in experiments. In this review, we collate together and discuss the various mechanics-based mesoscopic models for protein-mediated membrane deformation studies. In particular, we provide an elaborate description of a mesoscopic model where the membrane is modeled as a triangulated sheet and proteins are represented as either nematics or filaments. This representation allows us to explore the various aspects of protein-protein and protein-membrane interactions as well as examine the underlying mechanistic pathways for emergent behavior such as curvature-mediated protein localization and membrane deformation. We also put forward current efforts in the field towards back-mapping these mesoscopic models to finer-grained particle-based models-a framework that could be used to explore how molecular interactions propagate to physical scales and vice-versa. We end the review with an integrative-modeling-based road map where experimental imaging micrograph and biochemical data are combined with mesoscopic and molecular simulations methods in a theoretically consistent manner to faithfully recapitulate the multiple length and time scales in the membrane remodeling processes.
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Affiliation(s)
- Gaurav Kumar
- Molecular Biophysics Unit, Indian Institute of Science Bangalore, C. V. Raman Road, Bangalore, Karnataka, 560012, India
| | - Satya Chaithanya Duggisetty
- Molecular Biophysics Unit, Indian Institute of Science Bangalore, C. V. Raman Road, Bangalore, Karnataka, 560012, India
| | - Anand Srivastava
- Molecular Biophysics Unit, Indian Institute of Science Bangalore, C. V. Raman Road, Bangalore, Karnataka, 560012, India.
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15
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Chelladurai R, Debnath K, Jana NR, Basu JK. Spontaneous formation and growth kinetics of lipid nanotubules induced by passive nanoparticles. SOFT MATTER 2022; 18:7082-7090. [PMID: 36043324 DOI: 10.1039/d2sm00900e] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Lipid nanotubules (LNTs) are conduits that form on the membranes of cells and organelles, and they are ubiquitous in all forms of life from archaea and bacteria to plants and mammals. The formation, shape and dynamics of these LNTs are critical for cellular functions, supporting the transport of myriad cellular cargoes as well as communication within and between cells, and they are also widely believed to be responsible for exploitation of host cells by pathogens for the spread of infection and diseases. In vitro kinetic control of LNT formation can considerably enhance the scope of utilization of these structures for disease control and therapy. Here we report a new paradigm for spontaneous lipid nanotubulation, capturing the dynamical regimes of growth, stabilization and retraction of the tubes through the binding of synthetic nanoparticles on supported lipid bilayers (SLBs). The tubulation is determined by the spontaneous binding-unbinding of nanoparticles on the LNTs. The presented methodology could be used to rectify malfunctioning cellular tubules or to prevent the pathogenic spread of diseases through inhibition of cell-to-cell nanotubule formation.
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Affiliation(s)
| | - Koushik Debnath
- Indian Association for the Cultivation of Science, Kolkata, India
| | - Nikhil R Jana
- Indian Association for the Cultivation of Science, Kolkata, India
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16
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Kumar G, Srivastava A. Membrane Remodeling Due to a Mixture of Multiple Types of Curvature Proteins. J Chem Theory Comput 2022; 18:5659-5671. [PMID: 35981766 DOI: 10.1021/acs.jctc.2c00126] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We present an extension of the Monte Carlo based mesoscopic membrane model, where the membrane is represented as a dynamically triangulated surface and the proteins are modeled as anisotropic inclusions formulated as in-plane nematic field variables adhering to the deformable elastic sheet. In the extended model, we have augmented the Hamiltonian to study membrane deformation due to a mixture of multiple types of curvature generating proteins. This feature opens the door for understanding how multiple kinds of curvature-generating proteins may be working in a coordinated manner to induce desired membrane morphologies. For example, among other things, we study membrane deformations and tubulation due to a mixture of positive and negative curvature proteins as mimics of various proteins from BAR domain family. We also study the effect of membrane anisotropy that manifests as differential binding affinity and organization of curvature proteins, leading to insights into the tightly regulated cargo sorting and transport processes. Our simulation results show different morphology of deformed vesicles that depend on membrane tension, the curvatures and number of the participating proteins as well as on protein-protein and membrane-protein interactions.
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Affiliation(s)
- Gaurav Kumar
- Molecular Biophysics Unit (MBU), Indian Institute of Science (IISc)-Bangalore, C. V. Raman Road, Bangalore, KA 560012, India
| | - Anand Srivastava
- Molecular Biophysics Unit (MBU), Indian Institute of Science (IISc)-Bangalore, C. V. Raman Road, Bangalore, KA 560012, India
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17
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Zhu Y, Sharma A, Spangler EJ, Laradji M. Modes of adhesion of two Janus nanoparticles on the outer or inner side of lipid vesicles. SOFT MATTER 2022; 18:4689-4698. [PMID: 35702934 DOI: 10.1039/d2sm00306f] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Using molecular dynamics simulations of a coarse-grained model, in conjunction with the weighted histogram analysis method, the adhesion modes of two spherical Janus nanoparticles (NPs) on the outer or inner side of lipid vesicles are explored. In particular, the effects of the area fraction, J, of the NPs that interact attractively with lipid head groups, the adhesion strength and the size of the NPs on their adhesion modes are investigated. The NPs are found to exhibit two main modes of adhesion when adhered to the outer side of the vesicle. In the first mode, which occurs at relatively low values of J, the NPs are apart from each other. In the second mode, which occurs at higher values of J, the NPs form an in-plane dimer. Janus NPs, which adhere to the inner side of the vesicle, are always found to be apart from each other, regardless of the value of J and their diameter.
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Affiliation(s)
- Yu Zhu
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
| | - Abash Sharma
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
| | - Eric J Spangler
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
| | - Mohamed Laradji
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
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18
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Wei Y, Chen H, Li YX, He K, Yang K, Pang HB. Synergistic Entry of Individual Nanoparticles into Mammalian Cells Driven by Free Energy Decline and Regulated by Their Sizes. ACS NANO 2022; 16:5885-5897. [PMID: 35302738 DOI: 10.1021/acsnano.1c11068] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Cell entry is one of the common prerequisites for nanomaterial applications. Despite extensive studies on a homogeneous group of nanoparticles (NPs), fewer studies have been performed when two or more types of NPs were coadministrated. We previously described a synergistic cell entry process for two heterogeneous groups of NPs, where NPs functionalized with TAT (transactivator of transcription) peptide (T-NPs) stimulate the cellular uptake of coadministered unfunctionalized NPs (bystander NPs, B-NPs). Here, we show that the synergistic cell entry of NPs is driven by free energy decline and depends on B-NP sizes. Simulations showed that when separately placed initially, two NPs first move toward each other instead of initiating cell entry individually. Only T-NP invokes an inward bending of membrane mimicking endocytosis, which attracts the nearby NPs into the same "vesicle". A two-phase free energy decline of the entire system occurred as two NPs get closer until contact, which is likely the thermodynamic driver for synergistic NP coentry. Experimentally, we found that T-NPs increase the apparent affinity of B-NPs to plasma membrane, suggesting that T-NPs help B-NPs "trapped" in the endocytic vesicles. Next, we varied the sizes of B-NPs and found that bystander activity peaks around 50 nm. Simulations also showed that the size of B-NPs influences the free energy decline, and thus the tendency and dynamics of NP coentry. These efforts provide a system to further understand the synergistic cell entry among individual NPs or multiple NP types on a biophysical basis and shed light on the future design of nanostructures for intracellular delivery.
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Affiliation(s)
- Yushuang Wei
- Department of Pharmaceutics, University of Minnesota, Minneapolis, Minnesota 55455, United States
| | - Haibo Chen
- Center for Soft Condensed Matter Physics and Interdisciplinary Research & School of Physical Science and Technology, Soochow University, Suzhou 215006, China
| | - Yue-Xuan Li
- Department of Pharmaceutics, University of Minnesota, Minneapolis, Minnesota 55455, United States
| | - Kejie He
- Center for Soft Condensed Matter Physics and Interdisciplinary Research & School of Physical Science and Technology, Soochow University, Suzhou 215006, China
| | - Kai Yang
- Center for Soft Condensed Matter Physics and Interdisciplinary Research & School of Physical Science and Technology, Soochow University, Suzhou 215006, China
| | - Hong-Bo Pang
- Department of Pharmaceutics, University of Minnesota, Minneapolis, Minnesota 55455, United States
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19
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Li B, Abel SM. Membrane-mediated interactions between hinge-like particles. SOFT MATTER 2022; 18:2742-2749. [PMID: 35311882 DOI: 10.1039/d2sm00094f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Adsorption of nanoparticles on a membrane can give rise to interactions between particles, mediated by membrane deformations, that play an important role in self-assembly and membrane remodeling. Previous theoretical and experimental research has focused on nanoparticles with fixed shapes, such as spherical, rod-like, and curved nanoparticles. Recently, hinge-like DNA origami nanostructures have been designed with tunable mechanical properties. Inspired by this, we investigate the equilibrium properties of hinge-like particles adsorbed on an elastic membrane using Monte Carlo and umbrella sampling simulations. The configurations of an isolated particle are influenced by competition between bending energies of the membrane and the particle, which can be controlled by changing adsorption strength and hinge stiffness. When two adsorbed particles interact, they effectively repel one another when the strength of adhesion to the membrane is weak. However, a strong adhesive interaction induces an effective attraction between the particles, which drives their aggregation. The configurations of the aggregate can be tuned by adjusting the hinge stiffness: tip-to-tip aggregation occurs for flexible hinges, whereas tip-to-middle aggregation also occurs for stiffer hinges. Our results highlight the potential for using the mechanical features of deformable nanoparticles to influence their self-assembly when the particles and membrane mutually influence one another.
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Affiliation(s)
- Bing Li
- Institut für Physik, Johannes Gutenberg-Universität Mainz, 55099 Mainz, Germany
| | - Steven M Abel
- Department of Chemical and Biomolecular Engineering, University of Tennessee, Knoxville, Tennessee, 37996, USA.
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20
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Ewins EJ, Han K, Bharti B, Robinson T, Velev OD, Dimova R. Controlled adhesion, membrane pinning and vesicle transport by Janus particles. Chem Commun (Camb) 2022; 58:3055-3058. [PMID: 35166272 DOI: 10.1039/d1cc07026f] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
The interactions between biomembranes and particles are key to many applications, but the lack of controllable model systems to study them limits the progress in their research. Here, we describe how Janus polystyrene microparticles, half coated with iron, can be partially engulfed by artificial cells, namely giant vesicles, with the goals to control and investigate their adhesion and degree of encapsulation. The interaction between the Janus particles and these model cell membrane systems is mediated by electrostatic charge, offering a further mode of modulation in addition to the iron patches. The ferromagnetic particle coatings also enable manipulation and transport of the vesicles by magnetic fields.
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Affiliation(s)
- Eleanor J Ewins
- Max Planck Institute of Colloids and Interfaces, 14476 Potsdam, Germany.
| | - Koohee Han
- Department of Chemical and Biomolecular Engineering, North Carolina State University, Raleigh, NC, 27695, USA
| | - Bhuvnesh Bharti
- Department of Chemical and Biomolecular Engineering, North Carolina State University, Raleigh, NC, 27695, USA
| | - Tom Robinson
- Max Planck Institute of Colloids and Interfaces, 14476 Potsdam, Germany.
| | - Orlin D Velev
- Department of Chemical and Biomolecular Engineering, North Carolina State University, Raleigh, NC, 27695, USA
| | - Rumiana Dimova
- Max Planck Institute of Colloids and Interfaces, 14476 Potsdam, Germany.
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21
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Gao J, Hou R, Li L, Hu J. Membrane-Mediated Interactions Between Protein Inclusions. Front Mol Biosci 2021; 8:811711. [PMID: 35004858 PMCID: PMC8727768 DOI: 10.3389/fmolb.2021.811711] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2021] [Accepted: 11/30/2021] [Indexed: 11/13/2022] Open
Abstract
Integral or peripheral membrane proteins, or protein oligomers often get close to each other on cell membranes and carry out biological tasks in a collective manner. In addition to electrostatic and van der Waals interactions, those proteins also experience membrane-mediated interactions, which may be necessary for their functionality. The membrane-mediated interactions originate from perturbation of lipid membranes by the presence of protein inclusions, and have been the subject of intensive research in membrane biophysics. Here we review both theoretical and numerical studies of such interactions for membrane proteins and for nanoparticles bound to lipid membranes.
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Affiliation(s)
- Jie Gao
- Kuang Yaming Honors School, Nanjing University, Nanjing, China
| | - Ruihan Hou
- Kuang Yaming Honors School, Nanjing University, Nanjing, China
| | - Long Li
- State Key Laboratory of Nonlinear Mechanics (LNM) and Beijing Key Laboratory of Engineered Construction and Mechanobiology, Institute of Mechanics, Chinese Academy of Sciences, Beijing, China
| | - Jinglei Hu
- Kuang Yaming Honors School, Nanjing University, Nanjing, China
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22
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Chen T, Zhang Y, Li X, Li C, Lu T, Xiao S, Liang H. Curvature-Mediated Pair Interactions of Soft Nanoparticles Adhered to a Cell Membrane. J Chem Theory Comput 2021; 17:7850-7861. [PMID: 34865469 DOI: 10.1021/acs.jctc.1c00897] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Abstract
The curvature-mediated interactions by cell membranes are crucial in many biological processes. We systematically studied the curvature-mediated wrapping of soft nanoparticles (NPs) by a tensionless membrane and the underlying pair interactions between NPs in determining it. We found that there are three types of wrapping pathways, namely, independence, cooperation, and tubulation. The particle size, adhesion strength, and softness are found to be strongly related with the wrapping mechanism. Reducing the adhesion strength transforms the wrapping pathway from cooperation to independence, while enhancing the NP softness requires a stronger adhesion to achieve the cooperative wrapping. This transformation of the wrapping pathway is controlled by the curvature-mediated interactions between NPs. For either soft or rigid NPs, the pair interactions are repulsive at short-ranged distances between NPs, while at long-ranged distances, a larger adhesion between NPs and a membrane is needed to generate attraction between NPs. Moreover, an enhancement of NP softness weakens the repulsion between NPs. These distinct behaviors of soft NPs are ascribed to the gentler deformation of the membrane at the face-to-face region between NPs due to the flattening and spreading of soft NPs along the membrane, requiring a reduced energy cost for soft NPs to approach each other. Our results provide a mechanistic understanding in detail about the membrane-mediated interactions between NPs and their interactions with cell membranes, which is helpful to understand the curvature-mediated assemblies of adhesive proteins or NPs on membranes, and offer novel possibilities for designing an effective NP-based vehicle for controlled drug delivery.
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Affiliation(s)
- Tongwei Chen
- Department of Polymer Science and Engineering, CAS Key Laboratory of Soft Matter Chemistry, iChEM (Collaborative Innovation Center of Chemistry for Energy Materials), University of Science and Technology of China, Hefei, Anhui 230026, P. R. China
| | - Yunhan Zhang
- Department of Polymer Science and Engineering, CAS Key Laboratory of Soft Matter Chemistry, iChEM (Collaborative Innovation Center of Chemistry for Energy Materials), University of Science and Technology of China, Hefei, Anhui 230026, P. R. China
| | - Xuejin Li
- Department of Engineering Mechanics and Center for X-Mechanics, Zhejiang University, Hangzhou 310027, P. R. China
| | - Chengxu Li
- Department of Polymer Science and Engineering, CAS Key Laboratory of Soft Matter Chemistry, iChEM (Collaborative Innovation Center of Chemistry for Energy Materials), University of Science and Technology of China, Hefei, Anhui 230026, P. R. China
| | - Teng Lu
- Computer Network Information Center of the Chinese Academy of Sciences, Beijing 100083, P. R. China
| | - Shiyan Xiao
- Department of Polymer Science and Engineering, CAS Key Laboratory of Soft Matter Chemistry, iChEM (Collaborative Innovation Center of Chemistry for Energy Materials), University of Science and Technology of China, Hefei, Anhui 230026, P. R. China.,Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, P. R. China
| | - Haojun Liang
- Department of Polymer Science and Engineering, CAS Key Laboratory of Soft Matter Chemistry, iChEM (Collaborative Innovation Center of Chemistry for Energy Materials), University of Science and Technology of China, Hefei, Anhui 230026, P. R. China.,Hefei National Laboratory for Physical Sciences at the Microscale, University of Science and Technology of China, Hefei, Anhui 230026, P. R. China
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23
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Kumar A, Choudhary A, Kaur H, Mehta S, Husen A. Metal-based nanoparticles, sensors, and their multifaceted application in food packaging. J Nanobiotechnology 2021; 19:256. [PMID: 34446005 PMCID: PMC8393480 DOI: 10.1186/s12951-021-00996-0] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2021] [Accepted: 08/13/2021] [Indexed: 02/04/2023] Open
Abstract
Due to the global rise of the human population, one of the top-most challenges for poor and developing nations is to use the food produces safely and sustainably. In this regard, the storage of surplus food (and derived products) without loss of freshness, nutrient stability, shelf life, and their parallel efficient utilization will surely boost the food production sector. One of the best technologies that have emerged within the last twenty years with applications in the packaging of food and industrial materials is the use of green mode-based synthesized nanoparticles (NPs). These NPs are stable, advantageous as well as eco-friendly. Over the several years, numerous publications have confirmed that these NPs exert antibacterial, antioxidant, and antifungal activity against a plethora of pathogens. The storage in metal-based NPs (M-NPs) does not hamper the food properties and packaging efficiency. Additionally, these M-NPs help in the improvement of properties including freshness indicators, mechanical properties, antibacterial and water vapor permeability during food packaging. As a result, the nano-technological application facilitates a simple, alternate, interactive as well as reliable technology. It even provides positive feedback to food industries and packaging markets. Taken together, the current review paper is an attempt to highlight the M-NPs for prominent applications of antimicrobial properties, nanosensors, and food packaging of food items. Additionally, some comparative reports associated with M-NPs mechanism of action, risks, toxicity, and overall future perspectives have also been made.
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Affiliation(s)
- Antul Kumar
- Department of Botany, Punjab Agricultural University, Ludhiana, 141004 India
| | - Anuj Choudhary
- Department of Botany, Punjab Agricultural University, Ludhiana, 141004 India
| | - Harmanjot Kaur
- Department of Botany, Punjab Agricultural University, Ludhiana, 141004 India
| | - Sahil Mehta
- International Centre for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, New Delhi, 110067 India
| | - Azamal Husen
- Wolaita Sodo University, P.O. Box: 138, Wolaita, Ethiopia
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24
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Cao R, Gao J, Thayumanavan S, Dinsmore AD. Triggered interactions between nanoparticles and lipid membranes: design principles for gel formation or disruption-and-release. SOFT MATTER 2021; 17:7069-7075. [PMID: 34304254 DOI: 10.1039/d1sm00864a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Lipid bilayer vesicles offer exciting possibilities for stimulated response, taking advantage of the membrane's flexibility and impermeability. We show how synergistic interactions between vesicles and polymer-based nanoparticles can be triggered at the nanoscale using UV light. This interaction leads either to adhesion and a membrane-based gel, or to nanoscale wrapping of the particles by the membrane and then vesicle destruction. To map the response, we varied the particle-membrane interactions via their surface charge densities. We found a crossover from adhesion to destruction at a well-defined region in parameter space. We modeled these results by accounting for the electrostatic attraction and the energy of membrane bending. We then synthesized amphiphilic polymers containing a UV-responsive nitrobenzyl moiety that switches its charge, and showed how a trigger predictably led to either a vesicle gel or disruption and release. The results pave the way to a new triggering mechanism and new response modes in soft materials.
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Affiliation(s)
- Rui Cao
- Department of Physics, University of Massachusetts Amherst, 01003, USA.
| | - Jingjing Gao
- Department of Chemistry, University of Massachusetts Amherst, 01003, USA.
| | - S Thayumanavan
- Department of Chemistry, University of Massachusetts Amherst, 01003, USA.
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25
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Spangler EJ, Laradji M. Spatial arrangements of spherical nanoparticles on lipid vesicles. J Chem Phys 2021; 154:244902. [PMID: 34241366 DOI: 10.1063/5.0054875] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We report results of a numerical investigation of the modes of adhesion of two spherical nanoparticles (NPs) on lipid vesicles based on molecular dynamics simulations, in conjunction with the weighted histogram analysis method, of an implicit-solvent model of self-assembled membranes. Our investigation shows that the NPs exhibit a sequence of three modes of adhesion. For low adhesive interactions, the adhering NPs are apart from each other. As the adhesive interaction is increased, the NPs dimerize into in-plane dimers. As the adhesive interaction is further increased for relatively large vesicles, the NPs dimerize into tubular dimers. However, for small vesicles, the tubular dimer state is not observed. For higher values of the adhesive interaction, four endocytosis modes are observed, depending on the initial locations of the NPs on the vesicle and the relative size of the NPs with respect to that of the vesicle. For relatively large vesicles, the NPs are endocytosed individually or as a dimer. For relatively small vesicles, only one NP is endocytosed if the initial distance between the NPs is large, while the second NP remains adhered to the outer leaflet of the vesicle. However, if the initial distance between the NPs is small, one NP is endocytosed, while the other is internalized in the vesicle through a pore.
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Affiliation(s)
- Eric J Spangler
- Department of Biomedical Engineering and Department of Physics and Materials Science, The University of Memphis, Memphis, Tennessee 38152, USA
| | - Mohamed Laradji
- Department of Physics and Materials Science, The University of Memphis, Memphis, Tennessee 38152, USA
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26
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He K, Wei Y, Zhang Z, Chen H, Yuan B, Pang HB, Yang K. Membrane-curvature-mediated co-endocytosis of bystander and functional nanoparticles. NANOSCALE 2021; 13:9626-9633. [PMID: 34008687 PMCID: PMC8177723 DOI: 10.1039/d1nr01443a] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Efficient cellular uptake of nanoparticles (NPs) is necessary for the development of nanomedicine in biomedical applications. Recently, the coadministration of functionalized NPs (FNPs) was shown to stimulate the cellular uptake of nonfunctionalized NPs (termed bystander NPs, BNPs), which presents a new strategy to achieve synergistic delivery. However, a mechanistic understanding of the underlying mechanism is still lacking. In this work, the bystander uptake effect was investigated at the cell membrane level by combining the coarse-grained molecular dynamics, potential of mean force calculation and theoretical energy analysis methods. The membrane internalization efficiency of BNPs was enhanced by co-administered FNPs, and such activity depends on the affinity of both NPs to the membrane and the resultant membrane deformation. The membrane-curvature-mediated attraction and aggregation of NPs facilitated the membrane uptake of BNPs. Furthermore, quantitative suggestions were given to modulate the BNP internalization through controlling the FNP properties such as size, concentration and surface-ligand density. Our results provide insight into the molecular mechanism of the bystander uptake effect, and offer a practical guide to regulate the cellular internalization of NPs for targeted and efficient delivery to cells.
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Affiliation(s)
- Kejie He
- Center for Soft Condensed Matter Physics and Interdisciplinary Research & School of Physical Science and Technology, Soochow University, Suzhou, 215006, P. R. China.
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27
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Gadzinowski M, Mickiewicz D, Basinska T. Spherical versus prolate spheroidal particles in biosciences: Does the shape make a difference? POLYM ADVAN TECHNOL 2021. [DOI: 10.1002/pat.5413] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Mariusz Gadzinowski
- Polymer Division, Centre of Molecular and Macromolecular Studies Polish Academy of Sciences Lodz Poland
| | - Damian Mickiewicz
- Polymer Division, Centre of Molecular and Macromolecular Studies Polish Academy of Sciences Lodz Poland
| | - Teresa Basinska
- Polymer Division, Centre of Molecular and Macromolecular Studies Polish Academy of Sciences Lodz Poland
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28
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Frey F, Idema T. More than just a barrier: using physical models to couple membrane shape to cell function. SOFT MATTER 2021; 17:3533-3549. [PMID: 33503097 DOI: 10.1039/d0sm01758b] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The correct execution of many cellular processes, such as division and motility, requires the cell to adopt a specific shape. Physically, these shapes are determined by the interplay of the plasma membrane and internal cellular driving factors. While the plasma membrane defines the boundary of the cell, processes inside the cell can result in the generation of forces that deform the membrane. These processes include protein binding, the assembly of protein superstructures, and the growth and contraction of cytoskeletal networks. Due to the complexity of the cell, relating observed membrane deformations back to internal processes is a challenging problem. Here, we review cell shape changes in endocytosis, cell adhesion, cell migration and cell division and discuss how by modeling membrane deformations we can investigate the inner working principles of the cell.
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Affiliation(s)
- Felix Frey
- Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, Delft, The Netherlands.
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29
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Bonazzi F, Hall CK, Weikl TR. Membrane morphologies induced by mixtures of arc-shaped particles with opposite curvature. SOFT MATTER 2021; 17:268-275. [PMID: 32270169 DOI: 10.1039/c9sm02476j] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Biological membranes are shaped by various proteins that either generate inward or outward membrane curvature. In this article, we investigate the membrane morphologies induced by mixtures of arc-shaped particles with coarse-grained modeling and simulations. The particles bind to the membranes either with their inward, concave side or their outward, convex side and, thus, generate membrane curvature of opposite sign. We find that small fractions of convex-binding particles can stabilize three-way junctions of membrane tubules, as suggested for the protein lunapark in the endoplasmic reticulum of cells. For comparable fractions of concave-binding and convex-binding particles, we observe lines of particles of the same type, and diverse membrane morphologies with grooves and bulges induced by these particle lines. The alignment and segregation of the particles is driven by indirect, membrane-mediated interactions.
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Affiliation(s)
- Francesco Bonazzi
- Department of Theory and Bio-Systems, Max Planck Institute of Colloids and Interfaces, Am Mühlenberg 1, 14476 Potsdam, Germany.
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30
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Chan C, Du S, Dong Y, Cheng X. Computational and Experimental Approaches to Investigate Lipid Nanoparticles as Drug and Gene Delivery Systems. Curr Top Med Chem 2021; 21:92-114. [PMID: 33243123 PMCID: PMC8191596 DOI: 10.2174/1568026620666201126162945] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2020] [Revised: 10/16/2020] [Accepted: 10/22/2020] [Indexed: 02/06/2023]
Abstract
Lipid nanoparticles (LNPs) have been widely applied in drug and gene delivery. More than twenty years ago, DoxilTM was the first LNPs-based drug approved by the US Food and Drug Administration (FDA). Since then, with decades of research and development, more and more LNP-based therapeutics have been used to treat diverse diseases, which often offer the benefits of reduced toxicity and/or enhanced efficacy compared to the active ingredients alone. Here, we provide a review of recent advances in the development of efficient and robust LNPs for drug/gene delivery. We emphasize the importance of rationally combining experimental and computational approaches, especially those providing multiscale structural and functional information of LNPs, to the design of novel and powerful LNP-based delivery systems.
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Affiliation(s)
- Chun Chan
- Division of Medicinal Chemistry and Pharmacognosy, College of Pharmacy, The Ohio State University, Columbus, OH 43210, USA
| | - Shi Du
- Division of Pharmaceutics and Pharmacology, College of Pharmacy, The Ohio State University, Columbus, OH 43210, USA
| | - Yizhou Dong
- Division of Pharmaceutics and Pharmacology, College of Pharmacy, The Ohio State University, Columbus, OH 43210, USA
- Department of Biomedical Engineering; The Center for Clinical and Translational Science; The Comprehensive Cancer Center; Dorothy M. Davis Heart & Lung Research Institute; Department of Radiation Oncology, The Ohio State University, Columbus, OH 43210, USA
| | - Xiaolin Cheng
- Division of Medicinal Chemistry and Pharmacognosy, College of Pharmacy, The Ohio State University, Columbus, OH 43210, USA
- Biophysics Graduate Program, Translational Data Analytics Institute, The Ohio State University, Columbus, OH 43210, USA
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31
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Spanke HT, Style RW, François-Martin C, Feofilova M, Eisentraut M, Kress H, Agudo-Canalejo J, Dufresne ER. Wrapping of Microparticles by Floppy Lipid Vesicles. PHYSICAL REVIEW LETTERS 2020; 125:198102. [PMID: 33216584 DOI: 10.1103/physrevlett.125.198102] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/07/2020] [Accepted: 10/13/2020] [Indexed: 06/11/2023]
Abstract
Lipid membranes, the barrier defining living cells and many of their subcompartments, bind to a wide variety of nano- and micrometer 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 healthy 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 a wrapping phase diagram and make quantitative comparisons to theoretical models. Our data are consistent with a model of membrane-particle interactions accounting for the adhesive energy per unit area, membrane bending rigidity, particle size, and vesicle radius.
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Affiliation(s)
| | | | | | | | - Manuel Eisentraut
- Department of Physics, University of Bayreuth, 95447 Bayreuth, Germany
| | - Holger Kress
- Department of Physics, University of Bayreuth, 95447 Bayreuth, Germany
| | - Jaime Agudo-Canalejo
- Max Planck Institute for Dynamics and Self-Organization (MPIDS), D-37077 Göttingen, Germany
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32
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Adhesion and Aggregation of Spherical Nanoparticles on Lipid Membranes. Chem Phys Lipids 2020; 233:104989. [PMID: 33120231 DOI: 10.1016/j.chemphyslip.2020.104989] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2020] [Revised: 10/02/2020] [Accepted: 10/02/2020] [Indexed: 02/03/2023]
Abstract
We present a review of recent results on the adhesion, wrapping and aggregation of spherical nanoparticles (NPs) on lipid membranes via molecular dynamics simulations of an implicit solvent model. We show that the degree of wrapping of small NPs, by tensionless planar membranes, can increase continuously with the adhesion strength. However, the degree of wrapping exhibits a discontinuity for large NPs or short interaction range. The adhesion of NPs to small vesicles, without volume constraint, also exhibits a discontinuity between weakly wrapped states and fully endocytosed states. Multiple spherical NPs, bound to tensionless planar membranes are either in a gas state, at weak adhesion strength, or aggregate, at relatively high adhesion strength, into a multitude of structures, corresponding to in-plane chains, out-of-plane tubes and rings, and out-of-plane single-chain tubes. Annealing scans and free energy calculations show that the gas and tube phases are the predominantly stable phases. In-plane chains are only stable for small aggregates and the out-of-plane bitubes are long-lived metastable states.
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33
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Contini C, Hindley JW, Macdonald TJ, Barritt JD, Ces O, Quirke N. Size dependency of gold nanoparticles interacting with model membranes. Commun Chem 2020; 3:130. [PMID: 33829115 PMCID: PMC7610534 DOI: 10.1038/s42004-020-00377-y] [Citation(s) in RCA: 56] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023] Open
Abstract
The rapid development of nanotechnology has led to an increase in the number and variety of engineered nanomaterials in the environment. Gold nanoparticles (AuNPs) are an example of a commonly studied nanomaterial whose highly tailorable properties have generated significant interest through a wide range of research fields. In the present work, we characterise the AuNP-lipid membrane interaction by coupling qualitative data with quantitative measurements of the enthalpy change of interaction. We investigate the interactions between citrate-stabilised AuNPs ranging from 5 to 60 nm in diameter and large unilamellar vesicles acting as a model membrane system. Our results reveal the existence of two critical AuNP diameters which determine their fate when in contact with a lipid membrane. The results provide new insights into the size dependent interaction between AuNPs and lipid bilayers which is of direct relevance to nanotoxicology and to the design of NP vectors.
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Affiliation(s)
- Claudia Contini
- grid.7445.20000 0001 2113 8111Department of Chemistry, Molecular Sciences Research Hub, Imperial College London, White City Campus, Wood Lane, W12 0BZ London, UK
| | - James W. Hindley
- grid.7445.20000 0001 2113 8111Department of Chemistry, Molecular Sciences Research Hub, Imperial College London, White City Campus, Wood Lane, W12 0BZ London, UK ,grid.7445.20000 0001 2113 8111Institute of Chemical Biology, Molecular Sciences Research Hub, Imperial College London, White City Campus, Wood Lane, W12 0BZ London, UK
| | - Thomas J. Macdonald
- grid.7445.20000 0001 2113 8111Department of Chemistry, Molecular Sciences Research Hub, Imperial College London, White City Campus, Wood Lane, W12 0BZ London, UK ,grid.83440.3b0000000121901201Department of Chemistry, University College London, Gordon Street, WC1H 0AJ London, UK
| | - Joseph D. Barritt
- grid.7445.20000 0001 2113 8111Department of Life Sciences, Imperial College London, South Kensington Campus, SW7 2AZ London, UK
| | - Oscar Ces
- grid.7445.20000 0001 2113 8111Department of Chemistry, Molecular Sciences Research Hub, Imperial College London, White City Campus, Wood Lane, W12 0BZ London, UK ,grid.7445.20000 0001 2113 8111Institute of Chemical Biology, Molecular Sciences Research Hub, Imperial College London, White City Campus, Wood Lane, W12 0BZ London, UK
| | - Nick Quirke
- grid.7445.20000 0001 2113 8111Department of Chemistry, Molecular Sciences Research Hub, Imperial College London, White City Campus, Wood Lane, W12 0BZ London, UK
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34
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Sheavly JK, Lehn RC. Bilayer‐mediated assembly of cationic nanoparticles adsorbed to lipid bilayers: Insights from molecular simulations. AIChE J 2020. [DOI: 10.1002/aic.16993] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Jonathan K. Sheavly
- Department of Chemical and Biological Engineering University of Wisconsin‐Madison Madison Wisconsin USA
| | - Reid C. Lehn
- Department of Chemical and Biological Engineering University of Wisconsin‐Madison Madison Wisconsin USA
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35
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Pezeshkian W, König M, Wassenaar TA, Marrink SJ. Backmapping triangulated surfaces to coarse-grained membrane models. Nat Commun 2020; 11:2296. [PMID: 32385270 PMCID: PMC7210967 DOI: 10.1038/s41467-020-16094-y] [Citation(s) in RCA: 75] [Impact Index Per Article: 18.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2020] [Accepted: 04/07/2020] [Indexed: 12/14/2022] Open
Abstract
Many biological processes involve large-scale changes in membrane shape. Computer simulations of these processes are challenging since they occur across a wide range of spatiotemporal scales that cannot be investigated in full by any single current simulation technique. A potential solution is to combine different levels of resolution through a multiscale scheme. Here, we present a multiscale algorithm that backmaps a continuum membrane model represented as a dynamically triangulated surface (DTS) to its corresponding molecular model based on the coarse-grained (CG) Martini force field. Thus, we can use DTS simulations to equilibrate slow large-scale membrane conformational changes and then explore the local properties at CG resolution. We demonstrate the power of our method by backmapping a vesicular bud induced by binding of Shiga toxin and by transforming the membranes of an entire mitochondrion to near-atomic resolution. Our approach opens the way to whole cell simulations at molecular detail. Computer simulations of large-scale changes in membrane shape are challenging since they occur across a wide range of spatiotemporal scales. Here, authors present a multiscale algorithm that backmaps a continuum membrane model represented as a dynamically triangulated surface to its corresponding molecular model based on the coarse-grained Martini force field.
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Affiliation(s)
- Weria Pezeshkian
- Groningen Biomolecular Sciences and Biotechnology Institute and Zernike Institute for Advanced Materials, University of Groningen, Groningen, Netherlands.
| | - Melanie König
- Groningen Biomolecular Sciences and Biotechnology Institute and Zernike Institute for Advanced Materials, University of Groningen, Groningen, Netherlands
| | - Tsjerk A Wassenaar
- Groningen Biomolecular Sciences and Biotechnology Institute and Zernike Institute for Advanced Materials, University of Groningen, Groningen, Netherlands
| | - Siewert J Marrink
- Groningen Biomolecular Sciences and Biotechnology Institute and Zernike Institute for Advanced Materials, University of Groningen, Groningen, Netherlands.
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36
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Chung HT, Yu HY. Binding of a Brownian nanoparticle to a thermally fluctuating membrane surface. Phys Rev E 2020; 101:032604. [PMID: 32289911 DOI: 10.1103/physreve.101.032604] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2019] [Accepted: 02/21/2020] [Indexed: 06/11/2023]
Abstract
We investigate the Brownian dynamics of a nanoparticle bound to a thermally undulating elastic membrane. The ligand-functionalized nanoparticle is assumed to interact monovalently with the receptor expressed on the membrane. In order to resolve the nanoparticle transient motion subject to the instantaneous membrane configuration in a consistent manner, we employ a set of coupled Langevin equations that simultaneously incorporate the hydrodynamic effects, ligand-receptor binding interaction, intramembrane elastic forces, and thermal fluctuations. We show that the presence of a deformable, elastic fluid membrane not only affects the dynamics of a bound nanoparticle but also alters the effective binding potential felt by the nanoparticle. In contrast to a nanoparticle bound to a flat surface, the oscillatory characteristics of the nanoparticle velocity autocorrelation function are suppressed and transition to an anticorrelated long-time tail. Moreover, the nanoparticle position fluctuation becomes more coherent with that of the membrane binding site, and the width of the distribution of the nanoparticle distance from the membrane decreases with increasing membrane bending rigidity. By introducing a locally harmonic, bistable potential as an effective potential for the ligand-receptor pair, the rate of nanoparticle transitioning between two bound states is facilitated by membrane undulations as a result of stronger positional variations associated with the nanoparticle.
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Affiliation(s)
- Hsueh-Te Chung
- Department of Chemical Engineering, National Taiwan University, Taipei 10617, Taiwan
| | - Hsiu-Yu Yu
- Department of Chemical Engineering, National Taiwan University, Taipei 10617, Taiwan
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37
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Mendozza M, Caselli L, Salvatore A, Montis C, Berti D. Nanoparticles and organized lipid assemblies: from interaction to design of hybrid soft devices. SOFT MATTER 2019; 15:8951-8970. [PMID: 31680131 DOI: 10.1039/c9sm01601e] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
This contribution reviews the state of art on hybrid soft matter assemblies composed of inorganic nanoparticles (NP) and lamellar or non-lamellar lipid bilayers. After a short outline of the relevant energetic contributions, we address the interaction of NPs with synthetic lamellar bilayers, meant as cell membrane mimics. We then review the design of hybrid nanostructured materials composed of lipid bilayers and some classes of inorganic NPs, with particular emphasis on the effects on the amphiphilic phase diagram and on the additional properties contributed by the NPs. Then, we present the latest developments on the use of lipid bilayers as coating agents for inorganic NPs. Finally, we remark on the main achievements of the last years and our vision for the development of the field.
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Affiliation(s)
- Marco Mendozza
- Department of Chemistry "Ugo Schiff", University of Florence, and CSGI (Italian Center for Colloid and Surface Science, Via della Lastruccia 3, Sesto Fiorentino, 50019 Firenze, Italy.
| | - Lucrezia Caselli
- Department of Chemistry "Ugo Schiff", University of Florence, and CSGI (Italian Center for Colloid and Surface Science, Via della Lastruccia 3, Sesto Fiorentino, 50019 Firenze, Italy.
| | - Annalisa Salvatore
- Department of Chemistry "Ugo Schiff", University of Florence, and CSGI (Italian Center for Colloid and Surface Science, Via della Lastruccia 3, Sesto Fiorentino, 50019 Firenze, Italy.
| | - Costanza Montis
- Department of Chemistry "Ugo Schiff", University of Florence, and CSGI (Italian Center for Colloid and Surface Science, Via della Lastruccia 3, Sesto Fiorentino, 50019 Firenze, Italy.
| | - Debora Berti
- Department of Chemistry "Ugo Schiff", University of Florence, and CSGI (Italian Center for Colloid and Surface Science, Via della Lastruccia 3, Sesto Fiorentino, 50019 Firenze, Italy.
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38
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Yan Z, Wu Z, Li S, Zhang X, Yi X, Yue T. Curvature-mediated cooperative wrapping of multiple nanoparticles at the same and opposite membrane sides. NANOSCALE 2019; 11:19751-19762. [PMID: 31384870 DOI: 10.1039/c9nr03554k] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Cell membrane interactions with nanoparticles (NPs) are essential to cellular functioning and mostly accompanied by membrane curvature generation and sensing. Multiple NPs inducing curvature from one side of a membrane are believed to be wrapped cooperatively by the membrane through curvature-mediated interactions. However, little is known about another biologically ubiquitous and important case, i.e., NPs binding to opposite membrane sides induce a curved bend of different directions. Combining coarse-grained molecular dynamics and theoretical analysis, here we systematically investigate the cooperative effect in the wrapping of multiple adhesive NPs at the same and opposite membrane sides and demonstrate the importance of the magnitude and direction of the membrane bend in regulating curvature-mediated NP interactions. Effects of the NP size, size difference, initial distance, number, and strength of adhesion with the membrane on the wrapping cooperativity and wrapping states are analyzed. For NPs binding to the same membrane side, rich membrane wrapping and NP aggregation states are observed, and the curvature-mediated interactions could be either attractive or repulsive, depending on the initial NP distance and the competition between the membrane bending, NP binding and membrane protrusion. In sharp contrast, the interaction between two NPs binding to opposite membrane sides is always attractive and the cooperative wrapping of NPs is promoted, as the curved membrane regions induced by the NPs are shared in a manner that the NP-membrane contact is increased and the energy cost of membrane bending is reduced. Owing to the ubiquity and heterogeneity of membrane shaping proteins in biology, our results enrich the cutting-edge knowledge on the curvature-mediated interaction of NPs for better and profound understanding on high-order cooperative assemblies of NPs or proteins in numerous biological processes.
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Affiliation(s)
- Zengshuai Yan
- State Key Laboratory of Heavy Oil Processing, Center for Bioengineering and Biotechnology, College of Chemical Engineering, China University of Petroleum (East China), Qingdao 266580, China.
| | - Zeming Wu
- Department of Mechanics and Engineering Science, Beijing Innovation Center for Engineering Science and Advanced Technology, College of Engineering, Peking University, Beijing 100871, China.
| | - Shixin Li
- State Key Laboratory of Heavy Oil Processing, Center for Bioengineering and Biotechnology, College of Chemical Engineering, China University of Petroleum (East China), Qingdao 266580, China.
| | - Xianren Zhang
- State Key Laboratory of Organic-Inorganic Composites, Beijing University of Chemical Technology, Beijing 100029, China
| | - Xin Yi
- Department of Mechanics and Engineering Science, Beijing Innovation Center for Engineering Science and Advanced Technology, College of Engineering, Peking University, Beijing 100871, China.
| | - Tongtao Yue
- State Key Laboratory of Heavy Oil Processing, Center for Bioengineering and Biotechnology, College of Chemical Engineering, China University of Petroleum (East China), Qingdao 266580, China.
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39
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Zuraw-Weston S, Wood DA, Torres IK, Lee Y, Wang LS, Jiang Z, Lázaro GR, Wang S, Rodal AA, Hagan MF, Rotello VM, Dinsmore AD. Nanoparticles binding to lipid membranes: from vesicle-based gels to vesicle tubulation and destruction. NANOSCALE 2019; 11:18464-18474. [PMID: 31577313 PMCID: PMC7155749 DOI: 10.1039/c9nr06570a] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
While cells offer numerous inspiring examples in which membrane morphology and function are controlled by interactions with viruses or proteins, we still lack design principles for controlling membrane morphology in synthetic systems. With experiments and simulations, we show that spherical nanoparticles binding to lipid-bilayer membrane vesicles results in a remarkably rich set of collective morphologies that are controllable via the particle binding energy. We separately study cationic and anionic particles, where the adhesion is tuned by addition of oppositely charged lipids to the vesicles. When the binding energy is weak relative to a characteristic membrane-bending energy, vesicles adhere to one another and form a soft solid gel, a novel and useful platform for controlled release. With larger binding energy, a transition from partial to complete wrapping of the nanoparticles causes a remarkable vesicle destruction process culminating in rupture, nanoparticle-membrane tubules, and an apparent inversion of the vesicles. These findings help unify the diverse phenomena observed previously. They also open the door to a new class of vesicle-based, closed-cell gels that are more than 99% water and can encapsulate and release on demand, and show how to drive intentional membrane remodeling for shape-responsive systems.
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40
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Ni SD, Yin YW, Li XL, Ding HM, Ma YQ. Controlling the Interaction of Nanoparticles with Cell Membranes by the Polymeric Tether. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2019; 35:12851-12857. [PMID: 31474103 DOI: 10.1021/acs.langmuir.9b02010] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
The well control over the cell-nanoparticle interaction can be of great importance and necessity for different biomedical applications. In this work, we propose a new and simple way (i.e., polymeric tether) to tuning the interaction between nanoparticles and cell membranes by dissipative particle dynamics simulations. It is found that the linked nanoparticles (via polymeric tether) can show some cooperation during the cellular uptake and thereby have a higher wrapping degree than the single nanoparticle. The effect of the property of the polymer on the wrapping is also investigated, and it is found that the length, rigidity, and hydrophobicity of the polymer play an important role. More interestingly, the uptake of linked nanoparticles could be adjusted to the firm adhesion via two rigid polymeric tethers. The present study may provide some useful guidelines for novel design of functional nanomaterials in the experiments.
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Affiliation(s)
- Song-di Ni
- Center for Soft Condensed Matter Physics and Interdisciplinary Research, School of Physical Science and Technology , Soochow University , Suzhou 215006 , China
| | - Yue-Wen Yin
- Center for Soft Condensed Matter Physics and Interdisciplinary Research, School of Physical Science and Technology , Soochow University , Suzhou 215006 , China
| | - Xiao-Lei Li
- Institute of Functional Nano & Soft Materials (FUNSOM) , Soochow University , Suzhou 215123 , China
| | - Hong-Ming Ding
- Center for Soft Condensed Matter Physics and Interdisciplinary Research, School of Physical Science and Technology , Soochow University , Suzhou 215006 , China
| | - Yu-Qiang Ma
- National Laboratory of Solid State Microstructures and Department of Physics, Collaborative Innovation Center of Advanced Microstructures , Nanjing University , Nanjing 210093 , China
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41
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Bahrami A, Bahrami AH. Vesicle constriction by rings of Janus nanoparticles and aggregates of curved proteins. NANOTECHNOLOGY 2019; 30:345101. [PMID: 31048566 DOI: 10.1088/1361-6528/ab1ed5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Membrane constriction and associated scission by proteins and nano structures are crucial to many processes in cellular and synthetic biology. We report mechanical constriction of vesicles by rings of adsorbed Janus nanoparticles that represent synthetic nano structures and mimic contractile proteins, and by aggregates of curved crescents that mimic scaffold proteins. Membrane energetics from Monte Carlo simulations and simulated annealing of the elastic membrane model confirms spontaneous vesicle constriction by aggregates of sufficiently-curved crescents of various lengths and by rings of Janus nanoparticles with a variety of ring lengths, particle sizes, and particle area fractions. We show that shorter rings of smaller particles with higher area fractions reinforce the constriction by increasing the energetic drive towards the constricted vesicle with smaller constriction radius. We demonstrate that vesicle constriction by crescent aggregates strongly depends on the crescent curvature. In contrast to aggregates of sufficiently-curved crescents that are capable of inducing full vesicle constriction, those of near flat crescents with negligible curvature leave the vesicle unconstricted. Our results offer promising perspectives for designing membrane-constricting nano structures such as nanoparticle aggregates and clusters of synthetic curved proteins such as DNA origami scaffolds with applications in synthetic biology. Our findings reveal the significant contribution of highly-curved F-BAR domains to cell division and explain how contractile protein rings such as dynamin GTPase, actomyosin rings, and endosomal sorting complexes required for transport constrict the membrane.
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Affiliation(s)
- Arash Bahrami
- School of Mechanical Engineering, College of Engineering, University of Tehran, North Kargar St., 14399-57131 Tehran, Iran
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42
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Pezeshkian W, König M, Marrink SJ, Ipsen JH. A Multi-Scale Approach to Membrane Remodeling Processes. Front Mol Biosci 2019; 6:59. [PMID: 31396522 PMCID: PMC6664084 DOI: 10.3389/fmolb.2019.00059] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2019] [Accepted: 07/08/2019] [Indexed: 12/31/2022] Open
Abstract
We present a multi-scale simulation procedure to describe membrane-related biological processes that span over a wide range of length scales. At macroscopic length-scale, a membrane is described as a flexible thin film modeled by a dynamic triangulated surface with its spatial conformations governed by an elastic energy containing only a few model parameters. An implicit protein model allows us to include complex effects of membrane-protein interactions in the macroscopic description. The gist of this multi-scale approach is a scheme to calibrate the implicit protein model using finer scale simulation techniques e.g., all atom and coarse grain molecular dynamics. We previously used this approach and properly described the formation of membrane tubular invaginations upon binding of B-subunit of Shiga toxin. Here, we provide a perspective of our multi-scale approach, summarizing its main features and sketching possible routes for future development.
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Affiliation(s)
- Weria Pezeshkian
- Groningen Biomolecular Sciences and Biotechnology Institute and Zernike Institute for Advanced Materials, University of Groningen, Groningen, Netherlands
| | - Melanie König
- Groningen Biomolecular Sciences and Biotechnology Institute and Zernike Institute for Advanced Materials, University of Groningen, Groningen, Netherlands
| | - Siewert J Marrink
- Groningen Biomolecular Sciences and Biotechnology Institute and Zernike Institute for Advanced Materials, University of Groningen, Groningen, Netherlands
| | - John H Ipsen
- Department of Physics, Chemistry and Pharmacy, Center for Biomembrane Physics (MEMPHYS), University of Southern Denmark, Odense, Denmark
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43
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Idema T, Kraft DJ. Interactions between model inclusions on closed lipid bilayer membranes. Curr Opin Colloid Interface Sci 2019. [DOI: 10.1016/j.cocis.2019.01.006] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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44
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Bonazzi F, Weikl TR. Membrane Morphologies Induced by Arc-Shaped Scaffolds Are Determined by Arc Angle and Coverage. Biophys J 2019; 116:1239-1247. [PMID: 30902368 DOI: 10.1016/j.bpj.2019.02.017] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2018] [Revised: 01/13/2019] [Accepted: 02/19/2019] [Indexed: 10/27/2022] Open
Abstract
The intricate shapes of biological membranes such as tubules and membrane stacks are induced by proteins. In this article, we systematically investigate the membrane shapes induced by arc-shaped scaffolds such as proteins and protein complexes with coarse-grained modeling and simulations. We find that arc-shaped scaffolds induce membrane tubules at membrane coverages larger than a threshold of ∼40%, irrespective of their arc angle. The membrane morphologies at intermediate coverages below this tubulation threshold, in contrast, strongly depend on the arc angle. Scaffolds with arc angles of about 60°, akin to N-BAR domains, do not change the membrane shape at coverages below the tubulation threshold, whereas scaffolds with arc angles larger than about 120° induce double-membrane stacks at intermediate coverages. The scaffolds stabilize the curved membrane edges that connect the membrane stacks, as suggested for complexes of reticulon proteins. Our results provide general insights on the determinants of membrane shaping by arc-shaped scaffolds.
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Affiliation(s)
- Francesco Bonazzi
- Max Planck Institute of Colloids and Interfaces, Department of Theory and Bio-Systems, Potsdam, Germany
| | - Thomas R Weikl
- Max Planck Institute of Colloids and Interfaces, Department of Theory and Bio-Systems, Potsdam, Germany.
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45
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Ewins E, Lira RB, Zhang W, Yuan J, Antonietti M, Robinson T, Dimova R. Poly(Ionic Liquid) Nanoparticles Selectively Disrupt Biomembranes. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2019; 6:1801602. [PMID: 30828532 PMCID: PMC6382306 DOI: 10.1002/advs.201801602] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/14/2018] [Revised: 11/29/2018] [Indexed: 06/09/2023]
Abstract
Polymer-based nanoparticles have an increasing presence in research due to their attractive properties, such as flexible surface functionality design and the ability to scale up production. Poly(ionic liquid) (PIL) nanoparticles of size below 50 nm are very unique in terms of their high charge density and internal onion-like morphology. The interaction between PIL nanoparticles and giant unilamellar vesicles (GUVs) of various surface charge densities is investigated. GUVs represent a convenient model system as they mimic the size and curvature of plasma membranes, while simultaneously offering direct visualization of the membrane response under the microscope. Incubating PIL nanoparticles with GUVs results in poration of the lipid membrane in a concentration- and charge-dependent manner. A critical poration concentration of PILs is located and the interactions are found to be analogous to those of antimicrobial peptides. Microbial mimetic membranes are already affected at submicromolar PIL concentrations where contrast loss is observed due to sugar exchange across the membrane, while at high concentrations the collapse of vesicles is observed. Finally, a confocal microscopy-based approach assessing the particle permeation through the membrane is reported and a mechanism based on bilayer frustration and pore stabilization via particle integration in the membrane is proposed.
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Affiliation(s)
- Eleanor Ewins
- Department of Theory & Bio‐SystemsMax Planck Institute of Colloids and InterfacesScience Park Golm14424PotsdamGermany
| | - Rafael B. Lira
- Department of Theory & Bio‐SystemsMax Planck Institute of Colloids and InterfacesScience Park Golm14424PotsdamGermany
| | - Weiyi Zhang
- Department of Colloid ChemistryMax Planck Institute of Colloids and InterfacesScience Park Golm14424PotsdamGermany
| | - Jiayin Yuan
- Department of Colloid ChemistryMax Planck Institute of Colloids and InterfacesScience Park Golm14424PotsdamGermany
| | - Markus Antonietti
- Department of Colloid ChemistryMax Planck Institute of Colloids and InterfacesScience Park Golm14424PotsdamGermany
| | - Tom Robinson
- Department of Theory & Bio‐SystemsMax Planck Institute of Colloids and InterfacesScience Park Golm14424PotsdamGermany
| | - Rumiana Dimova
- Department of Theory & Bio‐SystemsMax Planck Institute of Colloids and InterfacesScience Park Golm14424PotsdamGermany
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Extracting lipid vesicles from plasma membranes via self-assembly of clathrin-inspired scaffolding nanoparticles. Colloids Surf B Biointerfaces 2019; 176:239-248. [PMID: 30623811 DOI: 10.1016/j.colsurfb.2019.01.008] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2018] [Revised: 12/27/2018] [Accepted: 01/02/2019] [Indexed: 11/22/2022]
Abstract
Single-cell analysis is a new and rapidly expanding field, the goal of which is obtaining fresh information from individual cells to understand the regulatory mechanisms of cell development and diseases. Conventional approaches generally rely on the cell lysis which, however, is destructive to cells and against multiple sampling from the living cell. Here, we propose and design a scaffolding nanoparticle (NP) system that enables us to sample cytoplasmic contents without rupturing the cellular membrane, by mimicking the unusual features of clathrin. Our simulation results reveal the design principles, following which scaffolding NPs can extract lipid vesicles from plasma membranes, with both the pathway and the mechanism resembling the clathrin-mediated endocytosis, i.e. multiple NPs deposit at the membrane, assembling into cage-like structures to deform the membrane into a vesicle shape. As important design parameters, the interaction between different NPs should be properly stronger than that between each NP and the membrane to ensure the cage formation, and optimal NP concentration and the membrane surface tension are also requisite for extracting lipid vesicles. Our results provide useful guidelines for design of bio-inspired scaffolding NPs as an intelligent machine for practical use in but not limited to the single-cell analysis.
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Shi X, Tian F. Multiscale Modeling and Simulation of Nano‐Carriers Delivery through Biological Barriers—A Review. ADVANCED THEORY AND SIMULATIONS 2018. [DOI: 10.1002/adts.201800105] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Xinghua Shi
- CAS Key Laboratory for Nanosystem and Hierarchy FabricationCAS Center for Excellence in NanoscienceNational Center for Nanoscience and TechnologyChinese Academy of Sciences Beijing 100190 China
- School of Nanoscience and TechnologyUniversity of Chinese Academy of Sciences NO.19A Yuquan Road Beijing 100049 China
| | - Falin Tian
- CAS Key Laboratory for Nanosystem and Hierarchy FabricationCAS Center for Excellence in NanoscienceNational Center for Nanoscience and TechnologyChinese Academy of Sciences Beijing 100190 China
- School of Nanoscience and TechnologyUniversity of Chinese Academy of Sciences NO.19A Yuquan Road Beijing 100049 China
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48
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Tang H, Ye H, Zhang H, Zheng Y. Aggregation of nanoparticles regulated by mechanical properties of nanoparticle-membrane system. NANOTECHNOLOGY 2018; 29:405102. [PMID: 30020084 DOI: 10.1088/1361-6528/aad443] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
The aggregation of nanoparticles (NPs) on the cell membrane is crucial for the cellular uptake process and has important biological implications in protein-membrane interactions. In this paper, we systematically investigate how the aggregation is regulated by the mechanical properties of the NP-membrane system, including the membrane tension, and the size and shape of the NPs. Results show that when NPs aggregate parallel to the cell membrane, increasing the membrane tension will modulate the membrane-mediated interaction between the NPs from attractive to attractive-repulsive and finally to purely repulsive. In contrast, the membrane-mediated interaction is attractive and independent of the membrane tension when the NPs aggregate to a tubular configuration. For the aggregation of NPs of different sizes, the large-size NP is wrapped to a greater extent than the small-size NP. For the aggregation of nonspherical NPs, low aspect ratio and weak NP-membrane adhesion strength lead to the side-to-side configuration, whereas a system with a high aspect ratio and strong NP-membrane adhesion strength prefers the tip-to-tip configuration. Importantly, NPs of different sizes and anisotropic shapes are found to facilitate the aggregation process by reducing the energy barrier that should be overcome during the aggregation. The results reveal the mechanism of the aggregation of NPs on the cell membrane and provide guidelines to the design of NP-based drug delivery systems.
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Affiliation(s)
- Huayuan Tang
- International Research Center for Computational Mechanics, State Key Laboratory of Structural Analysis for Industrial Equipment, Department of Engineering Mechanics, Faculty of Vehicle Engineering and Mechanics, Dalian University of Technology, Dalian 116024, People's Republic of China
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49
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Jaggers RW, Bon SAF. Structure and behaviour of vesicles in the presence of colloidal particles. SOFT MATTER 2018; 14:6949-6960. [PMID: 30117508 DOI: 10.1039/c8sm01223g] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
This review highlights recent studies that investigate the structural changes and behaviour of synthetic vesicles when they are exposed to colloidal particles. We will show examples to demonstrate the power of combining particles and vesicles in generating exciting supracolloidal structures. These suprastructures have a wide range of often responsive behaviours that take advantage of both the mechanical and morphological support provided by the vesicles and the associated particles with preset functionality. This review includes applications spanning a variety of disciplines, including chemistry, biology, physics and medicine.
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Affiliation(s)
- Ross W Jaggers
- BonLab, Department of Chemistry, University of Warwick, Coventry, CV4 7AL, UK.
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50
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Simunovic M, Bassereau P, Voth GA. Organizing membrane-curving proteins: the emerging dynamical picture. Curr Opin Struct Biol 2018; 51:99-105. [PMID: 29609179 PMCID: PMC6165709 DOI: 10.1016/j.sbi.2018.03.018] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2018] [Revised: 03/16/2018] [Accepted: 03/19/2018] [Indexed: 11/30/2022]
Abstract
Lipid membranes play key roles in cells, such as in trafficking, division, infection, remodeling of organelles, among others. The key step in all these processes is creating membrane curvature, typically under the control of many anchored, adhered or included proteins. However, it has become clear that the membrane itself can mediate the interactions among proteins to produce highly ordered assemblies. Computer simulations are ideally suited to investigate protein organization and the dynamics of membrane remodeling at near-micron scales, something that is extremely challenging to tackle experimentally. We review recent computational efforts in modeling protein-caused membrane deformation mechanisms, specifically focusing on coarse-grained simulations. We highlight work that exposed the membrane-mediated ordering of proteins into lines, meshwork, spirals and other assemblies, in what seems to be a very generic mechanism driven by a combination of short and long-ranged forces. Modulating the mechanical properties of membranes is an underexplored signaling mechanism in various processes deserving of more attention in the near future.
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Affiliation(s)
- Mijo Simunovic
- Department of Chemistry, Institute for Biophysical Dynamics, James Franck Institute and Computation Institute, The University of Chicago, Chicago, IL 60637, USA; Laboratoire Physico Chimie Curie, Institut Curie, PSL Research University, CNRS UMR168, 75005 Paris, France; Sorbonne Universités, UPMC Univ Paris 06, 75005 Paris, France; Center for Studies in Physics and Biology, The Rockefeller University, New York, NY 10065, USA.
| | - Patricia Bassereau
- Laboratoire Physico Chimie Curie, Institut Curie, PSL Research University, CNRS UMR168, 75005 Paris, France; Sorbonne Universités, UPMC Univ Paris 06, 75005 Paris, France
| | - Gregory A Voth
- Department of Chemistry, Institute for Biophysical Dynamics, James Franck Institute and Computation Institute, The University of Chicago, Chicago, IL 60637, USA.
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