1
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Guo Y, Werner M, Baulin VA. Efficient enumeration-selection computational strategy for adaptive chemistry. Sci Rep 2022; 12:14664. [PMID: 36038758 PMCID: PMC9424279 DOI: 10.1038/s41598-022-17938-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2022] [Accepted: 08/03/2022] [Indexed: 11/20/2022] Open
Abstract
Design problems of finding efficient patterns, adaptation of complex molecules to external environments, affinity of molecules to specific targets, dynamic adaptive behavior of chemical systems, reconstruction of 3D structures from diffraction data are examples of difficult to solve optimal design or inverse search problems. Nature inspires evolution strategies to solve design problems that are based on selection of successful adaptations and heritable traits over generations. To exploit this strategy in the creation of new materials, a concept of adaptive chemistry was proposed to provide a route for synthesis of self-adapting molecules that can fit to their environment. We propose a computational method of an efficient exhaustive search exploiting massive parallelization on modern GPUs, which finds a solution for an inverse problem by solving repetitively a direct problem in the mean field approximation. One example is the search for a composition of a copolymer that allows the polymer to translocate through a lipid membrane at a minimal time. Another example is a search of a copolymer sequence that maximizes the polymer load in the micelle defined by the radial core-shell potentials. The length and the composition of the sequence are adjusted to fit into the restricted environment. Hydrogen bonding is another pathway of adaptation to the environment through reversible links. A linear polymer that interacts with water through hydrogen bonds adjusts the position of hydrogen bonds along the chain as a function of the concentration field around monomers. In the last example, branching of the molecules is adjusted to external fields, providing molecules with annealed topology, that can be flexibly changed by changing external conditions. The method can be generalized and applied to a broad spectrum of design problems in chemistry and physics, where adaptive behavior in multi-parameter space in response to environmental conditions lead to non-trivial patterns or molecule architectures and compositions. It can further be combined with machine learning or other optimization techniques to explore more efficiently the parameter space.
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Affiliation(s)
- Yachong Guo
- Kuang Yaming Honors School, Nanjing University, Nanjing, 210023, China
| | - Marco Werner
- Leibniz-Institut für Polymerforschung Dresden e.V., Hohe Strasse 6, 01069, Dresden, Germany
| | - Vladimir A Baulin
- Departament Química Física i Inorgànica, Universitat Rovira i Virgili, Marcel.lí Domingo s/n, 43007, Tarragona, Spain.
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2
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Kostyurina E, Allgaier J, Kruteva M, Frielinghaus H, Csiszár A, Förster S, Biehl R. Passive Macromolecular Translocation Mechanism through Lipid Membranes. J Am Chem Soc 2022; 144:15348-15354. [PMID: 35951721 DOI: 10.1021/jacs.2c06659] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The translocation of biologically active macromolecules through cell membranes is of vital importance for cells and is a key process for drug delivery. Proteins exploit specific conformational changes in their secondary structure to facilitate membrane translocation. For the large class of biological and synthetic macromolecules, where such conformational adaptions are not possible, guidelines to tailor the structure of monomers and macromolecules to aid membrane translocation and cross-membrane drug delivery would be highly desirable. Here, we use alternating amphiphilic macromolecules to systematically investigate the relation between polarity, polymer chain length, lipid chain length, polymer concentration, and temperature on membrane partition and translocation rate. We employed pulse field gradient NMR and confocal fluorescence microscopy to determine membrane adsorption and desorption rate constants and partitioning coefficients. We find that translocation is a two-step process involving a fast adsorption and membrane insertion process and a slower desorption process. Membrane insertion is a key step that determines the molecular weight, concentration, and temperature dependences. Passive translocation is possible on time scales from minutes to hours. Macromolecules with different adapted hydrophilic/hydrophobic comonomer sequences show the same translocation rate, indicating that common optimized translocation conditions can be realized with a variety of monomer chemical structures. The investigated copolymers are biocompatible, biodegradable, and capable of transporting a hydrophobic payload through the lipid membrane. This detailed understanding of the macromolecular translocation mechanism enables to better tailor the delivery of active agents using macromolecular carriers.
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Affiliation(s)
- Ekaterina Kostyurina
- Jülich Centre for Neutron Science (JCNS-1) and Institute for Biological Information Processing (IBI-8), Forschungszentrum Jülich GmbH, 52428 Jülich, Germany
| | - Jürgen Allgaier
- Jülich Centre for Neutron Science (JCNS-1) and Institute for Biological Information Processing (IBI-8), Forschungszentrum Jülich GmbH, 52428 Jülich, Germany
| | - Margarita Kruteva
- Jülich Centre for Neutron Science (JCNS-1) and Institute for Biological Information Processing (IBI-8), Forschungszentrum Jülich GmbH, 52428 Jülich, Germany
| | - Henrich Frielinghaus
- Jülich Centre for Neutron Science at MLZ, Forschungszentrum Jülich GmbH, 85747 Garching, Germany
| | - Agnes Csiszár
- Institute for Biological Information Processing (IBI-2), Forschungszentrum Jülich GmbH, 52428 Jülich, Germany
| | - Stephan Förster
- Jülich Centre for Neutron Science (JCNS-1) and Institute for Biological Information Processing (IBI-8), Forschungszentrum Jülich GmbH, 52428 Jülich, Germany.,Jülich Centre for Neutron Science at MLZ, Forschungszentrum Jülich GmbH, 85747 Garching, Germany
| | - Ralf Biehl
- Jülich Centre for Neutron Science (JCNS-1) and Institute for Biological Information Processing (IBI-8), Forschungszentrum Jülich GmbH, 52428 Jülich, Germany
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3
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Zueva OS, Makarova AO, Zvereva ER, Kh. Kurbanov R, Salnikov VV, Turanov AN, Zuev YF. Industrial block copolymer surfactants: Diversity of associative forms and interaction with carbon nanomaterial. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2022.119267] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
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4
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Niu Q, Gao S, Liu X, Chong J, Ren L, Zhu K, Shi W, Yuan X. Membrane stabilization versus perturbation by aromatic monoamine-modified γ-PGA for cryopreservation of human RBCs with high intracellular trehalose. J Mater Chem B 2022; 10:6038-6048. [PMID: 35894777 DOI: 10.1039/d2tb01074g] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
As a nonreducing disaccharide, trehalose can be used as a biocompatible cryoprotectant for solvent-free cell cryopreservation, but the membrane-impermeability limits its cryoprotective efficiency. Herein, a series of aromatic monoamines with a 1-4 methylene spacer were grafted onto γ-poly(glutamic acid) (γ-PGA) for promoting intracellular trehalose uptake in human red blood cells (hRBCs) via membrane perturbation. The self-assembled nanoparticles of the obtained amphiphilic γ-PGA could be adsorbed on the cell membrane by the hydrophobic interaction to disturb the lipid arrangement and increase the membrane permeability of trehalose under hypertonic conditions. Results suggested that the intracellular trehalose could be enhanced progressively with the methylene spacer length, significantly increasing to 75.1 ± 0.7 mM by incubating hRBCs in 0.8 M trehalose containing phenylbutylamine-grafted γ-PGA at 4 °C for 24 h. Meanwhile, the other three polymers exhibited membrane stabilization in addition to improved intracellular trehalose, maintaining the membrane integrity during cryopreservation to achieve high cryosurvival. Molecular dynamics simulation further confirmed that defects could be formed by interaction of the above four amphiphilic polymers on the modeled phospholipid bilayer. It was believed that glycerol-free cryopreservation of human cells could be realized by using trehalose as the biocompatible cryoprotectant, and membrane stabilization can be a compensatory approach to membrane perturbation during impermeable biomolecule delivery.
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Affiliation(s)
- Qingjing Niu
- School of Materials Science and Engineering, Tianjin Key Laboratory of Composite and Functional Materials, Tianjin University, Tianjin 300350, China.
| | - Shuhui Gao
- School of Materials Science and Engineering, Tianjin Key Laboratory of Composite and Functional Materials, Tianjin University, Tianjin 300350, China.
| | - Xingwen Liu
- School of Materials Science and Engineering, Tianjin Key Laboratory of Composite and Functional Materials, Tianjin University, Tianjin 300350, China.
| | | | - Lixia Ren
- School of Materials Science and Engineering, Tianjin Key Laboratory of Composite and Functional Materials, Tianjin University, Tianjin 300350, China.
| | - Kongying Zhu
- Analysis and Measurement Center, Tianjin University, Tianjin 300072, China
| | - Wenxiong Shi
- Institute for New Energy Materials and Low Carbon Technologies, School of Materials Science and Engineering, Tianjin University of Technology, Tianjin 300384, China.
| | - Xiaoyan Yuan
- School of Materials Science and Engineering, Tianjin Key Laboratory of Composite and Functional Materials, Tianjin University, Tianjin 300350, China.
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5
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Kostyurina E, De Mel JU, Vasilyeva A, Kruteva M, Frielinghaus H, Dulle M, Barnsley L, Förster S, Schneider GJ, Biehl R, Allgaier J. Controlled LCST Behavior and Structure Formation of Alternating Amphiphilic Copolymers in Water. Macromolecules 2022. [DOI: 10.1021/acs.macromol.1c02324] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Ekaterina Kostyurina
- Jülich Centre for Neutron Science (JCNS-1) and Institute for Biological Information processing (IBI-8), Forschungszentrum Jülich GmbH, Jülich 52425, Germany
| | - Judith U. De Mel
- Department of Chemistry, Louisiana State University, Baton Rouge, Louisiana 70803, United States
| | - Alexandra Vasilyeva
- Jülich Centre for Neutron Science (JCNS-1) and Institute for Biological Information processing (IBI-8), Forschungszentrum Jülich GmbH, Jülich 52425, Germany
| | - Margarita Kruteva
- Jülich Centre for Neutron Science (JCNS-1) and Institute for Biological Information processing (IBI-8), Forschungszentrum Jülich GmbH, Jülich 52425, Germany
| | - Henrich Frielinghaus
- Jülich Centre for Neutron Science at MLZ, Forschungszentrum Jülich GmbH, Garching 85747, Germany
| | - Martin Dulle
- Jülich Centre for Neutron Science (JCNS-1) and Institute for Biological Information processing (IBI-8), Forschungszentrum Jülich GmbH, Jülich 52425, Germany
| | - Lester Barnsley
- Jülich Centre for Neutron Science at MLZ, Forschungszentrum Jülich GmbH, Garching 85747, Germany
- Australian Synchrotron, ANSTO, Clayton, Victoria 3168, Australia
| | - Stephan Förster
- Jülich Centre for Neutron Science (JCNS-1) and Institute for Biological Information processing (IBI-8), Forschungszentrum Jülich GmbH, Jülich 52425, Germany
- Jülich Centre for Neutron Science at MLZ, Forschungszentrum Jülich GmbH, Garching 85747, Germany
| | - Gerald J. Schneider
- Department of Chemistry, Louisiana State University, Baton Rouge, Louisiana 70803, United States
- Department of Physics & Astronomy, Louisiana State University, Baton Rouge, Louisiana 70803, United States
| | - Ralf Biehl
- Jülich Centre for Neutron Science (JCNS-1) and Institute for Biological Information processing (IBI-8), Forschungszentrum Jülich GmbH, Jülich 52425, Germany
| | - Jürgen Allgaier
- Jülich Centre for Neutron Science (JCNS-1) and Institute for Biological Information processing (IBI-8), Forschungszentrum Jülich GmbH, Jülich 52425, Germany
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6
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Werner M. Decoding Interaction Patterns from the Chemical Sequence of Polymers Using Neural Networks. ACS Macro Lett 2021; 10:1333-1338. [PMID: 35549009 DOI: 10.1021/acsmacrolett.1c00325] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
The relation between chemical sequences and the properties of polymers is considered using artificial neural networks with a low-dimensional bottleneck layer of neurons. These encoder-decoder architectures may compress the input information into a meaningful set of physical variables that describe the correlation between distinct types of data. In this work, neural networks were trained to translate a sequence of hydrophilic and hydrophobic segments into the effective free energy landscape of a copolymer interacting with a lipid membrane. The training data were obtained by the sampling of coarse-grained polymer conformations in a given membrane density field. Neural networks that were split into separate channels have learned to decompose the free energy into independent components that are explainable by known concepts from polymer physics. The semantic information in the hidden layers was employed to predict polymer translocation events through a membrane for a more detailed dynamic model via a transfer learning procedure. The search for minimal translocation times in the compressed chemical space underlined that nontrivial sequence motifs may lead to optimal properties.
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Affiliation(s)
- Marco Werner
- Leibniz-Institut für Polymerforschung Dresden e.V., Hohe Straße 6, 01069 Dresden, Germany
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7
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Chemically Induced pH Perturbations for Analyzing Biological Barriers Using Ion-Sensitive Field-Effect Transistors. SENSORS 2021; 21:s21217277. [PMID: 34770587 PMCID: PMC8588202 DOI: 10.3390/s21217277] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/15/2021] [Revised: 10/27/2021] [Accepted: 10/29/2021] [Indexed: 12/17/2022]
Abstract
Potentiometric pH measurements have long been used for the bioanalysis of biofluids, tissues, and cells. A glass pH electrode and ion-sensitive field-effect transistor (ISFET) can measure the time course of pH changes in a microenvironment as a result of physiological and biological activities. However, the signal interpretation of passive pH sensing is difficult because many biological activities influence the spatiotemporal distribution of pH in the microenvironment. Moreover, time course measurement suffers from stability because of gradual drifts in signaling. To address these issues, an active method of pH sensing was developed for the analysis of the cell barrier in vitro. The microenvironmental pH is temporarily perturbed by introducing a low concentration of weak acid (NH4+) or base (CH3COO−) to cells cultured on the gate insulator of ISFET using a superfusion system. Considering the pH perturbation originates from the semi-permeability of lipid bilayer plasma membranes, induced proton dynamics are used for analyzing the biomembrane barriers against ions and hydrated species following interaction with exogenous reagents. The unique feature of the method is the sensitivity to the formation of transmembrane pores as small as a proton (H+), enabling the analysis of cell–nanomaterial interactions at the molecular level. The new modality of cell analysis using ISFET is expected to be applied to nanomedicine, drug screening, and tissue engineering.
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8
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Canepa E, Bochicchio D, Gasbarri M, Odino D, Canale C, Ferrando R, Canepa F, Stellacci F, Rossi G, Dante S, Relini A. Cholesterol Hinders the Passive Uptake of Amphiphilic Nanoparticles into Fluid Lipid Membranes. J Phys Chem Lett 2021; 12:8583-8590. [PMID: 34468146 PMCID: PMC8436204 DOI: 10.1021/acs.jpclett.1c02077] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/17/2023]
Abstract
Plasma membranes represent pharmacokinetic barriers for the passive transport of site-specific drugs within cells. When engineered nanoparticles (NPs) are considered as transmembrane drug carriers, the plasma membrane composition can affect passive NP internalization in many ways. Among these, cholesterol-regulated membrane fluidity is probably one of the most biologically relevant. Herein, we consider small (2-5 nm in core diameter) amphiphilic gold NPs capable of spontaneously and nondisruptively entering the lipid bilayer of plasma membranes. We study their incorporation into model 1,2-dioleoyl-sn-glycero-3-phosphocholine membranes with increasing cholesterol content. We combine dissipative quartz crystal microbalance experiments, atomic force microscopy, and molecular dynamics simulations to show that membrane cholesterol, at biologically relevant concentrations, hinders the molecular mechanism for passive NP penetration within fluid bilayers, resulting in a dramatic reduction in the amount of NP incorporated.
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Affiliation(s)
- Ester Canepa
- Department
of Chemistry and Industrial Chemistry, University
of Genoa, via Dodecaneso 31, 16146 Genoa, Italy
- Materials
Characterization Facility, Istituto Italiano
di Tecnologia, via Morego 30, 16163 Genoa, Italy
- Department
of Physics, University of Genoa, via Dodecaneso 33, 16146 Genoa, Italy
| | - Davide Bochicchio
- Department
of Physics, University of Genoa, via Dodecaneso 33, 16146 Genoa, Italy
| | - Matteo Gasbarri
- Institute
of Materials, École Polytechnique
Fédérale de Lausanne, Route Cantonale, 1015 Lausanne, Switzerland
| | - Davide Odino
- Department
of Physics, University of Genoa, via Dodecaneso 33, 16146 Genoa, Italy
| | - Claudio Canale
- Department
of Physics, University of Genoa, via Dodecaneso 33, 16146 Genoa, Italy
| | - Riccardo Ferrando
- Department
of Physics, University of Genoa, via Dodecaneso 33, 16146 Genoa, Italy
| | - Fabio Canepa
- Department
of Chemistry and Industrial Chemistry, University
of Genoa, via Dodecaneso 31, 16146 Genoa, Italy
| | - Francesco Stellacci
- Institute
of Materials, École Polytechnique
Fédérale de Lausanne, Route Cantonale, 1015 Lausanne, Switzerland
| | - Giulia Rossi
- Department
of Physics, University of Genoa, via Dodecaneso 33, 16146 Genoa, Italy
| | - Silvia Dante
- Materials
Characterization Facility, Istituto Italiano
di Tecnologia, via Morego 30, 16163 Genoa, Italy
| | - Annalisa Relini
- Department
of Physics, University of Genoa, via Dodecaneso 33, 16146 Genoa, Italy
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9
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Characterization of Monte Carlo Dynamic/Kinetic Properties of Local Structure in Bond Fluctuation Model of Polymer System. MATERIALS 2021; 14:ma14174962. [PMID: 34501051 PMCID: PMC8433752 DOI: 10.3390/ma14174962] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/21/2021] [Revised: 08/19/2021] [Accepted: 08/25/2021] [Indexed: 11/19/2022]
Abstract
We report the results of the characterization of local Monte Carlo (MC) dynamics of an equilibrium bond fluctuation model polymer matrix (BFM), in time interval typical for MC simulations of non-linear optical phenomena in host-guest systems. The study contributes to the physical picture of the dynamical aspects of quasi-binary mosaic states characterized previously in the static regime. The polymer dynamics was studied at three temperatures (below, above and close to the glass transition), using time-dependent generalization of the static parameters which characterize local free volume and local mobility of the matrix. Those parameters play the central role in the kinetic MC model of host-guest systems. The analysis was done in terms of the probability distributions of instantaneous and time-averaged local parameters. The main result is the characterization of time scales characteristic of various local structural processes. Slowing down effects close to the glass transition are clearly marked. The approach yields an elegant geometric criterion for the glass transition temperature. A simplified quantitative physical picture of the dynamics of guest molecules dispersed in BFM matrix at low temperatures offers a starting point for stochastic modeling of host-guest systems.
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10
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Wengenmayr M, Dockhorn R, Sommer JU. Multimolecular Structure Formation with Linear Dendritic Copolymers. Macromolecules 2021. [DOI: 10.1021/acs.macromol.1c00226] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Martin Wengenmayr
- Institute Theory of Polymers, Leibniz Institute for Polymer Research Dresden, Hohe Strasse 6, D-01069 Dresden, Germany
| | - Ron Dockhorn
- Institute Theory of Polymers, Leibniz Institute for Polymer Research Dresden, Hohe Strasse 6, D-01069 Dresden, Germany
| | - Jens-Uwe Sommer
- Institute Theory of Polymers, Leibniz Institute for Polymer Research Dresden, Hohe Strasse 6, D-01069 Dresden, Germany
- Institute of Theoretical Physics, Technische Universität Dresden, Zellescher Weg 17, D-01069 Dresden, Germany
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11
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Fleury JB, Werner M, Guével XL, Baulin VA. Protein corona modulates interaction of spiky nanoparticles with lipid bilayers. J Colloid Interface Sci 2021; 603:550-558. [PMID: 34216951 DOI: 10.1016/j.jcis.2021.06.047] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2021] [Revised: 05/23/2021] [Accepted: 06/07/2021] [Indexed: 10/21/2022]
Abstract
The impact of protein corona on the interactions of nanoparticles (NPs) with cells remains an open question. This question is particularly relevant to NPs which sizes, ranging from tens to hundreds nanometers, are comparable to the sizes of most abundant proteins in plasma. Protein sizes match with typical thickness of various coatings and ligands layers, usually present at the surfaces of larger NPs. Such size match may affect the properties and the designed function of NPs. We offer a direct demonstration of how protein corona can dramatically change the interaction mode between NPs and lipid bilayers. To this end, we choose the most extreme case of NP surface modification: nanostructures in the form of rigid spikes of 10-20 nm length at the surface of gold nanoparticles. In the absence of proteins we observe the formation of reversible pores when spiky NPs adsorb on lipid bilayers. In contrast, the presence of bovine serum albumin (BSA) proteins adsorbed at the surface of spiked NPs, effectively reduces the length of spikes exposed to the interaction with lipid bilayers. Thus, protein corona changes qualitatively the dynamics of pore formation, which is completely suppressed at high protein concentrations. These results suggest that protein corona can not only be critical for interaction of NPs with membranes, it may change their mode of interaction, thus offsetting the role of surface chemistry and ligands.
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Affiliation(s)
- Jean-Baptiste Fleury
- Experimental Physics and Center for Biophysics, Universitat des Saarlandes, 66123 Saarbruecken, Germany.
| | - Marco Werner
- Leibniz-Institut für Polymerforschung Dresden e.V., Hohe Strasse 6, 01069 Dresden, Germany
| | - Xavier Le Guével
- Cancer Targets & Experimental Therapeutics, Institute for Advanced Biosciences (IAB), University of Grenoble Alpes, INSERM U1209, CNRS UMR 5309, 38000 Grenoble, France
| | - Vladimir A Baulin
- Departament Química Física i Inorgánica, Universitat Rovira i Virgili, Marcel.lí Domingo s/n, 43007 Tarragona, Spain.
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12
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Mitus AC, Saphiannikova M, Radosz W, Toshchevikov V, Pawlik G. Modeling of Nonlinear Optical Phenomena in Host-Guest Systems Using Bond Fluctuation Monte Carlo Model: A Review. MATERIALS (BASEL, SWITZERLAND) 2021; 14:1454. [PMID: 33809785 PMCID: PMC8002275 DOI: 10.3390/ma14061454] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/21/2021] [Revised: 03/05/2021] [Accepted: 03/08/2021] [Indexed: 12/14/2022]
Abstract
We review the results of Monte Carlo studies of chosen nonlinear optical effects in host-guest systems, using methods based on the bond-fluctuation model (BFM) for a polymer matrix. In particular, we simulate the inscription of various types of diffraction gratings in degenerate two wave mixing (DTWM) experiments (surface relief gratings (SRG), gratings in polymers doped with azo-dye molecules and gratings in biopolymers), poling effects (electric field poling of dipolar molecules and all-optical poling) and photomechanical effect. All these processes are characterized in terms of parameters measured in experiments, such as diffraction efficiency, nonlinear susceptibilities, density profiles or loading parameters. Local free volume in the BFM matrix, characterized by probabilistic distributions and correlation functions, displays a complex mosaic-like structure of scale-free clusters, which are thought to be responsible for heterogeneous dynamics of nonlinear optical processes. The photoinduced dynamics of single azopolymer chains, studied in two and three dimensions, displays complex sub-diffusive, diffusive and super-diffusive dynamical regimes. A directly related mathematical model of SRG inscription, based on the continuous time random walk (CTRW) formalism, is formulated and studied. Theoretical part of the review is devoted to the justification of the a priori assumptions made in the BFM modeling of photoinduced motion of the azo-polymer chains.
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Affiliation(s)
- Antoni C. Mitus
- Department of Theoretical Physics, Wroclaw University of Science and Technology, 50-370 Wroclaw, Poland; (A.C.M.); (W.R.)
| | - Marina Saphiannikova
- Leibniz-Institut für Polymerforschung Dresden e.V., Hohe Strasse 6, 01069 Dresden, Germany;
| | - Wojciech Radosz
- Department of Theoretical Physics, Wroclaw University of Science and Technology, 50-370 Wroclaw, Poland; (A.C.M.); (W.R.)
| | - Vladimir Toshchevikov
- Institute of Macromolecular Compounds, Russian Academy of Sciences, Bolshoi Prospect 31, 199004 Saint Petersburg, Russia;
| | - Grzegorz Pawlik
- Department of Theoretical Physics, Wroclaw University of Science and Technology, 50-370 Wroclaw, Poland; (A.C.M.); (W.R.)
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13
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Saha D, Peddireddy KR, Allgaier J, Zhang W, Maccarrone S, Frielinghaus H, Richter D. Amphiphilic Comb Polymers as New Additives in Bicontinuous Microemulsions. NANOMATERIALS 2020; 10:nano10122410. [PMID: 33276588 PMCID: PMC7761537 DOI: 10.3390/nano10122410] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/19/2020] [Revised: 11/20/2020] [Accepted: 11/29/2020] [Indexed: 11/16/2022]
Abstract
It has been shown that the thermodynamics of bicontinuous microemulsions can be tailored via the addition of various different amphiphilic polymers. In this manuscript, we now focus on comb-type polymers consisting of hydrophobic backbones and hydrophilic side chains. The distinct philicity of the backbone and side chains leads to a well-defined segregation into the oil and water domains respectively, as confirmed by contrast variation small-angle neutron scattering experiments. This polymer-microemulsion structure leads to well-described conformational entropies of the polymer fragments (backbone and side chains) that exert pressure on the membrane, which influences the thermodynamics of the overall microemulsion. In the context of the different polymer architectures that have been studied by our group with regards to their phase diagrams and small-angle neutron scattering, the microemulsion thermodynamics of comb polymers can be described in terms of a superposition of the backbone and side chain fragments. The denser or longer the side chain, the stronger the grafting and the more visible the brush effect of the side chains becomes. Possible applications of the comb polymers as switchable additives are discussed. Finally, a balanced philicity of polymers also motivates transmembrane migration in biological systems of the polymers themselves or of polymer-DNA complexes.
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Affiliation(s)
- Debasish Saha
- Solid State Physics Division, Bhabha Atomic Research Centre, Mumbai 400085, India;
| | - Karthik R. Peddireddy
- Department of Physics and Biophysics, University of San Diego, San Diego, CA 92110, USA;
| | - Jürgen Allgaier
- Jülich Centre for Neutron Science (JCNS-1) and Institute of Biological Information Processing (IBI-8) Forschungszentrum Jülich GmbH, 52425 Jülich, Germany; (J.A.); (W.Z.); (D.R.)
| | - Wei Zhang
- Jülich Centre for Neutron Science (JCNS-1) and Institute of Biological Information Processing (IBI-8) Forschungszentrum Jülich GmbH, 52425 Jülich, Germany; (J.A.); (W.Z.); (D.R.)
| | - Simona Maccarrone
- Jülich Centre for Neutron Science (JCNS), Forschungszentrum Jülich GmbH, Outstation at FRM II, Lichtenbergstr. 1, 85747 Garching, Germany;
| | - Henrich Frielinghaus
- Jülich Centre for Neutron Science (JCNS), Forschungszentrum Jülich GmbH, Outstation at FRM II, Lichtenbergstr. 1, 85747 Garching, Germany;
- Correspondence: ; Tel.: +49-89-289-10706
| | - Dieter Richter
- Jülich Centre for Neutron Science (JCNS-1) and Institute of Biological Information Processing (IBI-8) Forschungszentrum Jülich GmbH, 52425 Jülich, Germany; (J.A.); (W.Z.); (D.R.)
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14
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Dailing EA, Kilchrist KV, Tierney JW, Fletcher RB, Evans BC, Duvall CL. Modifying Cell Membranes with Anionic Polymer Amphiphiles Potentiates Intracellular Delivery of Cationic Peptides. ACS APPLIED MATERIALS & INTERFACES 2020; 12:50222-50235. [PMID: 33124813 PMCID: PMC9082340 DOI: 10.1021/acsami.0c13304] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/07/2023]
Abstract
Rapid, facile, and noncovalent cell membrane modification with alkyl-grafted anionic polymers was sought as an approach to enhance intracellular delivery and bioactivity of cationic peptides. We synthesized a library of acrylic acid-based copolymers containing varying amounts of an amine-reactive pentafluorophenyl acrylate monomer followed by postpolymerization modification with a series of alkyl amines to afford precise control over the length and density of aliphatic alkyl side chains. This synthetic strategy enabled systematic investigation of the effect of the polymer structure on membrane binding, potentiation of peptide cell uptake, pH-dependent disruption of lipid bilayers for endosome escape, and intracellular bioavailability. A subset of these polymers exhibited pKa of ∼6.8, which facilitated stable membrane association at physiological pH and rapid, pH-dependent endosomal disruption upon endocytosis as quantified in Galectin-8-YFP reporter cells. Cationic cell penetrating peptide (CPP) uptake was enhanced up to 15-fold in vascular smooth muscle cells in vitro when peptide treatment was preceded by a 30-min pretreatment with lead candidate polymers. We also designed and implemented a new and highly sensitive assay for measuring the intracellular bioavailability of CPPs based on the NanoLuciferase (NanoLuc) technology previously developed for measuring intracellular protein-protein interactions. Using this split luciferase class of assay, polymer pretreatment enhanced intracellular delivery of the CPP-modified HiBiT peptide up to 30-fold relative to CPP-HiBiT without polymer pretreatment (p < 0.05). The overall structural analyses show that polymers containing 50:50 or 70:30 molar ratios of carboxyl groups to alkyl side chains of 6-8 carbons maximized peptide uptake, pH-dependent membrane disruption, and intracellular bioavailability and that this potentiation effect was maximized by pairing with CPPs with high cationic charge density. These results demonstrate a rapid, mild method for polymer modification of cell surfaces to potentiate intracellular delivery, endosome escape, and bioactivity of cationic peptides.
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Affiliation(s)
- Eric A Dailing
- Department of Biomedical Engineering, Vanderbilt University, PMB 351634, Nashville, Tennessee 37235, United States
| | - Kameron V Kilchrist
- Department of Biomedical Engineering, Vanderbilt University, PMB 351634, Nashville, Tennessee 37235, United States
| | - J William Tierney
- Department of Biomedical Engineering, Vanderbilt University, PMB 351634, Nashville, Tennessee 37235, United States
| | - R Brock Fletcher
- Department of Biomedical Engineering, Vanderbilt University, PMB 351634, Nashville, Tennessee 37235, United States
| | - Brian C Evans
- Department of Biomedical Engineering, Vanderbilt University, PMB 351634, Nashville, Tennessee 37235, United States
| | - Craig L Duvall
- Department of Biomedical Engineering, Vanderbilt University, PMB 351634, Nashville, Tennessee 37235, United States
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15
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Goda T, Hatano H, Yamamoto M, Miyahara Y, Morimoto N. Internalization Mechanisms of Pyridinium Sulfobetaine Polymers Evaluated by Induced Protic Perturbations on Cell Surfaces. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2020; 36:9977-9984. [PMID: 32787130 DOI: 10.1021/acs.langmuir.0c01816] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Understanding the interactions of soft nanomatters with cell membranes is particularly important for research into nanocarrier-based drug delivery systems, cell engineering, and subcellular imaging. Most nanoparticles, vesicles, micelles, and polymeric aggregates are internalized into endosomes and, eventually, lysosomes in the cytosol because of energy-dependent endocytic processes. Endocytic uptake substantially limits the access to the cytoplasm where a cargo agent acts. Bypassing the endocytic pathways by direct penetration into plasma membrane barriers would enhance the efficacy of nanomedicines. Some zwitterionic polymer nanoaggregates have been shown to permeate into the cell interior in an energy-independent manner. We have elucidated this phenomenon by observing changes in the biomembrane barrier functions against protons as the smallest indicator and have used these results to further design and develop poly(betaines). In this work, we investigated the translocation mechanisms for a series of zwitterionic poly(methacrylamide) and poly(methacrylate) species bearing a pyridinium propane sulfonate moiety in the monomers. Minor differences in the monomer structures and functional groups were observed to have dramatic effects on the interaction with plasma membranes during translocation. The ability to cross the plasma membrane involves a balance among the betaine dipole-dipole interaction, NH-π interaction, π-π interaction, cation-π interaction, and amide hydrogen bonding. We found that the cell-penetrating polysulfobetaines had limited or no detrimental effect on cell proliferation. Our findings enhance the opportunity to design and synthesize soft nanomatters for cell manipulations by passing across biomembrane partitions.
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Affiliation(s)
- Tatsuro Goda
- Department of Biomedical Engineering, Faculty of Science and Engineering, Toyo University, 2100 Kujirai, Kawagoe, Saitama 350-8585, Japan
- Nano Innovation Institute, Inner Mongolia University for Nationalities, No. 22 HuoLinHe Street, Tongliao, Inner Mongolia 028000, P. R. China
| | - Hiroaki Hatano
- Institute of Biomaterials and Bioengineering, Tokyo Medical and Dental University (TMDU), 2-3-10 Kanda-Surugadai, Chiyoda, Tokyo 101-0062, Japan
| | - Masaya Yamamoto
- Department of Materials Processing, Graduate School of Engineering, Tohoku University, 6-6-02 Aramaki-aza Aoba, Aoba-ku, Sendai 980-8579, Japan
| | - Yuji Miyahara
- Institute of Biomaterials and Bioengineering, Tokyo Medical and Dental University (TMDU), 2-3-10 Kanda-Surugadai, Chiyoda, Tokyo 101-0062, Japan
| | - Nobuyuki Morimoto
- Department of Materials Processing, Graduate School of Engineering, Tohoku University, 6-6-02 Aramaki-aza Aoba, Aoba-ku, Sendai 980-8579, Japan
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16
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Kaneko M, Ishihara K, Nakanishi S. Redox-Active Polymers Connecting Living Microbial Cells to an Extracellular Electrical Circuit. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2020; 16:e2001849. [PMID: 32734709 DOI: 10.1002/smll.202001849] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/20/2020] [Revised: 05/20/2020] [Indexed: 06/11/2023]
Abstract
Microbial electrochemical systems in which metabolic electrons in living microbes have been extracted to or injected from an extracellular electrical circuit have attracted considerable attention as environmentally-friendly energy conversion systems. Since general microbes cannot exchange electrons with extracellular solids, electron mediators are needed to connect living cells to an extracellular electrode. Although hydrophobic small molecules that can penetrate cell membranes are commonly used as electron mediators, they cannot be dissolved at high concentrations in aqueous media. The use of hydrophobic mediators in combination with small hydrophilic redox molecules can substantially increase the efficiency of the extracellular electron transfer process, but this method has side effects, in some cases, such as cytotoxicity and environmental pollution. In this Review, recently-developed redox-active polymers are highlighted as a new type of electron mediator that has less cytotoxicity than many conventional electron mediators. Owing to the design flexibility of polymer structures, important parameters that affect electron transport properties, such as redox potential, the balance of hydrophobicity and hydrophilicity, and electron conductivity, can be systematically regulated.
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Affiliation(s)
- Masahiro Kaneko
- Department of Materials Engineering, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan
| | - Kazuhiko Ishihara
- Department of Materials Engineering, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo, 113-8656, Japan
| | - Shuji Nakanishi
- Research Center for Solar Energy Chemistry, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka, 560-8531, Japan
- Graduate School of Engineering Science Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka, 560-8531, Japan
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17
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Goda T, Miyahara Y, Ishihara K. Phospholipid-mimicking cell-penetrating polymers: principles and applications. J Mater Chem B 2020; 8:7633-7641. [PMID: 32720672 DOI: 10.1039/d0tb01520b] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Understanding the interactions of eukaryotic cellular membranes with nanomaterials is required to construct efficient and safe nanomedicines and molecular bioengineering. Intracellular uptake of nanocarriers by active endocytosis limits the intracellular distribution to the endosomal compartment, impairing the intended biological actions of the cargo molecules. Nonendocytic intracellular migration is another route for nanomaterials with cationic or amphiphilic properties to evade the barrier function of the lipid bilayer plasma membranes. Direct transport of nanomaterials into cells is efficient, but this may cause cytotoxic or biocidal effects by temporarily disrupting the biological membrane barrier. We have recently discovered that nonendocytic internalization of synthetic amphipathic polymer-based nanoaggregates that mimic the structure of natural phospholipids can occur without inducing cytotoxicity. Analysis using a proton leakage assay indicated that the polymer enters cells by amphiphilicity-induced membrane fusion rather than by transmembrane pore formation. These noncytotoxic cell-penetrating polymers may find applications in drug delivery systems, gene transfection, cell therapies, and biomolecular engineering.
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Affiliation(s)
- Tatsuro Goda
- Department of Biomedical Engineering, Faculty of Science and Engineering, Toyo University, 2100 Kujirai, Kawagoe, Saitama 350-8585, Japan.
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18
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Gardey E, Sobotta FH, Hoeppener S, Bruns T, Stallmach A, Brendel JC. Influence of Core Cross-Linking and Shell Composition of Polymeric Micelles on Immune Response and Their Interaction with Human Monocytes. Biomacromolecules 2020; 21:1393-1406. [PMID: 32084317 DOI: 10.1021/acs.biomac.9b01656] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Block copolymer micelles have received increasing attention in the last decades, in particular for their appealing properties in nanomedicine. However, systematic investigations of the interaction between polymeric micelles and immune cells are still rare. Therefore, broader studies comparing the structural effects remain inevitable for a comprehensive understanding of the immune response and for the design of efficient, nonimmunogenic delivery systems. Here, we present novel block copolymer micelles with the same hydrophobic core, based on a copolymer of BA and VDM, and various hydrophilic shells ranging from common PEG derivatives to morpholine-based materials. The influence of these shells on innate immune responses was studied in detail. In addition, we investigated the impact of micelle stability by varying the cross-linking density in the micellar core. Surprisingly, whereas different shells had only a minor impact on immune response, micelles with reduced cross-linking density considerably enhanced the release of cytokines from isolated human monocytes. Moreover, the uptake of non-cross-linked micelles by monocytes was significantly higher as compared to cross-linked materials. Our study emphasizes the importance of the micellar stability on the interaction with the immune system, which is the key for any stealth properties in vivo. Polymers based on morpholines result in a similar low response as the PEG derivative and may represent an interesting alternative to the common PEGylation.
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Affiliation(s)
- Elena Gardey
- Department of Internal Medicine IV (Gastroenterology, Hepatology, and Infectious Diseases), Jena University Hospital, Jena, Germany.,Jena Center for Soft Matter (JCSM), Friedrich Schiller University Jena, Jena, Germany
| | - Fabian H Sobotta
- Laboratory of Organic and Macromolecular Chemistry (IOMC), Friedrich Schiller University Jena, Jena, Germany.,Jena Center for Soft Matter (JCSM), Friedrich Schiller University Jena, Jena, Germany
| | - Stephanie Hoeppener
- Laboratory of Organic and Macromolecular Chemistry (IOMC), Friedrich Schiller University Jena, Jena, Germany.,Jena Center for Soft Matter (JCSM), Friedrich Schiller University Jena, Jena, Germany
| | - Tony Bruns
- Department of Internal Medicine IV (Gastroenterology, Hepatology, and Infectious Diseases), Jena University Hospital, Jena, Germany.,Medical Department III, University Hospital RWTH Aachen, Aachen, Germany
| | - Andreas Stallmach
- Department of Internal Medicine IV (Gastroenterology, Hepatology, and Infectious Diseases), Jena University Hospital, Jena, Germany.,Jena Center for Soft Matter (JCSM), Friedrich Schiller University Jena, Jena, Germany
| | - Johannes C Brendel
- Laboratory of Organic and Macromolecular Chemistry (IOMC), Friedrich Schiller University Jena, Jena, Germany.,Jena Center for Soft Matter (JCSM), Friedrich Schiller University Jena, Jena, Germany
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19
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Lang M, Müller T. Analysis of the Gel Point of Polymer Model Networks by Computer Simulations. Macromolecules 2020. [DOI: 10.1021/acs.macromol.9b02217] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Affiliation(s)
- M. Lang
- Leibniz Institut für Polymerforschung Dresden, Hohe Straße 6, 01069 Dresden, Germany
| | - T. Müller
- Leibniz Institut für Polymerforschung Dresden, Hohe Straße 6, 01069 Dresden, Germany
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20
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Guo Y, Werner M, Li W, Sommer JU, Baulin VA. Shape-Adaptive Single-Chain Nanoparticles Interacting with Lipid Membranes. Macromolecules 2019. [DOI: 10.1021/acs.macromol.9b02102] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Affiliation(s)
- Yachong Guo
- National Laboratory of Solid State Microstructure, Department of Physics, Nanjing University, Nanjing 210093, China
- Kuang Yaming Honors School, Nanjing University, Nanjing 210023, China
| | - Marco Werner
- Leibniz-Institut für Polymerforschung Dresden e.V., Hohe Strasse 6, 01069 Dresden, Germany
| | - Wenfei Li
- National Laboratory of Solid State Microstructure, Department of Physics, Nanjing University, Nanjing 210093, China
| | - Jens-Uwe Sommer
- Leibniz-Institut für Polymerforschung Dresden e.V., Hohe Strasse 6, 01069 Dresden, Germany
- Institute of Theoretical Physics, Technische Universität Dresden, 01069 Dresden, Germany
| | - Vladimir A. Baulin
- Departament d’Enginyeria Quimica, Universitat Rovira i Virgili, 26 Av. dels Paisos Catalans, 43007 Tarragona, Spain
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21
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Zheng Y, Tai W. Insight into the siRNA transmembrane delivery—From cholesterol conjugating to tagging. WILEY INTERDISCIPLINARY REVIEWS-NANOMEDICINE AND NANOBIOTECHNOLOGY 2019; 12:e1606. [DOI: 10.1002/wnan.1606] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2019] [Revised: 11/05/2019] [Accepted: 11/06/2019] [Indexed: 01/25/2023]
Affiliation(s)
- Yan Zheng
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery Ministry of Education, School of Pharmaceutical Sciences, Wuhan University Wuhan China
| | - Wanyi Tai
- Key Laboratory of Combinatorial Biosynthesis and Drug Discovery Ministry of Education, School of Pharmaceutical Sciences, Wuhan University Wuhan China
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22
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Kaneko M, Ishikawa M, Ishihara K, Nakanishi S. Cell-Membrane Permeable Redox Phospholipid Polymers Induce Apoptosis in MDA-MB-231 Human Breast Cancer Cells. Biomacromolecules 2019; 20:4447-4456. [DOI: 10.1021/acs.biomac.9b01184] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Masahiro Kaneko
- Department of Materials Engineering, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
| | - Masahito Ishikawa
- Department of Biomolecular Engineering, Graduate School of Engineering, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8603, Japan
- Research Center for Solar Energy Chemistry, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka 560-8531, Japan
| | - Kazuhiko Ishihara
- Department of Materials Engineering, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
- Department of Bioengineering, School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8656, Japan
| | - Shuji Nakanishi
- Research Center for Solar Energy Chemistry, Osaka University, 1-3 Machikaneyama, Toyonaka, Osaka 560-8531, Japan
- Graduate School of Engineering Science Osaka University, Machikaneyama, Toyonaka, Osaka 560-8531, Japan
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23
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Goda T, Imaizumi Y, Hatano H, Matsumoto A, Ishihara K, Miyahara Y. Translocation Mechanisms of Cell-Penetrating Polymers Identified by Induced Proton Dynamics. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2019; 35:8167-8173. [PMID: 31094202 DOI: 10.1021/acs.langmuir.9b00856] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Unlike the majority of nanomaterials designed for cellular uptake via endocytic pathways, some of the functional nanoparticles and nanospheres directly enter the cytoplasm without overt biomembrane injuries. Previously, we have shown that a water-soluble nanoaggregate composed of amphiphilic random copolymer of 2-methacryloyloxyethyl phosphorylcholine (MPC) and n-butyl methacrylate (BMA), poly(MPC- random-BMA) (PMB), passes live cell membranes in an endocytosis-free manner. Yet, details in its translocation mechanism remain elusive due to the lack of proper analytical methods. To understand this phenomenon experimentally, we elaborated the original pH perturbation assay that is extremely sensitive to the pore formation on cell membranes. The ultimate sensitivity originates from the detection of the smallest indicator H+ (H3O+) passed through the molecularly sized transmembrane pores upon challenge by exogenous reagents. We revealed that water-soluble PMB at the 30 mol % MPC unit (i.e., PMB30W) penetrated into the cytosol of model mammalian cells without any proton leaks, in contrast to conventional cell-penetrating peptides, TAT and R8 as well as the surfactant, Triton X-100. While exposure of PMB30W permeabilized cytoplasmic lactate dehydrogenase out of the cells, indicating the alteration of cell membrane polarity by partitioning of amphiphilic PMB30W into the lipid bilayers. Nevertheless, the biomembrane alterations by PMB30W did not exhibit cytotoxicity. In summary, elucidating translocation mechanisms by proton dynamics will guide the design of nanomaterials with controlled permeabilization to cell membranes for bioengineering applications.
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Affiliation(s)
- Tatsuro Goda
- Institute of Biomaterials and Bioengineering , Tokyo Medical and Dental University (TMDU) , 2-3-10 Kanda-Surugadai , Chiyoda, Tokyo 101-0062 , Japan
- Nano Innovation Institute , Inner Mongolia University for Nationalities , No. 22 HuoLinHe Street , Tongliao , Inner Mongolia 028000 , P. R. China
| | - Yuki Imaizumi
- Institute of Biomaterials and Bioengineering , Tokyo Medical and Dental University (TMDU) , 2-3-10 Kanda-Surugadai , Chiyoda, Tokyo 101-0062 , Japan
| | - Hiroaki Hatano
- Institute of Biomaterials and Bioengineering , Tokyo Medical and Dental University (TMDU) , 2-3-10 Kanda-Surugadai , Chiyoda, Tokyo 101-0062 , Japan
| | - Akira Matsumoto
- Institute of Biomaterials and Bioengineering , Tokyo Medical and Dental University (TMDU) , 2-3-10 Kanda-Surugadai , Chiyoda, Tokyo 101-0062 , Japan
- Kanagawa Institute of Industrial Science and Technology (KISTEC) , 705-1 Shimoimaizumi , Ebina , Kanagawa 243-0435 , Japan
| | | | - Yuji Miyahara
- Institute of Biomaterials and Bioengineering , Tokyo Medical and Dental University (TMDU) , 2-3-10 Kanda-Surugadai , Chiyoda, Tokyo 101-0062 , Japan
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24
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Abstract
This Review illustrates the evaluation of permeability of lipid membranes from molecular dynamics (MD) simulation primarily using water and oxygen as examples. Membrane entrance, translocation, and exit of these simple permeants (one hydrophilic and one hydrophobic) can be simulated by conventional MD, and permeabilities can be evaluated directly by Fick's First Law, transition rates, and a global Bayesian analysis of the inhomogeneous solubility-diffusion model. The assorted results, many of which are applicable to simulations of nonbiological membranes, highlight the limitations of the homogeneous solubility diffusion model; support the utility of inhomogeneous solubility diffusion and compartmental models; underscore the need for comparison with experiment for both simple solvent systems (such as water/hexadecane) and well-characterized membranes; and demonstrate the need for microsecond simulations for even simple permeants like water and oxygen. Undulations, subdiffusion, fractional viscosity dependence, periodic boundary conditions, and recent developments in the field are also discussed. Last, while enhanced sampling methods and increasingly sophisticated treatments of diffusion add substantially to the repertoire of simulation-based approaches, they do not address directly the critical need for force fields with polarizability and multipoles, and constant pH methods.
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Affiliation(s)
- Richard M Venable
- Laboratory of Computational Biology, National Lung, Heart, and Blood Institute , National Institutes of Health , Bethesda , Maryland 20892 , United States
| | - Andreas Krämer
- Laboratory of Computational Biology, National Lung, Heart, and Blood Institute , National Institutes of Health , Bethesda , Maryland 20892 , United States
| | - Richard W Pastor
- Laboratory of Computational Biology, National Lung, Heart, and Blood Institute , National Institutes of Health , Bethesda , Maryland 20892 , United States
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25
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Martin L, Peltier R, Kuroki A, Town JS, Perrier S. Investigating Cell Uptake of Guanidinium-Rich RAFT Polymers: Impact of Comonomer and Monomer Distribution. Biomacromolecules 2018; 19:3190-3200. [DOI: 10.1021/acs.biomac.8b00146] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Affiliation(s)
| | | | | | | | - Sébastien Perrier
- Faculty of Pharmacy and Pharmaceutical Sciences, Monash University, Parkville, Victoria 3052, Australia
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26
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Su CF, Merlitz H, Rabbel H, Sommer JU. Nanoparticles of Various Degrees of Hydrophobicity Interacting with Lipid Membranes. J Phys Chem Lett 2017; 8:4069-4076. [PMID: 28797162 DOI: 10.1021/acs.jpclett.7b01888] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Using coarse-grained molecular dynamics simulations, we study the passive translocation of nanoparticles with a size of about 1 nm and with tunable degrees of hydrophobicity through lipid bilayer membranes. We observe a window of translocation with a sharp maximum for nanoparticles having a hydrophobicity in between hydrophilic and hydrophobic. Passive translocation can be identified as diffusive motion of individual particles in a free energy landscape. By combining direct sampling with umbrella-sampling techniques we calculate the free energy landscape for nanoparticles covering a wide range of hydrophobicities. We show that the directly observed translocation rate of the nanoparticles can be mapped to the mean-escape-rate through the calculated free energy landscape, and the maximum of translocation can be related with the maximally flat free energy landscape. The limiting factor for the translocation rate of nanoparticles having an optimal hydrophobicity can be related with a trapping of the particles in the surface region of the membrane. Here, hydrophobic contacts can be formed but the free energy effort of insertion into the brush-like tail regions can still be avoided. The latter forms a remaining barrier of a few kBT and can be spontaneously surmounted. We further investigate cooperative effects of a larger number of nanoparticles and their impact on the membrane properties such as solvent permeability, area per lipid, and the orientation order of the tails. By calculating the partition of nanoparticles at the phase boundary between water and oil, we map the microscopic parameter of nanoparticle hydrophobicity to an experimentally accessibly partition coefficient. Our studies reveal a generic mechanism for spherical nanoparticles to overcome biological membrane-barriers without the need of biologically activated processes.
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Affiliation(s)
- Chan-Fei Su
- Leibniz-Institut für Polymerforschung Dresden , 01069 Dresden, Germany
- Institute of Theoretical Physics, Technische Universität Dresden , D-01069 Dresden, Germany
| | - Holger Merlitz
- Leibniz-Institut für Polymerforschung Dresden , 01069 Dresden, Germany
- Research Institute for Biomimetics and Soft Matter, Fujian Provincial Key Laboratory for Soft Functional Materials Research, Department of Physics, Xiamen University , Xiamen 361005, China
| | - Hauke Rabbel
- Leibniz-Institut für Polymerforschung Dresden , 01069 Dresden, Germany
| | - Jens-Uwe Sommer
- Leibniz-Institut für Polymerforschung Dresden , 01069 Dresden, Germany
- Institute of Theoretical Physics, Technische Universität Dresden , D-01069 Dresden, Germany
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27
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Ramadurai S, Werner M, Slater NKH, Martin A, Baulin VA, Keyes TE. Dynamic studies of the interaction of a pH responsive, amphiphilic polymer with a DOPC lipid membrane. SOFT MATTER 2017; 13:3690-3700. [PMID: 28327750 DOI: 10.1039/c6sm02645a] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Deeper understanding of the molecular interactions between polymeric materials and the lipid membrane is important across a range of applications from permeation for drug delivery to encapsulation for immuno-evasion. Using highly fluidic microcavity supported lipid bilayers, we studied the interactions between amphiphilic polymer PP50 and a DOPC lipid bilayer. As the PP50 polymer is pH responsive the studies were carried out at pH 6.5, 7.05 and 7.5, corresponding to fully, partly protonated (pH = pKa = 7.05) and fully ionized states of the polymer, respectively. Fluorescence correlation spectroscopy (FCS) using both labelled lipid and polymer revealed the PP50 associates with the bilayer interface across all pHs where its diffusion along the interface is impeded. Both FCS and electrochemical impedance spectroscopy (EIS) data indicate that the PP50 does not penetrate fully into the bilayer core but rather forms a layer at the bilayer aqueous interface reflected in increased resistance and decreased capacitance of the bilayer on PP50 binding. The extent of these effects and the dynamics of binding are influenced by pH, increasing with decreasing pH. These experimental trends concurred with coarse grained Monte Carlo simulations of polymer-bilayer interactions wherein a model hydrophilic polymer backbone grafted with side chains of varying hydrophobicity, to mimic the effect of varying pH, was simulated based on the bond fluctuation model with explicit solvent. Simulation results showed that with increasing hydrophobicity, the polymer penetrated deeper into the contacting bilayer leaflet of the membrane suppressing, consistent with EIS data, solvent permeation and that a full insertion of the polymer into the bilayer core is not necessary for suppression of permeability.
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28
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Klemmer HFM, Allgaier J, Frielinghaus H, Holderer O, Ohl M. Influence of the amphiphilicity profile of copolymers on the formation of liquid crystalline mesophases in microemulsions. Colloid Polym Sci 2017. [DOI: 10.1007/s00396-017-4080-2] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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29
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Kaneko M, Ishikawa M, Hashimoto K, Nakanishi S. Molecular design of cytocompatible amphiphilic redox-active polymers for efficient extracellular electron transfer. Bioelectrochemistry 2017; 114:8-12. [DOI: 10.1016/j.bioelechem.2016.11.001] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2016] [Revised: 10/28/2016] [Accepted: 11/03/2016] [Indexed: 10/20/2022]
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30
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Werner M, Bathmann J, Baulin VA, Sommer JU. Thermal Tunneling of Homopolymers through Amphiphilic Membranes. ACS Macro Lett 2017; 6:247-251. [PMID: 35650921 DOI: 10.1021/acsmacrolett.6b00980] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
We propose a theory to predict the passive translocation of flexible polymers through amphiphilic membranes. By using a generic model for the potential felt by a monomer across the membrane we calculate the free energy profile for homopolymers as a function of their hydrophobicity. Our model explains the translocation window and the translocation rates as a function of chain hydrophobicity in quantitative agreement with simulation results. The potential model leads to a new adsorption transition where chains switch from a one-sided bound adsorbed state into a bridging state through the membrane core by increasing the hydrophobicity beyond a critical value. We demonstrate that the hydrophobicity leading to the fastest translocation coincides with the solution for the critical point of adsorption in the limit of long chains.
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Affiliation(s)
- Marco Werner
- Universitat Rovira i Virgili, Departament d’Enginyeria Quı́mica, Av. Paisos Catalans 26, 43007 Tarragona, Spain
- Leibniz-Institut für Polymerforschung Dresden e.V., Hohe Straße. 6, 01069 Dresden, Germany
| | - Jasper Bathmann
- Technische Universität Dresden, Institute of Theoretical Physics, Zellescher Weg 17, 01069 Dresden, Germany
| | - Vladimir A. Baulin
- Universitat Rovira i Virgili, Departament d’Enginyeria Quı́mica, Av. Paisos Catalans 26, 43007 Tarragona, Spain
| | - Jens-Uwe Sommer
- Leibniz-Institut für Polymerforschung Dresden e.V., Hohe Straße. 6, 01069 Dresden, Germany
- Technische Universität Dresden, Institute of Theoretical Physics, Zellescher Weg 17, 01069 Dresden, Germany
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31
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Wengenmayr M, Dockhorn R, Sommer JU. Multicore Unimolecular Structure Formation in Single Dendritic–Linear Copolymers under Selective Solvent Conditions. Macromolecules 2016. [DOI: 10.1021/acs.macromol.6b01712] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Affiliation(s)
- Martin Wengenmayr
- Leibniz Institute
of Polymer Research Dresden, Hohe Strasse
6, 01069 Dresden, Germany
- Institute
for Theoretical Physics, Technische Universität Dresden, 01069 Dresden, Germany
| | - Ron Dockhorn
- Leibniz Institute
of Polymer Research Dresden, Hohe Strasse
6, 01069 Dresden, Germany
- Institute
for Theoretical Physics, Technische Universität Dresden, 01069 Dresden, Germany
| | - Jens-Uwe Sommer
- Leibniz Institute
of Polymer Research Dresden, Hohe Strasse
6, 01069 Dresden, Germany
- Institute
for Theoretical Physics, Technische Universität Dresden, 01069 Dresden, Germany
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32
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Fischer WB, Kalita MM, Heermann D. Viral channel forming proteins--How to assemble and depolarize lipid membranes in silico. BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES 2016; 1858:1710-21. [PMID: 26806161 PMCID: PMC7094687 DOI: 10.1016/j.bbamem.2016.01.018] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/17/2015] [Revised: 01/14/2016] [Accepted: 01/18/2016] [Indexed: 01/23/2023]
Abstract
Viral channel forming proteins (VCPs) have been discovered in the late 70s and are found in many viruses to date. Usually they are small and have to assemble to form channels which depolarize the lipid membrane of the host cells. Structural information is just about to emerge for just some of them. Thus, computational methods play a pivotal role in generating plausible structures which can be used in the drug development process. In this review the accumulation of structural data is introduced from a historical perspective. Computational performances and their predictive power are reported guided by biological questions such as the assembly, mechanism of function and drug–protein interaction of VCPs. An outlook of how coarse grained simulations can contribute to yet unexplored issues of these proteins is given. This article is part of a Special Issue entitled: Membrane Proteins edited by J.C. Gumbart and Sergei Noskov. Early references about the discovery of viral channel forming proteins. Latest structural information about the class of proteins. Identification of structural motifs, assembly mechanism of function and drug action using computational methods. Outlook for the use of coarse grained techniques to address assembly and integration into cellular processes.
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Affiliation(s)
- Wolfgang B Fischer
- Institute of Biophotonics, School of Biomedical Science and Engineering, National Yang-Ming University, Taipei 112, Taiwan; Biophotonics & Molecular Imaging Center (BMIRC), National Yang-Ming University, Taipei 112, Taiwan.
| | - Monoj Mon Kalita
- Institute of Biophotonics, School of Biomedical Science and Engineering, National Yang-Ming University, Taipei 112, Taiwan; Biophotonics & Molecular Imaging Center (BMIRC), National Yang-Ming University, Taipei 112, Taiwan
| | - Dieter Heermann
- Institute of Biophotonics, School of Biomedical Science and Engineering, National Yang-Ming University, Taipei 112, Taiwan; Biophotonics & Molecular Imaging Center (BMIRC), National Yang-Ming University, Taipei 112, Taiwan
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33
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Rabbel H, Werner M, Sommer JU. Interactions of Amphiphilic Triblock Copolymers with Lipid Membranes: Modes of Interaction and Effect on Permeability Examined by Generic Monte Carlo Simulations. Macromolecules 2015. [DOI: 10.1021/acs.macromol.5b00720] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Affiliation(s)
- Hauke Rabbel
- Leibniz-Institut
für Polymerforschung Dresden e.V., Hohe Str. 6, 01069 Dresden, Germany
| | - Marco Werner
- Leibniz-Institut
für Polymerforschung Dresden e.V., Hohe Str. 6, 01069 Dresden, Germany
| | - Jens-Uwe Sommer
- Leibniz-Institut
für Polymerforschung Dresden e.V., Hohe Str. 6, 01069 Dresden, Germany
- Technische Universität Dresden, Institute of
Theoretical Physics, 01069 Dresden, Germany
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