1
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Staňo R, Likos CN, Egorov SA. Mixing Linear Polymers with Rings and Catenanes: Bulk and Interfacial Behavior. Macromolecules 2023; 56:8168-8182. [PMID: 37900098 PMCID: PMC10601540 DOI: 10.1021/acs.macromol.3c01267] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2023] [Revised: 09/11/2023] [Indexed: 10/31/2023]
Abstract
We derive and parameterize effective interaction potentials between a multitude of different types of ring polymers and linear chains, varying the bending rigidity and solvent quality for the former species. We further develop and apply a density functional treatment for mixtures of both disconnected (chain-ring) and connected (chain-polycatenane) mixtures of the same, drawing coexistence binodals and exploring the ensuing response functions as well as the interface and wetting behavior of the mixtures. We show that worsening of the solvent quality for the rings brings about a stronger propensity for macroscopic phase separation in the linear-polycatenane mixtures, which is predominantly of the demixing type between phases of similar overall particle density. We formulate a simple criterion based on the effective interactions, allowing us to determine whether any specific linear-ring mixture will undergo a demixing phase separation.
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Affiliation(s)
- Roman Staňo
- Faculty
of Physics, University of Vienna, Boltzmanngasse 5, 1090 Vienna, Austria
- Vienna
Doctoral School in Physics, University of
Vienna, Boltzmanngasse 5, 1090 Vienna, Austria
| | - Christos N. Likos
- Faculty
of Physics, University of Vienna, Boltzmanngasse 5, 1090 Vienna, Austria
| | - Sergei A. Egorov
- Department
of Chemistry, University of Virginia, Charlottesville, Virginia 22901, United States
- Erwin
Schrödinger International Institute for Mathematics and Physics, Boltzmanngasse 9, 1090 Vienna, Austria
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2
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Goto S, Kim K, Matubayasi N. Effects of chain length on Rouse modes and non-Gaussianity in linear and ring polymer melts. J Chem Phys 2021; 155:124901. [PMID: 34598563 DOI: 10.1063/5.0061281] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The dynamics of ring polymer melts are studied via molecular dynamics simulations of the Kremer-Grest bead-spring model. Rouse mode analysis is performed in comparison with linear polymers by changing the chain length. Rouse-like behavior is observed in ring polymers by quantifying the chain length dependence of the Rouse relaxation time, whereas a crossover from Rouse to reptation behavior is observed in linear polymers. Furthermore, the non-Gaussian parameters of the monomer bead displacement and chain center-of-mass displacement are analyzed. It is found that the non-Gaussianity of ring polymers is remarkably suppressed with slight growth for the center-of-mass dynamics at long chain length, which is in contrast to the growth in linear polymers for both the monomer bead and center-of-mass dynamics.
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Affiliation(s)
- Shota Goto
- Division of Chemical Engineering, Department of Materials Engineering Science, Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka 560-8531, Japan
| | - Kang Kim
- Division of Chemical Engineering, Department of Materials Engineering Science, Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka 560-8531, Japan
| | - Nobuyuki Matubayasi
- Division of Chemical Engineering, Department of Materials Engineering Science, Graduate School of Engineering Science, Osaka University, Toyonaka, Osaka 560-8531, Japan
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3
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Kang J, Zhu J, Lin J, Han C, Liu K, Wang X. Ring Size-Dependent Solution Behavior of Macrocycles: Dipole–Dipole Attraction Counteracted by Excluded Volume Repulsion. Macromolecules 2021. [DOI: 10.1021/acs.macromol.1c01063] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Affiliation(s)
- Jing Kang
- State Key Laboratory of Supramolecular Structure and Materials, College of Chemistry, Jilin University, Changchun 130012, P. R. China
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
| | - Junli Zhu
- Shanghai Key Laboratory of Advanced Polymeric Materials, Key Laboratory for Ultrafine Materials of Ministry of Education, School of Materials Science and Engineering, East China University of Science and Technology, Shanghai 200237, P. R. China
| | - Jiaping Lin
- Shanghai Key Laboratory of Advanced Polymeric Materials, Key Laboratory for Ultrafine Materials of Ministry of Education, School of Materials Science and Engineering, East China University of Science and Technology, Shanghai 200237, P. R. China
| | - Chenglong Han
- State Key Laboratory of Supramolecular Structure and Materials, College of Chemistry, Jilin University, Changchun 130012, P. R. China
| | - Kun Liu
- State Key Laboratory of Supramolecular Structure and Materials, College of Chemistry, Jilin University, Changchun 130012, P. R. China
| | - Xiaosong Wang
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario N2L 3G1, Canada
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4
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Zhu Y, Kumar PBS, Laradji M. Conformational behavior and self-assembly of disjoint semi-flexible ring polymers adsorbed on solid substrates. SOFT MATTER 2021; 17:5427-5435. [PMID: 33969850 DOI: 10.1039/d1sm00500f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
The conformational behavior and spatial organization of self-avoiding semi-flexible ring polymers, that are fully adsorbed on solid substrates, are investigated via systematic coarse-grained molecular dynamics simulations. Our results show that both conformations and spatial organization of the polymers depend strongly on their bending stiffness, κ, and on their areal number density, ρ. For ρ < ρ*, where ρ* is the overlap density, and for low values of κ, thermal fluctuations lead to weakly anisotropic instantaneous conformations of the polymers. The interplay between thermal fluctuations and polymer stiffness leads to a non-monotonic dependence of the polymers elongation on κ with a maximum elongation at some intermediate κ. Regardless of κ, the polymers elongation is almost independent of ρ for ρ ⪅ ρ*, then increases with ρ. At ρ ≈ ρ* and high κ, the almost circularly-shaped polymers self-assemble into a triangular lattice with quasi-long range order. For ρ above ρ* and high κ, crowding of the polymers leads to their self-assembly into liquid-crystalline phases. In particular, for ρ moderately above ρ* and high κ, the polymer conformations are obround and self-assemble into domains with smectic-A-like order. At higher densities, the polymer have a biconcave geometry and self-assemble into domains with smectic-C-like order.
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Affiliation(s)
- Yu Zhu
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
| | - P B Sunil Kumar
- Department of Physics, Indian Institute of Technology Palakkad, Palakkad-668557, Kerala, India
| | - Mohamed Laradji
- Department of Physics and Materials Science, The University of Memphis, Memphis, TN 38152, USA.
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5
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Trachsel L, Romio M, Zenobi-Wong M, Benetti EM. Hydrogels Generated from Cyclic Poly(2-Oxazoline)s Display Unique Swelling and Mechanical Properties. Macromol Rapid Commun 2020; 42:e2000658. [PMID: 33326133 DOI: 10.1002/marc.202000658] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2020] [Revised: 11/20/2020] [Indexed: 12/14/2022]
Abstract
Cyclic macromolecules do not feature chain ends and are characterized by a higher effective intramolecular repulsion between polymer segments, leading to a higher excluded-volume effect and greater hydration with respect to their linear counterparts. As a result of these unique properties, hydrogels composed of cross-linked cyclic polymers feature enhanced mechanical strength while simultaneously incorporating more solvent with respect to networks formed from their linear analogues with identical molar mass and chemical composition. The translation of topology effects by cyclic polymers into the properties of polymer networks provides hydrogels that ideally do not include defects, such as dangling chain ends, and display unprecedented physicochemical characteristics.
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Affiliation(s)
- Lucca Trachsel
- Tissue Engineering + Biofabrication Laboratory, Department of Health Sciences and Technology, ETH Zürich, Zürich, 8093, Switzerland
| | - Matteo Romio
- Laboratory for Surface Science and Technology, Department of Materials, ETH Zürich, Vladimir-Prelog-Weg 5, Zürich, 8093, Switzerland.,Biointerfaces, Swiss Federal Laboratories for Materials Science and Technology (Empa), Lerchenfeldstrasse 5, CH-9014 St., Gallen, Switzerland
| | - Marcy Zenobi-Wong
- Tissue Engineering + Biofabrication Laboratory, Department of Health Sciences and Technology, ETH Zürich, Zürich, 8093, Switzerland
| | - Edmondo M Benetti
- Laboratory for Surface Science and Technology, Department of Materials, ETH Zürich, Vladimir-Prelog-Weg 5, Zürich, 8093, Switzerland.,Biointerfaces, Swiss Federal Laboratories for Materials Science and Technology (Empa), Lerchenfeldstrasse 5, CH-9014 St., Gallen, Switzerland
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6
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Liebetreu M, Likos CN. Cluster prevalence in concentrated ring-chain mixtures under shear. SOFT MATTER 2020; 16:8710-8719. [PMID: 32996544 DOI: 10.1039/d0sm01309a] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Semiflexible ring polymers are known to exhibit clustering behavior and form stacks in concentrated solutions. Recently, weak shear was suggested to re-orient these stacks with flow, a phenomenon more easily visible in more concentrated solutions [Liebetreu et al., ACS Appl. Polym. Mater., 2020, 2(8), 3505-3517, DOI: 10.1021/acsapm.0c00522]. In this work, we investigate the impact of mixing linear chains and rings in a similar system under shear, studying clustering in the presence of semiflexible, rod-like chains. We present a correlation between chain monomer fraction and clustering behavior as linear chains take up less space, thus decreasing the system's effective density and, subsequently, clustering. However, we suggest mixtures with a low chain concentration to maintain or potentially enhance clustering at equilibrium while this effect is destroyed under shear. The mixing of chains and rings may therefore be used to create more strongly organized structures susceptible to reorientation via weak shear.
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Affiliation(s)
- Maximilian Liebetreu
- Faculty of Physics, University of Vienna, Boltzmanngasse 5, 1090 Vienna, Austria.
| | - Christos N Likos
- Faculty of Physics, University of Vienna, Boltzmanngasse 5, 1090 Vienna, Austria.
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7
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Trachsel L, Romio M, Grob B, Zenobi-Wong M, Spencer ND, Ramakrishna SN, Benetti EM. Functional Nanoassemblies of Cyclic Polymers Show Amplified Responsiveness and Enhanced Protein-Binding Ability. ACS NANO 2020; 14:10054-10067. [PMID: 32628438 DOI: 10.1021/acsnano.0c03239] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
The physicochemical properties of cyclic polymer adsorbates are significantly influenced by the steric and conformational constraints introduced during their cyclization. These translate into a marked difference in interfacial properties between cyclic polymers and their linear counterparts when they are grafted onto surfaces yielding nanoassemblies or polymer brushes. This difference is particularly clear in the case of cyclic polymer brushes that are designed to chemically interact with the surrounding environment, for instance, by associating with biological components present in the medium, or, alternatively, through a response to a chemical stimulus by a significant change in their properties. The intrinsic architecture characterizing cyclic poly(2-oxazoline)-based polyacid brushes leads to a broad variation in swelling and nanomechanical properties in response to pH change, in comparison with their linear analogues of identical composition and molecular weight. In addition, cyclic glycopolymer brushes derived from polyacids reveal an enhanced exposure of galactose units at the surface, due to their expanded topology, and thus display an increased lectin-binding ability with respect to their linear counterparts. This combination of amplified responsiveness and augmented protein-binding capacity renders cyclic brushes invaluable building blocks for the design of "smart" materials and functional biointerfaces.
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Affiliation(s)
- Lucca Trachsel
- Tissue Engineering + Biofabrication Laboratory, Department of Health Sciences and Technology, ETH Zürich, 8093 Zürich, Switzerland
| | - Matteo Romio
- Biointerfaces, Swiss Federal Laboratories for Materials Science and Technology (Empa), Lerchenfeldstrasse 5, CH-9014 St. Gallen, Switzerland
- Laboratory for Surface Science and Technology, Department of Materials, ETH Zürich; Vladimir-Prelog-Weg 5, 8093 Zürich, Switzerland
| | - Benjamin Grob
- Laboratory for Surface Science and Technology, Department of Materials, ETH Zürich; Vladimir-Prelog-Weg 5, 8093 Zürich, Switzerland
| | - Marcy Zenobi-Wong
- Tissue Engineering + Biofabrication Laboratory, Department of Health Sciences and Technology, ETH Zürich, 8093 Zürich, Switzerland
| | - Nicholas D Spencer
- Laboratory for Surface Science and Technology, Department of Materials, ETH Zürich; Vladimir-Prelog-Weg 5, 8093 Zürich, Switzerland
| | - Shivaprakash N Ramakrishna
- Laboratory for Surface Science and Technology, Department of Materials, ETH Zürich; Vladimir-Prelog-Weg 5, 8093 Zürich, Switzerland
| | - Edmondo M Benetti
- Biointerfaces, Swiss Federal Laboratories for Materials Science and Technology (Empa), Lerchenfeldstrasse 5, CH-9014 St. Gallen, Switzerland
- Laboratory for Surface Science and Technology, Department of Materials, ETH Zürich; Vladimir-Prelog-Weg 5, 8093 Zürich, Switzerland
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8
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Romio M, Trachsel L, Morgese G, Ramakrishna SN, Spencer ND, Benetti EM. Topological Polymer Chemistry Enters Materials Science: Expanding the Applicability of Cyclic Polymers. ACS Macro Lett 2020; 9:1024-1033. [PMID: 35648599 DOI: 10.1021/acsmacrolett.0c00358] [Citation(s) in RCA: 26] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
Polymer-topology effects can alter technologically relevant properties when cyclic macromolecules are applied within diverse materials formulations. These include coatings, polymer networks, or nanostructures for delivering therapeutics. While substituting linear building blocks with cyclic analogues in commonly studied materials is itself of fundamental interest, an even more fascinating observation has been that the introduction of physical or chemical boundaries (e.g., a grafting surface or cross-links) can amplify the topology-related effects observed when employing cyclic polymer-based precursors for assembling multidimensional objects. Hence, the application of cyclic polymers has enabled the fabrication of coatings with enhanced biorepellency and superior lubricity, broadened the tuning potential for mechanical properties of polymer networks, increased the thermodynamic stability, and altered the capability of loading and releasing drugs within polymeric micelles.
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Affiliation(s)
- Matteo Romio
- Laboratory for Surface Science and Technology, Department of Materials, Swiss Federal Institute of Technology (ETH Zürich), Vladimir-Prelog-Weg 5, 8093 Zurich, Switzerland
- Biointerfaces, Swiss Federal Laboratories for Materials Science and Technology (Empa), Lerchenfeldstrasse 5, CH-9014 St. Gallen, Switzerland
| | - Lucca Trachsel
- Laboratory for Surface Science and Technology, Department of Materials, Swiss Federal Institute of Technology (ETH Zürich), Vladimir-Prelog-Weg 5, 8093 Zurich, Switzerland
- Tissue Engineering + Biofabrication Laboratory, Department of Health Sciences and Technology, ETH Zürich, 8093 Zürich, Switzerland
| | - Giulia Morgese
- Laboratory for Surface Science and Technology, Department of Materials, Swiss Federal Institute of Technology (ETH Zürich), Vladimir-Prelog-Weg 5, 8093 Zurich, Switzerland
| | - Shivaprakash N. Ramakrishna
- Laboratory for Surface Science and Technology, Department of Materials, Swiss Federal Institute of Technology (ETH Zürich), Vladimir-Prelog-Weg 5, 8093 Zurich, Switzerland
| | - Nicholas D. Spencer
- Laboratory for Surface Science and Technology, Department of Materials, Swiss Federal Institute of Technology (ETH Zürich), Vladimir-Prelog-Weg 5, 8093 Zurich, Switzerland
| | - Edmondo M. Benetti
- Laboratory for Surface Science and Technology, Department of Materials, Swiss Federal Institute of Technology (ETH Zürich), Vladimir-Prelog-Weg 5, 8093 Zurich, Switzerland
- Biointerfaces, Swiss Federal Laboratories for Materials Science and Technology (Empa), Lerchenfeldstrasse 5, CH-9014 St. Gallen, Switzerland
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9
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Ahmadian Dehaghani Z, Chubak I, Likos CN, Ejtehadi MR. Effects of topological constraints on linked ring polymers in solvents of varying quality. SOFT MATTER 2020; 16:3029-3038. [PMID: 32129365 DOI: 10.1039/c9sm02374g] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
We investigate the effects of topological constraints in catenanes composed of interlinked ring polymers on their size in a good solvent as well as on the location of their θ-point when the solvent quality is worsened. We mainly focus on poly[n]catenanes consisting of n ring polymers each of length m interlocked in a linear fashion. Using molecular dynamics simulations, we study the scaling of the poly[n]catenane's radius of gyration in a good solvent, assuming in general that Rg∼mμnν and we find that μ = 0.65 ± 0.02 and ν = 0.60 ± 0.01 for the range of n and m considered. These findings are further rationalized with the help of a mean-field Flory-like theory yielding the values of μ = 16/25 and ν = 3/5, consistent with the numerical results. We show that individual rings within catenanes feature a surplus swelling due to the presence of NL topological links. Furthermore, we consider poly[n]catenanes in solvents of varying quality and we demonstrate that the presence of topological links leads to an increase of its θ-temperature in comparison to isolated linear and ring chains with the following ordering: T > T > T. Finally, we show that the presence of links similarly raises the θ-temperature of a single linked ring in comparison to an unlinked one, bringing its θ-temperature close to the one of a poly[n]catenane.
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10
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Gartner TE, Haque FM, Gomi AM, Grayson SM, Hore MJA, Jayaraman A. Scaling Exponent and Effective Interactions in Linear and Cyclic Polymer Solutions: Theory, Simulations, and Experiments. Macromolecules 2019. [DOI: 10.1021/acs.macromol.9b00600] [Citation(s) in RCA: 23] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
| | - Farihah M. Haque
- Department of Chemistry, Tulane University, New Orleans, Louisiana 70118, United States
| | - Aila M. Gomi
- Department of Macromolecular Science and Engineering, Case Western Reserve University, Cleveland, Ohio 44106, United States
| | - Scott M. Grayson
- Department of Chemistry, Tulane University, New Orleans, Louisiana 70118, United States
| | - Michael J. A. Hore
- Department of Macromolecular Science and Engineering, Case Western Reserve University, Cleveland, Ohio 44106, United States
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11
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Divandari M, Trachsel L, Yan W, Rosenboom JG, Spencer ND, Zenobi-Wong M, Morgese G, Ramakrishna SN, Benetti EM. Surface Density Variation within Cyclic Polymer Brushes Reveals Topology Effects on Their Nanotribological and Biopassive Properties. ACS Macro Lett 2018; 7:1455-1460. [PMID: 35651229 DOI: 10.1021/acsmacrolett.8b00847] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
While topology effects by cyclic polymers in solution and melts are well-known, their translation into the interfacial properties of polymer "brushes" provides new opportunities to impart enhanced surface lubricity and biopassivity to inorganic surfaces, above and beyond that expected for linear analogues of identical composition. The impact of polymer topology on the nanotribological and protein-resistance properties of polymer brushes is revealed by studying linear and cyclic poly(2-ethyl-2-oxazoline) (PEOXA) grafts presenting a broad range of surface densities and while shearing them alternatively against an identical brush or a bare inorganic surface. The intramolecular constraints introduced by the cyclization provide a valuable increment in both steric stabilization and load-bearing capacity for cyclic brushes. Moreover, the intrinsic absence of chain ends within cyclic adsorbates hinders interpenetration between opposing brushes, as they are slid over each other, leading to a reduction in the friction coefficient (μ) at higher pressures, a phenomenon not observed for linear grafts. The application of cyclic polymers for the modification of inorganic surfaces generates films that outperform both the nanotribological and biopassive properties of linear brushes, significantly expanding the design possibilities for synthetic biointerfaces.
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Affiliation(s)
- Mohammad Divandari
- Polymer Surfaces Group, Laboratory for Surface Science and Technology, Department of Materials, ETH Zürich, Zürich, Switzerland
| | - Lucca Trachsel
- Polymer Surfaces Group, Laboratory for Surface Science and Technology, Department of Materials, ETH Zürich, Zürich, Switzerland
- Tissue Engineering and Biofabrication, Department of Health Sciences and Technology, ETH Zürich, Zürich, Switzerland
| | - Wenqing Yan
- Polymer Surfaces Group, Laboratory for Surface Science and Technology, Department of Materials, ETH Zürich, Zürich, Switzerland
| | - Jan-Georg Rosenboom
- Institute of Chemical and Bioengineering, Department of Chemistry and Applied Biosciences, ETH Zürich, Zürich, Switzerland
| | - Nicholas D. Spencer
- Polymer Surfaces Group, Laboratory for Surface Science and Technology, Department of Materials, ETH Zürich, Zürich, Switzerland
| | - Marcy Zenobi-Wong
- Tissue Engineering and Biofabrication, Department of Health Sciences and Technology, ETH Zürich, Zürich, Switzerland
| | - Giulia Morgese
- Institute for Complex Molecular Systems, Technical University of Eindhoven (TU/e), Eindhoven, The Netherlands
| | - Shivaprakash N. Ramakrishna
- Polymer Surfaces Group, Laboratory for Surface Science and Technology, Department of Materials, ETH Zürich, Zürich, Switzerland
| | - Edmondo M. Benetti
- Polymer Surfaces Group, Laboratory for Surface Science and Technology, Department of Materials, ETH Zürich, Zürich, Switzerland
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12
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Affiliation(s)
- Iurii Chubak
- Faculty of Physics, University of Vienna, Vienna, Austria
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13
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Puskas JE, Sen S. Synthesis of Biodegradable Polyisobutylene Disulfides by Living Reversible Recombination Radical Polymerization (R3P): Macrocycles? Macromolecules 2017. [DOI: 10.1021/acs.macromol.6b02397] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023]
Affiliation(s)
- Judit E. Puskas
- Chemical and Biomolecular
Engineering, The University of Akron, Akron, Ohio 44325, United States
| | - Sanghamitra Sen
- Chemical and Biomolecular
Engineering, The University of Akron, Akron, Ohio 44325, United States
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14
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Alkayal N, Zhang Z, Bilalis P, Gnanou Y, Hadjichristidis N. Polyethylene-Based Tadpole Copolymers. MACROMOL CHEM PHYS 2017. [DOI: 10.1002/macp.201600568] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Nazeeha Alkayal
- Physical Sciences and Engineering Division; KAUST Catalysis Center; Polymer Synthesis Laboratory; King Abdullah University of Science and Technology (KAUST); Thuwal 23955 Saudi Arabia
| | - Zhen Zhang
- Physical Sciences and Engineering Division; KAUST Catalysis Center; Polymer Synthesis Laboratory; King Abdullah University of Science and Technology (KAUST); Thuwal 23955 Saudi Arabia
| | - Panayiotis Bilalis
- Physical Sciences and Engineering Division; KAUST Catalysis Center; Polymer Synthesis Laboratory; King Abdullah University of Science and Technology (KAUST); Thuwal 23955 Saudi Arabia
| | - Yves Gnanou
- Physical Sciences and Engineering Division; King Abdullah University of Science and Technology (KAUST); Thuwal 23955 Saudi Arabia
| | - Nikos Hadjichristidis
- Physical Sciences and Engineering Division; KAUST Catalysis Center; Polymer Synthesis Laboratory; King Abdullah University of Science and Technology (KAUST); Thuwal 23955 Saudi Arabia
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15
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Du P, Li A, Li X, Zhang Y, Do C, He L, Rick SW, John VT, Kumar R, Zhang D. Aggregation of cyclic polypeptoids bearing zwitterionic end-groups with attractive dipole–dipole and solvophobic interactions: a study by small-angle neutron scattering and molecular dynamics simulation. Phys Chem Chem Phys 2017; 19:14388-14400. [DOI: 10.1039/c7cp01602f] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The aggregation behavior of cyclic polypeptoids has been studied using experiments and simulations.
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Affiliation(s)
- Pu Du
- Department of Chemistry and Macromolecular Studies Group
- Louisiana State University
- Baton Rouge
- USA
| | - Ang Li
- Department of Chemistry and Macromolecular Studies Group
- Louisiana State University
- Baton Rouge
- USA
| | - Xin Li
- Department of Chemistry and Macromolecular Studies Group
- Louisiana State University
- Baton Rouge
- USA
| | - Yueheng Zhang
- Department of Chemical and Biomolecular Engineering
- Tulane University
- New Orleans
- USA
| | - Changwoo Do
- Biology and Soft Matter Division
- Neutron Sciences Directorate
- Oak Ridge National Laboratory
- Oak Ridge
- USA
| | - Lilin He
- Biology and Soft Matter Division
- Neutron Sciences Directorate
- Oak Ridge National Laboratory
- Oak Ridge
- USA
| | - Steven W. Rick
- Department of Chemistry
- University of New Orleans
- New Orleans
- USA
| | - Vijay T. John
- Department of Chemical and Biomolecular Engineering
- Tulane University
- New Orleans
- USA
| | - Revati Kumar
- Department of Chemistry and Macromolecular Studies Group
- Louisiana State University
- Baton Rouge
- USA
| | - Donghui Zhang
- Department of Chemistry and Macromolecular Studies Group
- Louisiana State University
- Baton Rouge
- USA
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16
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Kammiyada H, Ouchi M, Sawamoto M. A convergent approach to ring polymers with narrow molecular weight distributions through post dilution in ring expansion cationic polymerization. Polym Chem 2016. [DOI: 10.1039/c6py01683a] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
In this paper, we demonstrate a convergent approach to convert “fused” ring chains obtained via ring expansion cationic polymerization of vinyl ether with a hemiacetal ester (HAE)-based ring initiator (1) into “sing” ring ones of narrow MWDs.
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Affiliation(s)
- Hajime Kammiyada
- Department of Polymer Chemistry
- Graduate School of Engineering
- Kyoto University
- Kyoto 615-8510
- Japan
| | - Makoto Ouchi
- Department of Polymer Chemistry
- Graduate School of Engineering
- Kyoto University
- Kyoto 615-8510
- Japan
| | - Mitsuo Sawamoto
- Department of Polymer Chemistry
- Graduate School of Engineering
- Kyoto University
- Kyoto 615-8510
- Japan
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17
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Ye X, Zhou Z, Nie Y, Ma P, Hao T, Yang W, Lu H. Comparative Study on Dynamical Heterogeneity of Ring and Linear Polymers. MACROMOL THEOR SIMUL 2015. [DOI: 10.1002/mats.201500042] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Affiliation(s)
- Xubo Ye
- School of Materials Science and Engineering; Jiangsu University; 301 Xuefu Road Zhenjiang 212013 China
| | - Zhiping Zhou
- School of Materials Science and Engineering; Jiangsu University; 301 Xuefu Road Zhenjiang 212013 China
| | - Yijing Nie
- School of Materials Science and Engineering; Jiangsu University; 301 Xuefu Road Zhenjiang 212013 China
| | - Ping Ma
- School of Materials Science and Engineering; Jiangsu University; 301 Xuefu Road Zhenjiang 212013 China
| | - Tongfan Hao
- School of Materials Science and Engineering; Jiangsu University; 301 Xuefu Road Zhenjiang 212013 China
| | - Wenming Yang
- School of Materials Science and Engineering; Jiangsu University; 301 Xuefu Road Zhenjiang 212013 China
| | - Haifeng Lu
- School of Materials Science and Engineering; Jiangsu University; 301 Xuefu Road Zhenjiang 212013 China
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18
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Iwaki T, Ishido T, Hirano K, Lazutin AA, Vasilevskaya VV, Kenmotsu T, Yoshikawa K. Marked difference in conformational fluctuation between giant DNA molecules in circular and linear forms. J Chem Phys 2015; 142:145101. [PMID: 25877594 DOI: 10.1063/1.4916309] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023] Open
Abstract
We performed monomolecular observations on linear and circular giant DNAs (208 kbp) in an aqueous solution by the use of fluorescence microscopy. The results showed that the degree of conformational fluctuation in circular DNA was ca. 40% less than that in linear DNA, although the long-axis length of circular DNA was only 10% smaller than that of linear DNA. Additionally, the relaxation time of a circular chain was shorter than that of a linear chain by at least one order of magnitude. The essential features of this marked difference between linear and circular DNAs were reproduced by numerical simulations on a ribbon-like macromolecule as a coarse-grained model of a long semiflexible, double-helical DNA molecule. In addition, we calculated the radius of gyration of an interacting chain in a circular form on the basis of the mean field model, which provides a better understanding of the present experimental trend than a traditional theoretical equation.
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Affiliation(s)
- Takafumi Iwaki
- Faculty of Medicine, Oita University, Hasama-cho Idaigaoka 1-1, Yufu, Oita 879-5593, Japan
| | - Tomomi Ishido
- AIST Shikoku, Hayashi-cho 2217-14, Takamatsu, Kagawa 761-0395, Japan
| | - Ken Hirano
- AIST Shikoku, Hayashi-cho 2217-14, Takamatsu, Kagawa 761-0395, Japan
| | - Alexei A Lazutin
- A.N. Nesmeyanov Institute of Organoelement Compounds, Vavilova Street 28, V-334, GSP-1, Moscow 119991, Russia
| | - Valentina V Vasilevskaya
- A.N. Nesmeyanov Institute of Organoelement Compounds, Vavilova Street 28, V-334, GSP-1, Moscow 119991, Russia
| | - Takahiro Kenmotsu
- Faculty of Life and Medical Science, Doshisha Universiy, Tatara Miyakodani 1-3, Kyotanabe, Kyoto 610-0321, Japan
| | - Kenichi Yoshikawa
- Faculty of Life and Medical Science, Doshisha Universiy, Tatara Miyakodani 1-3, Kyotanabe, Kyoto 610-0321, Japan
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19
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Slimani MZ, Bacova P, Bernabei M, Narros A, Likos CN, Moreno AJ. Cluster Glasses of Semiflexible Ring Polymers. ACS Macro Lett 2014; 3:611-616. [PMID: 25083314 PMCID: PMC4111402 DOI: 10.1021/mz500117v] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2014] [Accepted: 06/10/2014] [Indexed: 12/19/2022]
Abstract
We present computer simulations of concentrated solutions of unknotted nonconcatenated semiflexible ring polymers. Unlike in their flexible counterparts, shrinking involves a strong energetic penalty, favoring interpenetration and clustering of the rings. We investigate the slow dynamics of the centers-of-mass of the rings in the amorphous cluster phase, consisting of disordered columns of oblate rings penetrated by bundles of prolate ones. Scattering functions reveal a striking decoupling of self- and collective motions. Correlations between centers-of-mass exhibit slow relaxation, as expected for an incipient glass transition, indicating the dynamic arrest of the cluster positions. However, self-correlations decay at much shorter time scales. This feature is a manifestation of the fast, continuous exchange and diffusion of the individual rings over the matrix of clusters. Our results reveal a novel scenario of glass formation in a simple monodisperse system, characterized by self-collective decoupling, soft caging, and mild dynamic heterogeneity.
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Affiliation(s)
- Mohammed Zakaria Slimani
- Donostia International Physics Center, Paseo Manuel de Lardizabal 4, E-20018 San Sebastián, Spain
| | - Petra Bacova
- Departamento
de Física de Materiales, Universidad del País Vasco (UPV/EHU), Apartado 1072, E-20080 San Sebastián, Spain
- Materials Physics Center MPC, Paseo
Manuel de Lardizabal 5, E-20018 San Sebastián, Spain
| | - Marco Bernabei
- Donostia International Physics Center, Paseo Manuel de Lardizabal 4, E-20018 San Sebastián, Spain
- Departament
de Fisica Fonamental, Universitat de Barcelona, Martí i Franquès 1, E-08028 Barcelona, Spain
| | - Arturo Narros
- Faculty
of Physics, University of Vienna, Boltzmanngasse 5, A-1090 Vienna, Austria
| | - Christos N. Likos
- Faculty
of Physics, University of Vienna, Boltzmanngasse 5, A-1090 Vienna, Austria
| | - Angel J. Moreno
- Donostia International Physics Center, Paseo Manuel de Lardizabal 4, E-20018 San Sebastián, Spain
- Materials Physics Center MPC, Paseo
Manuel de Lardizabal 5, E-20018 San Sebastián, Spain
- Centro de Física de Materiales (CSIC, UPV/EHU), Paseo Manuel de Lardizabal 5, E-20018 San Sebastián, Spain
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20
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Narros A, Moreno AJ, Likos C. Architecture-Induced Size Asymmetry and Effective Interactions of Ring Polymers: Simulation and Theory. Macromolecules 2013; 46:9437-9445. [PMID: 24347686 PMCID: PMC3859368 DOI: 10.1021/ma4016483] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2013] [Revised: 11/12/2013] [Indexed: 12/02/2022]
Abstract
We investigate, by means of Monte Carlo simulations, the role of ring architecture and topology on the relative sizes of two interacting polymers as a function of the distance between their centers-of-mass. As a general rule, polymers swell as they approach each other, irrespectively of their topologies. For each mutual separation, two identical linear polymers adopt the same average size. However, unknotted rings at close separations adopt different sizes, with the small one being "nested" within the large one over long time intervals, exchanging their roles in the course of the simulation. For two rings of different architectures and identical polymerization degree, the knotted one is always smaller, penetrating the unknotted one. On the basis of these observations, we propose a phenomenological theory for the effective interactions between rings, modeling them as unequal-sized penetrable spheres. This simple approximation provides a good description of the simulation results. In particular, it rationalizes the non-Gaussian shape and the short-distance plateau observed in the effective potential between unknotted ring polymers and pairs of unequal-sized unknotted/knotted ones. Our results demonstrate the crucial role of the architecture on both the effective interactions and the molecular size for strongly interpenetrating polymers.
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Affiliation(s)
- Arturo Narros
- Faculty of Physics, University of Vienna, Boltzmanngasse 5, A-1090 Vienna, Austria
| | - Angel J. Moreno
- Centro de Física de Materiales (CSIC, UPV/EHU) and Materials
Physics Center MPC, Paseo Manuel de
Lardizabal 5, E-20018 San Sebastián, Spain
- Donostia International
Physics Center, Paseo Manuel de Lardizabal
4, E-20018 San Sebastián, Spain
| | - Christos
N. Likos
- Faculty of Physics, University of Vienna, Boltzmanngasse 5, A-1090 Vienna, Austria
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21
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22
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Narros A, Moreno AJ, Likos CN. Effects of Knots on Ring Polymers in Solvents of Varying Quality. Macromolecules 2013; 46:3654-3668. [PMID: 23729865 PMCID: PMC3667624 DOI: 10.1021/ma400308x] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2013] [Revised: 04/03/2013] [Indexed: 11/30/2022]
Abstract
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We employ extensive computer simulations to investigate the conformations
and the interactions of ring polymers under conditions of worsening
solvent quality, in comparison with those for linear polymers. We
determine the dependence of the Θ-temperature on knotedness
by considering ring polymers of different topologies. We establish
a clear decrease of the former upon changing the topology of the polymer
from linear to an unknotted ring and a further decrease of the same
upon introducing trefoil- or 5-fold knots but we find no difference
in the Θ-point between the two knotted molecules. Our results
are based on two independent methods: one considering the scaling
of the gyration radius with molecular weight and one based on the
dependence of the effective interaction on solvent quality. In addition,
we calculate several shape-parameters of the polymers to characterize
linear, unknotted, and knotted topologies in good solvents and in
the proximity of the Θ-point. The shape parameters of the knotted
molecules show an interesting crossover at a degree of polymerization
that depends on the degree of knottedness of the molecule.
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Affiliation(s)
- Arturo Narros
- Faculty of Physics, University of Vienna , Boltzmanngasse 5, A- 1090 Vienna, Austria
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23
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Shin H, Pascal TA, Goddard WA, Kim H. Scaled Effective Solvent Method for Predicting the Equilibrium Ensemble of Structures with Analysis of Thermodynamic Properties of Amorphous Polyethylene Glycol–Water Mixtures. J Phys Chem B 2013; 117:916-27. [DOI: 10.1021/jp310422q] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Affiliation(s)
| | - Tod A. Pascal
- Materials and Process Simulation
Center, California Institute of Technology, Pasadena, California 91125, United States
| | - William A. Goddard
- Materials and Process Simulation
Center, California Institute of Technology, Pasadena, California 91125, United States
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24
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Benková Z, Cifra P. Simulation of Semiflexible Cyclic and Linear Chains Moderately and Strongly Confined in Nanochannels. Macromolecules 2012. [DOI: 10.1021/ma202730c] [Citation(s) in RCA: 41] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Affiliation(s)
- Zuzana Benková
- Polymer Institute, Slovak Academy of Sciences, Dúbravská
cesta 9, 845 41 Bratislava, Slovakia
- REQUIMTE, Chemistry Department, University of Porto, Rua do Campo Alegre 687, 4169-007
Porto, Portugal
| | - Peter Cifra
- Polymer Institute, Slovak Academy of Sciences, Dúbravská
cesta 9, 845 41 Bratislava, Slovakia
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25
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Pomposo JA, Perez-Baena I, Buruaga L, Alegría A, Moreno AJ, Colmenero J. On the Apparent SEC Molecular Weight and Polydispersity Reduction upon Intramolecular Collapse of Polydisperse Chains to Unimolecular Nanoparticles. Macromolecules 2011. [DOI: 10.1021/ma201070b] [Citation(s) in RCA: 46] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- José A. Pomposo
- Centro de Física de Materiales (CSIC, UPV/EHU) - Materials Physics Center, Paseo Manuel de Lardizabal 5, 20018 San Sebastián, Spain
- IKERBASQUE - Basque Foundation for Science, Alameda Urquijo 36, 48011 Bilbao, Spain
- Departamento de Física de Materiales, Universidad del País Vasco (UPV/EHU), Apartado 1072, 20800 San Sebastián, Spain
| | - Irma Perez-Baena
- Centro de Física de Materiales (CSIC, UPV/EHU) - Materials Physics Center, Paseo Manuel de Lardizabal 5, 20018 San Sebastián, Spain
| | - Lorea Buruaga
- Centro de Física de Materiales (CSIC, UPV/EHU) - Materials Physics Center, Paseo Manuel de Lardizabal 5, 20018 San Sebastián, Spain
| | - Angel Alegría
- Centro de Física de Materiales (CSIC, UPV/EHU) - Materials Physics Center, Paseo Manuel de Lardizabal 5, 20018 San Sebastián, Spain
- Departamento de Física de Materiales, Universidad del País Vasco (UPV/EHU), Apartado 1072, 20800 San Sebastián, Spain
| | - Angel J. Moreno
- Centro de Física de Materiales (CSIC, UPV/EHU) - Materials Physics Center, Paseo Manuel de Lardizabal 5, 20018 San Sebastián, Spain
| | - Juan Colmenero
- Centro de Física de Materiales (CSIC, UPV/EHU) - Materials Physics Center, Paseo Manuel de Lardizabal 5, 20018 San Sebastián, Spain
- Departamento de Física de Materiales, Universidad del País Vasco (UPV/EHU), Apartado 1072, 20800 San Sebastián, Spain
- Donostia International Physics Center, Paseo Manuel de Lardizabal 4, 20018 San Sebastián, Spain
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26
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Shin EJ, Jeong W, Brown HA, Koo BJ, Hedrick JL, Waymouth RM. Crystallization of Cyclic Polymers: Synthesis and Crystallization Behavior of High Molecular Weight Cyclic Poly(ε-caprolactone)s. Macromolecules 2011. [DOI: 10.1021/ma102970m] [Citation(s) in RCA: 139] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Affiliation(s)
- Eun Ji Shin
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
| | - Wonhee Jeong
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
| | - Hayley A. Brown
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
| | - Bon Jun Koo
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
| | - James L. Hedrick
- IBM Almaden Research Center, 650 Harry Road, California 95120, United States
| | - Robert M. Waymouth
- Department of Chemistry, Stanford University, Stanford, California 94305, United States
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27
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Benková Z, Cifra P. Stiffening Transition in Semiflexible Cyclic Macromolecules. MACROMOL THEOR SIMUL 2010. [DOI: 10.1002/mats.201000047] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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28
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Tsolou G, Stratikis N, Baig C, Stephanou PS, Mavrantzas VG. Melt Structure and Dynamics of Unentangled Polyethylene Rings: Rouse Theory, Atomistic Molecular Dynamics Simulation, and Comparison with the Linear Analogues. Macromolecules 2010. [DOI: 10.1021/ma1017555] [Citation(s) in RCA: 101] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Georgia Tsolou
- Department of Chemical Engineering, University of Patras & FORTH-ICE/HT, Patras, GR 26504, Greece
| | - Nikos Stratikis
- Department of Chemical Engineering, University of Patras & FORTH-ICE/HT, Patras, GR 26504, Greece
| | - Chunggi Baig
- Department of Chemical Engineering, University of Patras & FORTH-ICE/HT, Patras, GR 26504, Greece
| | - Pavlos S. Stephanou
- Department of Chemical Engineering, University of Patras & FORTH-ICE/HT, Patras, GR 26504, Greece
| | - Vlasis G. Mavrantzas
- Department of Chemical Engineering, University of Patras & FORTH-ICE/HT, Patras, GR 26504, Greece
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29
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Guo L, Zhang D. Cyclic poly(alpha-peptoid)s and their block copolymers from N-heterocyclic carbene-mediated ring-opening polymerizations of N-substituted N-carboxylanhydrides. J Am Chem Soc 2010; 131:18072-4. [PMID: 19950948 DOI: 10.1021/ja907380d] [Citation(s) in RCA: 209] [Impact Index Per Article: 14.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
N-Heterocyclic carbene (NHC)-mediated ring-opening polymerization (ROP) of N-substituted N-carboxylanhydride ((N)R-NCA) yields cyclic poly(alpha-peptoid)s with controlled molecular weights (M(n) = 3-30 kg mol(-1)) and narrow molecular weight distributions (PDI = 1.04-1.12). The reactions exhibit characteristics of a living polymerization with minimal chain transfer. This enables the facile synthesis of cyclic diblock copoly(alpha-peptoid)s through sequential monomer addition. The cyclic polymer architectures were verified by MALDI-TOF mass spectrometry and intrinsic viscosity measurements. Mark-Houwink-Sakurada plot analyses revealed that cyclic poly(alpha-peptoid)s prepared from NHC-mediated polymerizations exhibit lower intrinsic viscosities than their linear analogues prepared from primary amine-initiated polymerizations. The ratio of their intrinsic viscosities is consistent with the former being mostly cyclic.
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Affiliation(s)
- Li Guo
- Department of Chemistry and Macromolecular Studies Group, Louisiana State University, Baton Rouge, Louisiana 70803, USA
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30
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Bombelli FB, Gambinossi F, Lagi M, Berti D, Caminati G, Brown T, Sciortino F, Norden B, Baglioni P. DNA closed nanostructures: a structural and Monte Carlo simulation study. J Phys Chem B 2009; 112:15283-94. [PMID: 18989907 DOI: 10.1021/jp804544u] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
DNA nanoconstructs are obtained in solution by using six unique 42-mer DNA oligonucleotides, whose sequences have been designed to form a pseudohexagonal structure. The required flexibility is provided by the insertion of two non-base-paired thymines in the middle of each sequence that work as flexible hinges and constitute the corners of the nanostructure when formed. We show that hexagonally shaped nanostructures of about 7 nm diameter and their corresponding linear open constructs are formed by self-assembly of the specifically designed linear oligonucleotides. The structural and dynamical characterization of the nanostructure is obtained in situ for the first time by using dynamic light scattering (DLS), a noninvasive method that provides a fast dynamic and structural analysis and allows the characterization of the different synthetic DNA nanoconstructs in solution. A validation of the LS results is obtained through Monte Carlo (MC) simulations and atomic force microscopy (AFM). In particular, a mesoscale molecular model for DNA, developed by Knotts et al., is exploited to perform MC simulations and to obtain information about the conformations as well as the conformational flexibilities of these nanostructures, while AFM provides a very detailed particle analysis that yields an estimation of the particle size and size distribution. The structural features obtained by MC and AFM are in good agreement with DLS, showing that DLS is a fast and reliable tool for characterization of DNA nanostructures in solution.
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Affiliation(s)
- Francesca Baldelli Bombelli
- Department of Chemistry and CSGI, University of Florence, Via della Lastruccia 3 - Sesto Fiorentino, 50019 Florence, Italy
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31
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Witz G, Rechendorff K, Adamcik J, Dietler G. Conformation of circular DNA in two dimensions. PHYSICAL REVIEW LETTERS 2008; 101:148103. [PMID: 18851579 DOI: 10.1103/physrevlett.101.148103] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/02/2008] [Indexed: 05/26/2023]
Abstract
The conformation of circular DNA molecules of various lengths adsorbed in a 2D conformation on a mica surface is studied. The results confirm the conjecture that the critical exponent nu is topologically invariant and equal to the self-avoiding walk value (in the present case nu=3/4), and that the topology and dimensionality of the system strongly influence the crossover between the rigid regime and the self-avoiding regime at a scale L approximately 7l{p}. Additionally, the bond correlation function scales with the molecular length L as predicted. For molecular lengths L<or=5l{p}, circular DNA behaves like a stiff molecule with an approximately elliptic shape.
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Affiliation(s)
- Guillaume Witz
- Laboratoire de Physique de la Matière Vivante, Ecole Polytechnique Fédérale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland
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32
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Malescio G. Universality in the phase behavior of soft matter: a law of corresponding states. Phys Rev E 2006; 74:040501. [PMID: 17155012 DOI: 10.1103/physreve.74.040501] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2006] [Revised: 08/04/2006] [Indexed: 11/07/2022]
Abstract
We show that the phase diagram of substances whose molecular structure changes upon varying the thermodynamic parameters can be mapped, through state-dependent scaling, onto the phase diagram of systems of molecules having fixed structure. This makes it possible to identify broad universality classes in the complex phase scenario exhibited by soft matter, and enlightens a surprisingly close connection between puzzling phase phenomena and familiar behaviors. The analysis presented provides a straightforward way for deriving the phase diagram of soft substances from that of simpler reference systems. This method is applied here to study the phase behavior exhibited by two significative examples of soft matter with temperature-dependent molecular structure: thermally responsive colloids and polymeric systems. A region of inverse melting, i.e., melting upon isobaric cooling, is predicted at relatively low pressure and temperature in polymeric systems.
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Affiliation(s)
- G Malescio
- Dipartimento di Fisica, Università di Messina, 98166 Messina, Italy
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33
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Araki S, Nakai T, Hizume K, Takeyasu K, Yoshikawa K. Hydrodynamic radius of circular DNA is larger than that of linear DNA. Chem Phys Lett 2006. [DOI: 10.1016/j.cplett.2005.10.115] [Citation(s) in RCA: 33] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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34
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Maury-Evertsz JR, López GE. Studies on the behavior of nanoconfined homopolymers with cyclic chain architecture. J Chem Phys 2005; 123:054903. [PMID: 16108689 DOI: 10.1063/1.1992474] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
We have performed Monte Carlo simulations to study the effect of cyclic architecture on the behavior of homopolymer chains under several conditions of confinement. The collapse of the rings in two stages, a coil-to-globule and a liquidlike-to-solidlike transition, was observed even at extreme confinement. Both transitions were observed at lower temperatures than for linear chains of the same length, 2%-5% lower for unconfined systems, and 10%-15% lower for wall separations below three bond lengths due to the effect of confinement. When the plates separation approached the two-dimensional regime, the coil-to-globule transition shifted to lower temperatures. The inverse trend was observed when the chain length was increased. In the collapsed state, the average size and conformations of linear and cyclic molecules of same length were similar independently of confinement. At temperatures near the coil-to-globule transition, the radius of gyration of unconfined linear chains, [R(g)(2)](linear), became larger than for the cyclic chains, [R(g)(2)](cyclic), and this difference increased considerably with confinement. The radius of gyration ratio [R(g)(2)](linear)/[R(g)(2)](cyclic) in this region decreased rapidly. The decrease was more pronounced and occurred at lower temperatures for slit width confinements. At higher temperatures, in the coil state, the radius of gyration ratio became nearly constant for a given separation, and varied from 0.56 for unconfined systems to 0.47 when the chain was completely confined between the walls. This reduction was attributed to the higher increase in the average size of linear chains with confinement when compared with cyclic chains, due to architectural restrictions.
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Affiliation(s)
- Johnny R Maury-Evertsz
- Theoretical and Computational Chemistry Group, Department of Chemistry, University of Puerto Rico, University of Puerto Rico at Mayagüez P.O. Box 9019, Mayagüez, Puerto Rico
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35
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Jang SS, Lin ST, Maiti PK, Blanco M, Goddard WA, Shuler P, Tang Y. Molecular Dynamics Study of a Surfactant-Mediated Decane−Water Interface: Effect of Molecular Architecture of Alkyl Benzene Sulfonate. J Phys Chem B 2004. [DOI: 10.1021/jp048773n] [Citation(s) in RCA: 196] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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