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Klett K, Cherstvy AG, Shin J, Sokolov IM, Metzler R. Non-Gaussian, transiently anomalous, and ergodic self-diffusion of flexible dumbbells in crowded two-dimensional environments: Coupled translational and rotational motions. Phys Rev E 2022; 104:064603. [PMID: 35030844 DOI: 10.1103/physreve.104.064603] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2021] [Accepted: 11/18/2021] [Indexed: 12/22/2022]
Abstract
We employ Langevin-dynamics simulations to unveil non-Brownian and non-Gaussian center-of-mass self-diffusion of massive flexible dumbbell-shaped particles in crowded two-dimensional solutions. We study the intradumbbell dynamics of the relative motion of the two constituent elastically coupled disks. Our main focus is on effects of the crowding fraction ϕ and of the particle structure on the diffusion characteristics. We evaluate the time-averaged mean-squared displacement (TAMSD), the displacement probability-density function (PDF), and the displacement autocorrelation function (ACF) of the dimers. For the TAMSD at highly crowded conditions of dumbbells, e.g., we observe a transition from the short-time ballistic behavior, via an intermediate subdiffusive regime, to long-time Brownian-like spreading dynamics. The crowded system of dimers exhibits two distinct diffusion regimes distinguished by the scaling exponent of the TAMSD, the dependence of the diffusivity on ϕ, and the features of the displacement-ACF. We attribute these regimes to a crowding-induced transition from viscous to viscoelastic diffusion upon growing ϕ. We also analyze the relative motion in the dimers, finding that larger ϕ suppress their vibrations and yield strongly non-Gaussian PDFs of rotational displacements. For the diffusion coefficients D(ϕ) of translational and rotational motion of the dumbbells an exponential decay with ϕ for weak and a power-law variation D(ϕ)∝(ϕ-ϕ^{★})^{2.4} for strong crowding is found. A comparison of simulation results with theoretical predictions for D(ϕ) is discussed and some relevant experimental systems are overviewed.
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Affiliation(s)
- Kolja Klett
- Institute of Physics & Astronomy, University of Potsdam, 14476 Potsdam-Golm, Germany
| | - Andrey G Cherstvy
- Institute of Physics & Astronomy, University of Potsdam, 14476 Potsdam-Golm, Germany.,Institut für Physik, Humboldt-Universität zu Berlin, Newtonstraße 15, 12489 Berlin, Germany
| | - Jaeoh Shin
- Department of Chemistry, Rice University, Houston, Texas 77005, USA.,Center for Theoretical Biological Physics, Rice University, Houston, Texas 77005, USA
| | - Igor M Sokolov
- Institut für Physik, Humboldt-Universität zu Berlin, Newtonstraße 15, 12489 Berlin, Germany.,IRIS Adlershof, Zum Großen Windkanal 6, 12489 Berlin, Germany
| | - Ralf Metzler
- Institute of Physics & Astronomy, University of Potsdam, 14476 Potsdam-Golm, Germany
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Russo J, Leoni F, Martelli F, Sciortino F. The physics of empty liquids: from patchy particles to water. REPORTS ON PROGRESS IN PHYSICS. PHYSICAL SOCIETY (GREAT BRITAIN) 2022; 85:016601. [PMID: 34905739 DOI: 10.1088/1361-6633/ac42d9] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/16/2021] [Accepted: 12/14/2021] [Indexed: 06/14/2023]
Abstract
Empty liquids represent a wide class of materials whose constituents arrange in a random network through reversible bonds. Many key insights on the physical properties of empty liquids have originated almost independently from the study of colloidal patchy particles on one side, and a large body of theoretical and experimental research on water on the other side. Patchy particles represent a family of coarse-grained potentials that allows for a precise control of both the geometric and the energetic aspects of bonding, while water has arguably the most complex phase diagram of any pure substance, and a puzzling amorphous phase behavior. It was only recently that the exchange of ideas from both fields has made it possible to solve long-standing problems and shed new light on the behavior of empty liquids. Here we highlight the connections between patchy particles and water, focusing on the modelling principles that make an empty liquid behave like water, including the factors that control the appearance of thermodynamic and dynamic anomalies, the possibility of liquid-liquid phase transitions, and the crystallization of open crystalline structures.
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Affiliation(s)
- John Russo
- Department of Physics, Sapienza University of Rome, Piazzale Aldo Moro 5, 00185 Rome, Italy
| | - Fabio Leoni
- Department of Physics, Sapienza University of Rome, Piazzale Aldo Moro 5, 00185 Rome, Italy
| | - Fausto Martelli
- IBM Research Europe, Hartree Centre, Daresbury WA4 4AD, United Kingdom
| | - Francesco Sciortino
- Department of Physics, Sapienza University of Rome, Piazzale Aldo Moro 5, 00185 Rome, Italy
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Formanek M, Rovigatti L, Zaccarelli E, Sciortino F, Moreno AJ. Gel Formation in Reversibly Cross-Linking Polymers. Macromolecules 2021. [DOI: 10.1021/acs.macromol.0c02670] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Maud Formanek
- Centro de Física de Materiales (CSIC, UPV/EHU) and Materials Physics Center MPC, Paseo Manuel de Lardizabal 5, E-20018 San Sebastián, Spain
- Sainsbury Laboratory, University of Cambridge, 47 Bateman Street, CB2 1LR Cambridge, U.K
| | - Lorenzo Rovigatti
- Dipartimento di Fisica, Università di Roma La Sapienza, Piazzale Aldo Moro 2, IT-00185 Roma, Italy
- CNR-ISC Uos Sapienza, Piazzale Aldo Moro 2, IT-00185 Roma, Italy
| | - Emanuela Zaccarelli
- Dipartimento di Fisica, Università di Roma La Sapienza, Piazzale Aldo Moro 2, IT-00185 Roma, Italy
- CNR-ISC Uos Sapienza, Piazzale Aldo Moro 2, IT-00185 Roma, Italy
| | - Francesco Sciortino
- Dipartimento di Fisica, Università di Roma La Sapienza, Piazzale Aldo Moro 2, IT-00185 Roma, Italy
| | - 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 (DIPC), Paseo Manuel de Lardizabal 4, E-20018 San Sebastián, Spain
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Ferreiro-Córdova C, Del Gado E, Foffi G, Bouzid M. Multi-component colloidal gels: interplay between structure and mechanical properties. SOFT MATTER 2020; 16:4414-4421. [PMID: 32337525 DOI: 10.1039/c9sm02410g] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
We present a detailed numerical study of multi-component colloidal gels interacting sterically and obtained by arrested phase separation. Under deformation, we found that the interplay between the different intertwined networks is key. Increasing the number of components leads to softer solids that can accommodate progressively larger strains before yielding. The simulations highlight how this is the direct consequence of the purely repulsive interactions between the different components, which end up enhancing the linear response of the material. Our work provides new insight into mechanisms at play for controlling the material properties and opens a road to new design principles for soft composite solids.
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Marín-Aguilar S, Wensink HH, Foffi G, Smallenburg F. Rotational and translational dynamics in dense fluids of patchy particles. J Chem Phys 2020; 152:084501. [PMID: 32113356 DOI: 10.1063/1.5143221] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
Abstract
We explore the effect of directionality on rotational and translational relaxation in glassy systems of patchy particles. Using molecular dynamics simulations, we analyze the impact of two distinct patch geometries, one that enhances the local icosahedral structure and the other one that does not strongly affect the local order. We find that in nearly all investigated cases, rotational relaxation takes place on a much faster time scale than translational relaxation. By comparing to a simplified dynamical Monte Carlo model, we illustrate that rotational diffusion can be qualitatively explained as purely local motion within a fixed environment, which is not coupled strongly to the cage-breaking dynamics required for translational relaxation. Nonetheless, icosahedral patch placement has a profound effect on the local structure of the system, resulting in a dramatic slowdown at low temperatures, which is strongest at an intermediate "optimal" patch size.
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Affiliation(s)
- Susana Marín-Aguilar
- Université Paris-Saclay, CNRS, Laboratoire de Physique des Solides, 91405 Orsay, France
| | - Henricus H Wensink
- Université Paris-Saclay, CNRS, Laboratoire de Physique des Solides, 91405 Orsay, France
| | - Giuseppe Foffi
- Université Paris-Saclay, CNRS, Laboratoire de Physique des Solides, 91405 Orsay, France
| | - Frank Smallenburg
- Université Paris-Saclay, CNRS, Laboratoire de Physique des Solides, 91405 Orsay, France
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Bleibel J, Habiger M, Lütje M, Hirschmann F, Roosen-Runge F, Seydel T, Zhang F, Schreiber F, Oettel M. Two time scales for self and collective diffusion near the critical point in a simple patchy model for proteins with floating bonds. SOFT MATTER 2018; 14:8006-8016. [PMID: 30187060 DOI: 10.1039/c8sm00599k] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Using dynamic Monte Carlo and Brownian dynamics, we investigate a floating bond model in which particles can bind through mobile bonds. The maximum number of bonds (here fixed to 4) can be tuned by appropriately choosing the repulsive, nonadditive interactions among bonds and particles. We compute the static and dynamic structure factor (intermediate scattering function) in the vicinity of the gas-liquid critical point. The static structure exhibits a weak tetrahedral network character. The intermediate scattering function shows a temporal decay deviating from a single exponential, which can be described by a double exponential decay where the two time scales differ approximately by one order of magnitude. This time scale separation is robust over a range of wave numbers. The analysis of clusters in real space indicates the formation of noncompact clusters and shows a considerable stretch in the instantaneous size distribution when approaching the critical point. The average time evolution of the largest subcluster of given initial clusters with 10 or more particles also shows a double exponential decay. The observation of two time scales in the intermediate scattering function at low packing fractions is consistent with similar findings in globular protein solutions with trivalent metal ions that act as bonds between proteins.
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Affiliation(s)
- J Bleibel
- Institut für Angewandte Physik, Universität Tübingen, Auf der Morgenstelle 10, 72076 Tübingen, Germany.
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Dias CS, Araújo NAM, Telo da Gama MM. Dynamics of network fluids. Adv Colloid Interface Sci 2017; 247:258-263. [PMID: 28802478 DOI: 10.1016/j.cis.2017.07.001] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2017] [Revised: 05/16/2017] [Accepted: 07/02/2017] [Indexed: 11/20/2022]
Abstract
Network fluids are structured fluids consisting of chains and branches. They are characterized by unusual physical properties, such as, exotic bulk phase diagrams, interfacial roughening and wetting transitions, and equilibrium and nonequilibrium gels. Here, we provide an overview of a selection of their equilibrium and dynamical properties. Recent research efforts towards bridging equilibrium and non-equilibrium studies are discussed, as well as several open questions.
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Affiliation(s)
- C S Dias
- Departamento de Física, Faculdade de Ciências, Universidade de Lisboa, 1749-016 Lisboa, Portugal; Centro de Física Teórica e Computacional, Universidade de Lisboa, Lisboa 1749-016, Portugal.
| | - N A M Araújo
- Departamento de Física, Faculdade de Ciências, Universidade de Lisboa, 1749-016 Lisboa, Portugal; Centro de Física Teórica e Computacional, Universidade de Lisboa, Lisboa 1749-016, Portugal
| | - M M Telo da Gama
- Departamento de Física, Faculdade de Ciências, Universidade de Lisboa, 1749-016 Lisboa, Portugal; Centro de Física Teórica e Computacional, Universidade de Lisboa, Lisboa 1749-016, Portugal
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Roldán-Vargas S, Rovigatti L, Sciortino F. Connectivity, dynamics, and structure in a tetrahedral network liquid. SOFT MATTER 2017; 13:514-530. [PMID: 27935002 DOI: 10.1039/c6sm02282k] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
We report a detailed computational study by Brownian dynamics simulations of the structure and dynamics of a liquid of patchy particles which forms an amorphous tetrahedral network upon decreasing the temperature. The highly directional particle interactions allow us to investigate the system connectivity by discriminating the total set of particles into different populations according to a penta-modal distribution of bonds per particle. With this methodology we show how the particle bonding process is not randomly independent but it manifests clear bond correlations at low temperatures. We further explore the dynamics of the system in real space and establish a clear relation between particle mobility and particle connectivity. In particular, we provide evidence of anomalous diffusion at low temperatures and reveal how the dynamics is affected by the short-time hopping motion of the weakly bounded particles. Finally we widely investigate the dynamics and structure of the system in Fourier space and identify two quantitatively similar length scales, one dynamic and the other static, which increase upon cooling the system and reach distances of the order of few particle diameters. We summarize our findings in a qualitative picture where the low temperature regime of the viscoelastic liquid is understood in terms of an evolving network of long time metastable cooperative domains of particles.
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Affiliation(s)
- Sándalo Roldán-Vargas
- Max Planck Institute for the Physics of Complex Systems, D-01307, Dresden, Germany. and Department of Physics, Sapienza, Università di Roma, Piazzale Aldo Moro 2, I-00185, Roma, Italy
| | - Lorenzo Rovigatti
- Faculty of Physics, University of Vienna, Boltzmanngasse 5, A-1090 Vienna, Austria and Rudolf Peierls Centre for Theoretical Physics, 1 Keble Road, Oxford, OX1 3NP, UK
| | - Francesco Sciortino
- Department of Physics, Sapienza, Università di Roma, Piazzale Aldo Moro 2, I-00185, Roma, Italy
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Rovigatti L, Šulc P, Reguly IZ, Romano F. A comparison between parallelization approaches in molecular dynamics simulations on GPUs. J Comput Chem 2014; 36:1-8. [DOI: 10.1002/jcc.23763] [Citation(s) in RCA: 64] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2014] [Revised: 09/30/2014] [Accepted: 10/04/2014] [Indexed: 01/20/2023]
Affiliation(s)
- Lorenzo Rovigatti
- Dipartimento di Fisica; Sapienza-Università di Roma; Piazzale A. Moro 5 00185 Roma Italy
- Faculty of Physics; University of Vienna; Boltzmanngasse 5 A-1090 Vienna Austria
| | - Petr Šulc
- Department of Physics, Rudolf Peierls Centre for Theoretical Physics; University of Oxford; 1 Keble Road Oxford OX1 3NP United Kingdom
| | - István Z. Reguly
- Mathematical, Physical and Life Sciences Division; Oxford e-Research Centre, University of Oxford; Oxford, 7 Keble Road Oxford OX1 3QG United Kingdom
| | - Flavio Romano
- Physical and Theoretical Chemistry Laboratory, Department of Chemistry; University of Oxford; South Parks Road Oxford OX1 3QZ United Kingdom
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Colombo J, Del Gado E. Self-assembly and cooperative dynamics of a model colloidal gel network. SOFT MATTER 2014; 10:4003-4015. [PMID: 24737066 DOI: 10.1039/c4sm00219a] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
We study the assembly into a gel network of colloidal particles, via effective interactions that yield local rigidity and make dilute network structures mechanically stable. The self-assembly process can be described by a Flory-Huggins theory, until a network of chains forms, whose mesh size is on the order of, or smaller than, the persistence length of the chains. The localization of the particles in the network, akin to some extent to caging in dense glasses, is determined by the network topology, and the network restructuring, which takes place via bond breaking and recombination, is characterized by highly cooperative dynamics. We use NVE and NVT molecular dynamics as well as Langevin dynamics and find a qualitatively similar time dependence of time correlations and of the dynamical susceptibility of the restructuring gel. This confirms that the cooperative dynamics emerge from the mesoscale organization of the network.
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Affiliation(s)
- Jader Colombo
- ETH Zurich, Department of Civil, Environmental and Geomatic Engineering, CH-8093 Zurich, Switzerland.
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11
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Rovigatti L, Bomboi F, Sciortino F. Accurate phase diagram of tetravalent DNA nanostars. J Chem Phys 2014. [DOI: 10.1063/1.4870467] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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12
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Roldán-Vargas S, Smallenburg F, Kob W, Sciortino F. Phase diagram of a reentrant gel of patchy particles. J Chem Phys 2013; 139:244910. [DOI: 10.1063/1.4849115] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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13
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Rovigatti L, de las Heras D, Tavares JM, Telo da Gama MM, Sciortino F. Computing the phase diagram of binary mixtures: A patchy particle case study. J Chem Phys 2013; 138:164904. [DOI: 10.1063/1.4802026] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Roldán-Vargas S, Smallenburg F, Kob W, Sciortino F. Gelling by heating. Sci Rep 2013; 3:2451. [PMID: 23948858 PMCID: PMC3744795 DOI: 10.1038/srep02451] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2013] [Accepted: 07/25/2013] [Indexed: 11/08/2022] Open
Abstract
We exploit the concept of competing interactions to design a binary mixture of patchy particles that forms a reversible gel upon heating. Our molecular dynamics computer simulation of such a system shows that with increasing temperature the relaxation dynamics slows down by more than four orders of magnitude and then speeds up again. The system is thus a fluid both at high and at low temperatures and a solid-like disordered open network structure at intermediate temperature. We further discuss the feasibility of realizing a real material with this reversible behavior.
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Affiliation(s)
- Sándalo Roldán-Vargas
- Department of Physics, Sapienza, Università di Roma, Piazzale Aldo Moro 2, I-00185, Roma, Italy
| | - Frank Smallenburg
- Department of Physics, Sapienza, Università di Roma, Piazzale Aldo Moro 2, I-00185, Roma, Italy
| | - Walter Kob
- Laboratoire Charles Coulomb, UMR 5221, CNRS and Université Montpellier 2, F-34095 Montpellier, France
| | - Francesco Sciortino
- Department of Physics, Sapienza, Università di Roma, Piazzale Aldo Moro 2, I-00185, Roma, Italy
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