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Huang Y, Nie J, Bai W, Hu S, Wang X, Zhang L, Liu L. Diffusivities and Atomic Mobilities in BCC Ti-Fe-Cr Alloys. MATERIALS (BASEL, SWITZERLAND) 2024; 17:1927. [PMID: 38673284 PMCID: PMC11051987 DOI: 10.3390/ma17081927] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/21/2024] [Revised: 04/12/2024] [Accepted: 04/15/2024] [Indexed: 04/28/2024]
Abstract
In this research, the diffusion behaviors within the Ti-Fe-Cr ternary system were examined at the temperatures of 1273 K and 1373 K through the diffusion couple technique. This study led to the determination of both ternary inter-diffusion and impurity diffusion coefficients in the body-centered cubic (bcc) phase for the Ti-Fe-Cr alloy, utilizing the Whittle-Green and Hall methods. The statistics show that the average diffusion coefficients D˜FeFeTi and D˜CrCrTi measured at 1273 K were 1.34 × 10-12 and 3.66 × 10-13, respectively. At 1373 K, the average values of D˜FeFeTi and D˜CrCrTi were 4.89 × 10-12 and 1.43 × 10-12. By adopting the CALPHAD method, a self-consistent database for atomic mobility in the bcc phase of the Ti-Fe-Cr system was established. This database underwent refinement by comparing the newly acquired diffusion coefficients with data from the existing literature. Diffusion simulations for the diffusion couples were performed, drawing on the established database. The error between the simulated diffusion coefficient and the experimental measurement data is within 15%, and the simulated data of the component distance distribution and diffusion path are in good agreement with the experimental data. The simulations generated results that aligned well with the observed experimental diffusion characteristics, thereby affirming the reliability and accuracy of the database.
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Affiliation(s)
- Yi Huang
- School of Materials Science and Engineering, Xiangtan University, Xiangtan 411105, China; (Y.H.); (J.N.); (S.H.); (X.W.)
- Key Laboratory of Materials Design and Preparation Technology of Hunan Province, Xiangtan University, Xiangtan 411105, China
| | - Jingjing Nie
- School of Materials Science and Engineering, Xiangtan University, Xiangtan 411105, China; (Y.H.); (J.N.); (S.H.); (X.W.)
- Key Laboratory of Materials Design and Preparation Technology of Hunan Province, Xiangtan University, Xiangtan 411105, China
| | - Weimin Bai
- School of Materials Science and Engineering, Xiangtan University, Xiangtan 411105, China; (Y.H.); (J.N.); (S.H.); (X.W.)
- Key Laboratory of Materials Design and Preparation Technology of Hunan Province, Xiangtan University, Xiangtan 411105, China
| | - Songsong Hu
- School of Materials Science and Engineering, Xiangtan University, Xiangtan 411105, China; (Y.H.); (J.N.); (S.H.); (X.W.)
- Key Laboratory of Materials Design and Preparation Technology of Hunan Province, Xiangtan University, Xiangtan 411105, China
| | - Xinming Wang
- School of Materials Science and Engineering, Xiangtan University, Xiangtan 411105, China; (Y.H.); (J.N.); (S.H.); (X.W.)
- Key Laboratory of Materials Design and Preparation Technology of Hunan Province, Xiangtan University, Xiangtan 411105, China
| | - Ligang Zhang
- School of Materials Science and Engineering, Central South University, Changsha 410083, China;
| | - Libin Liu
- School of Materials Science and Engineering, Central South University, Changsha 410083, China;
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Raczyłło E, Gołowicz D, Skóra T, Kazimierczuk K, Kondrat S. Size Sensitivity of Metabolite Diffusion in Macromolecular Crowds. NANO LETTERS 2024; 24. [PMID: 38607288 PMCID: PMC11057039 DOI: 10.1021/acs.nanolett.3c05100] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/25/2023] [Revised: 04/02/2024] [Accepted: 04/03/2024] [Indexed: 04/13/2024]
Abstract
Metabolites play crucial roles in cellular processes, yet their diffusion in the densely packed interiors of cells remains poorly understood, compounded by conflicting reports in existing studies. Here, we employ pulsed-gradient stimulated-echo NMR and Brownian/Stokesian dynamics simulations to elucidate the behavior of nano- and subnanometer-sized tracers in crowded environments. Using Ficoll as a crowder, we observe a linear decrease in tracer diffusivity with increasing occupied volume fraction, persisting─somewhat surprisingly─up to volume fractions of 30-40%. While simulations suggest a linear correlation between diffusivity slowdown and particle size, experimental findings hint at a more intricate relationship, possibly influenced by Ficoll's porosity. Simulations and numerical calculations of tracer diffusivity in the E. coli cytoplasm show a nonlinear yet monotonic diffusion slowdown with particle size. We discuss our results in the context of nanoviscosity and discrepancies with existing studies.
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Affiliation(s)
- Edyta Raczyłło
- Institute
of Physical Chemistry, Polish Academy of Sciences, 01-224 Warsaw, Poland
- Department
of Theoretical Chemistry, Institute of Chemical Sciences, Faculty
of Chemistry, Maria Curie-Skłodowska
University in Lublin, 20-031 Lublin, Poland
| | - Dariusz Gołowicz
- Institute
of Physical Chemistry, Polish Academy of Sciences, 01-224 Warsaw, Poland
| | - Tomasz Skóra
- Institute
of Physical Chemistry, Polish Academy of Sciences, 01-224 Warsaw, Poland
- Scientific
Computing and Imaging Institute, University
of Utah, Salt Lake City, Utah 84112, United States
| | | | - Svyatoslav Kondrat
- Institute
of Physical Chemistry, Polish Academy of Sciences, 01-224 Warsaw, Poland
- Institute
for Computational Physics, University of
Stuttgart 70569, Stuttgart, Germany
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3
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Yu S, Chu R, Wu G, Meng X. A Novel Fractional Brownian Dynamics Method for Simulating the Dynamics of Confined Bottle-Brush Polymers in Viscoelastic Solution. Polymers (Basel) 2024; 16:524. [PMID: 38399901 PMCID: PMC10891538 DOI: 10.3390/polym16040524] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/03/2024] [Revised: 02/11/2024] [Accepted: 02/13/2024] [Indexed: 02/25/2024] Open
Abstract
In crowded fluids, polymer segments can exhibit anomalous subdiffusion due to the viscoelasticity of the surrounding environment. Previous single-particle tracking experiments revealed that such anomalous diffusion in complex fluids (e.g., in bacterial cytoplasm) can be described by fractional Brownian motion (fBm). To investigate how the viscoelastic media affects the diffusive behaviors of polymer segments without resolving single crowders, we developed a novel fractional Brownian dynamics method to simulate the dynamics of polymers under confinement. In this work, instead of using Gaussian random numbers ("white Gaussian noise") to model the Brownian force as in the standard Brownian dynamics simulations, we introduce fractional Gaussian noise (fGn) in our homemade fractional Brownian dynamics simulation code to investigate the anomalous diffusion of polymer segments by using a simple "bottle-brush"-type polymer model. The experimental results of the velocity autocorrelation function and the exponent that characterizes the subdiffusion of the confined polymer segments can be reproduced by this simple polymer model in combination with fractional Gaussian noise (fGn), which mimics the viscoelastic media.
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Affiliation(s)
- Shi Yu
- Department of Chemical Engineering, China University of Mining & Technology, Xuzhou 221116, China; (R.C.); (G.W.); (X.M.)
| | - Ruizhi Chu
- Department of Chemical Engineering, China University of Mining & Technology, Xuzhou 221116, China; (R.C.); (G.W.); (X.M.)
- Key Laboratory of Coal-Based CO2 Capture and Geological Storage, China University of Mining & Technology, Xuzhou 221116, China
| | - Guoguang Wu
- Department of Chemical Engineering, China University of Mining & Technology, Xuzhou 221116, China; (R.C.); (G.W.); (X.M.)
- Key Laboratory of Coal-Based CO2 Capture and Geological Storage, China University of Mining & Technology, Xuzhou 221116, China
| | - Xianliang Meng
- Department of Chemical Engineering, China University of Mining & Technology, Xuzhou 221116, China; (R.C.); (G.W.); (X.M.)
- Key Laboratory of Coal-Based CO2 Capture and Geological Storage, China University of Mining & Technology, Xuzhou 221116, China
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4
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Wang H, Torquato S. Designer pair statistics of disordered many-particle systems with novel properties. J Chem Phys 2024; 160:044911. [PMID: 38294317 DOI: 10.1063/5.0189769] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2023] [Accepted: 01/02/2024] [Indexed: 02/01/2024] Open
Abstract
The knowledge of exact analytical functional forms for the pair correlation function g2(r) and its corresponding structure factor S(k) of disordered many-particle systems is limited. For fundamental and practical reasons, it is highly desirable to add to the existing database of analytical functional forms for such pair statistics. Here, we design a plethora of such pair functions in direct and Fourier spaces across the first three Euclidean space dimensions that are realizable by diverse many-particle systems with varying degrees of correlated disorder across length scales, spanning a wide spectrum of hyperuniform, typical nonhyperuniform, and antihyperuniform ones. This is accomplished by utilizing an efficient inverse algorithm that determines equilibrium states with up to pair interactions at positive temperatures that precisely match targeted forms for both g2(r) and S(k). Among other results, we realize an example with the strongest hyperuniform property among known positive-temperature equilibrium states, critical-point systems (implying unusual 1D systems with phase transitions) that are not in the Ising universality class, systems that attain self-similar pair statistics under Fourier transformation, and an experimentally feasible polymer model. We show that our pair functions enable one to achieve many-particle systems with a wide range of translational order and self-diffusion coefficients D, which are inversely related to one another. One can design other realizable pair statistics via linear combinations of our functions or by applying our inverse procedure to other desirable functional forms. Our approach facilitates the inverse design of materials with desirable physical and chemical properties by tuning their pair statistics.
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Affiliation(s)
- Haina Wang
- Department of Chemistry, Princeton University, Princeton, New Jersey 08544, USA
| | - Salvatore Torquato
- Department of Chemistry, Department of Physics, Princeton Materials Institute, and Program in Applied and Computational Mathematics, Princeton University, Princeton, New Jersey 08544, USA
- School of Natural Sciences, Institute for Advanced Study, 1 Einstein Drive, Princeton, New Jersey 08540, USA
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Yao Y, Shi X, Zhao Z, Zhang A, Li W. Dendronization of chitosan to afford unprecedent thermoresponsiveness and tunable microconfinement. J Mater Chem B 2023; 11:11024-11034. [PMID: 37975703 DOI: 10.1039/d3tb01803b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2023]
Abstract
Convenient chemical modification of biomacromolecules to create novel biocompatible functional materials satisfies the current requirements of sustainable chemistry. Dendronization of chitosan with dendritic oligoethylene glycols (OEGs) paves a strategy for the preparation of functional dendronized chitosans (DCSs) with unprecedent thermoresponsive behavior, which inherit biological features from polysaccharides and the topological features from dendritic OEGs. In addition, densely packed dendritic OEG chains around the backbone provide efficient cooperative interactions and form an intriguing confined microenvironment based on the degradable biopolymers. In this perspective, we describe the principle for the preparation of the thermoresponsive DCSs, and focus on the molecular envelop effect from the hydrophobic microconfinement to the encapsulated guest molecules or moieties. Particular attention is put on their capacity to regulate behavior and the functions of the encapsulated guests through thermally-mediated dehydration and collapse of the densely packed dendritic OEGs. We believe that the methodology described here may provide prospects for the fabrication of functional materials from biomacromolecules, especially when used as environmentally friendly nanomaterials or in accurate diagnosis and therapy.
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Affiliation(s)
- Yi Yao
- International Joint Laboratory of Biomimetic and Smart Polymers, School of Materials Science and Engineering, Shanghai University, Nanchen Street 333, Shanghai 200444, China.
| | - Xiaoxin Shi
- International Joint Laboratory of Biomimetic and Smart Polymers, School of Materials Science and Engineering, Shanghai University, Nanchen Street 333, Shanghai 200444, China.
| | - Zihong Zhao
- International Joint Laboratory of Biomimetic and Smart Polymers, School of Materials Science and Engineering, Shanghai University, Nanchen Street 333, Shanghai 200444, China.
| | - Afang Zhang
- International Joint Laboratory of Biomimetic and Smart Polymers, School of Materials Science and Engineering, Shanghai University, Nanchen Street 333, Shanghai 200444, China.
| | - Wen Li
- International Joint Laboratory of Biomimetic and Smart Polymers, School of Materials Science and Engineering, Shanghai University, Nanchen Street 333, Shanghai 200444, China.
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Słyk E, Skóra T, Kondrat S. Minimal Coarse-Grained Model for Immunoglobulin G: Diffusion and Binding under Crowding. J Phys Chem B 2023; 127:7442-7448. [PMID: 37591305 PMCID: PMC10476189 DOI: 10.1021/acs.jpcb.3c02383] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2023] [Revised: 07/25/2023] [Indexed: 08/19/2023]
Abstract
Immunoglobulin G (IgG) is the most common type of antibody found in blood and extracellular fluids and plays an essential role in our immune response. However, studies of the dynamics and reaction kinetics of IgG-antigen binding under physiological crowding conditions are scarce. Herein, we develop a coarse-grained model of IgG consisting of only six beads that we find minimal for a coarse representation of IgG's shape and a decent reproduction of its flexibility and diffusion properties measured experimentally. Using this model in Brownian dynamics simulations, we find that macromolecular crowding affects only slightly the IgG's flexibility, as described by the distribution of angles between the IgG's arms and stem. Our simulations indicate that, contrary to expectations, crowders slow down the translational diffusion of an IgG less strongly than they do for a smaller Ficoll 70, which we relate to the IgG's conformational size changes induced by crowding. We also find that crowders affect the binding kinetics by decreasing the rate of the first binding step and enhancing the second binding step.
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Affiliation(s)
- Edyta Słyk
- Institute
of Physical Chemistry, Polish Academy of
Sciences, Warsaw 01-224, Poland
- Department
of Theoretical Chemistry, Institute of Chemical Sciences, Faculty
of Chemistry, Maria Curie-Skłodowska
University in Lublin, Lublin 20-031, Poland
| | - Tomasz Skóra
- Institute
of Physical Chemistry, Polish Academy of
Sciences, Warsaw 01-224, Poland
| | - Svyatoslav Kondrat
- Institute
of Physical Chemistry, Polish Academy of
Sciences, Warsaw 01-224, Poland
- Institute
for Computational Physics, University of
Stuttgart, Stuttgart 70569, Germany
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Foreman K, Tran-Ba KH. Single-Particle Tracking in Poly(Ethylene Glycol) Diacrylate: Probe Size Effect on the Diffusion Behaviors of Nanoparticles in Unentangled Polymer Solutions. J Phys Chem B 2023; 127:7091-7102. [PMID: 37527454 DOI: 10.1021/acs.jpcb.3c03499] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/03/2023]
Abstract
A thorough understanding of the relevant factors governing the transport of nanoparticles in poly(ethylene glycol) diacrylate (PEGDA) is crucial for many applications utilizing this polymer. Here, single-particle tracking (SPT) was used to systematically investigate the role of the probe size (3-200 nm) on the diffusion behaviors of individual fluorescent nanoparticles in semidilute and unentangled PEGDA solutions. The quantitative assessment of the SPT data via the recorded single-particle trajectories and diffusion coefficients (D) not only showed that the observed probe dynamics in PEGDA were temporally and spatially heterogeneous, but more importantly that the measured D were observed to be significantly reduced (vs in solvent) and strongly size-dependent. We explained these results based on a modified multiscale model for particle diffusion, built upon well-established hydrodynamics and obstruction theories. We furthermore showed that the presence of steric interactions and probe confinement effects in highly crowded, unentangled PEGDA microstructures can lead to deviations in the single-particle displacements from the expected Gaussian behavior, as revealed by the van Hove displacement distributions and the associated non-Gaussian parameters. This study has demonstrated the power of SPT methods in offering an advanced characterization of the transport characteristics in complex polymer structures, overcoming challenges posed by traditional characterization techniques.
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Affiliation(s)
- Kathryn Foreman
- Department of Chemistry, Towson University, Towson, Maryland 21252, United States
| | - Khanh-Hoa Tran-Ba
- Department of Chemistry, Towson University, Towson, Maryland 21252, United States
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Blanco PM, Narambuena CF, Madurga S, Mas F, Garcés JL. Unusual Aspects of Charge Regulation in Flexible Weak Polyelectrolytes. Polymers (Basel) 2023; 15:2680. [PMID: 37376324 DOI: 10.3390/polym15122680] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2023] [Revised: 06/07/2023] [Accepted: 06/10/2023] [Indexed: 06/29/2023] Open
Abstract
This article reviews the state of the art of the studies on charge regulation (CR) effects in flexible weak polyelectrolytes (FWPE). The characteristic of FWPE is the strong coupling of ionization and conformational degrees of freedom. After introducing the necessary fundamental concepts, some unconventional aspects of the the physical chemistry of FWPE are discussed. These aspects are: (i) the extension of statistical mechanics techniques to include ionization equilibria and, in particular, the use of the recently proposed Site Binding-Rotational Isomeric State (SBRIS) model, which allows the calculation of ionization and conformational properties on the same foot; (ii) the recent progresses in the inclusion of proton equilibria in computer simulations; (iii) the possibility of mechanically induced CR in the stretching of FWPE; (iv) the non-trivial adsorption of FWPE on ionized surfaces with the same charge sign as the PE (the so-called "wrong side" of the isoelectric point); (v) the influence of macromolecular crowding on CR.
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Affiliation(s)
- Pablo M Blanco
- Physical Chemistry Unit, Materials Science and Physical Chemistry Department & Research Institute of Theoretical and Computational Chemistry (IQTCUB), Barcelona University (UB), 08028 Barcelona, Catalonia, Spain
| | - Claudio F Narambuena
- Grupo de Bionanotecnologia y Sistemas Complejos, Infap-CONICET & Facultad Regional San Rafael, Universidad Tecnológica Nacional, San Rafael 5600, Argentina
| | - Sergio Madurga
- Physical Chemistry Unit, Materials Science and Physical Chemistry Department & Research Institute of Theoretical and Computational Chemistry (IQTCUB), Barcelona University (UB), 08028 Barcelona, Catalonia, Spain
| | - Francesc Mas
- Physical Chemistry Unit, Materials Science and Physical Chemistry Department & Research Institute of Theoretical and Computational Chemistry (IQTCUB), Barcelona University (UB), 08028 Barcelona, Catalonia, Spain
| | - Josep L Garcés
- Chemistry Department, Technical School of Agricultural Engineering & AGROTECNIO, Lleida University (UdL), 25003 Lleida, Catalonia, Spain
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Yu S, Zhao J, Chu R, Li X, Wu G, Meng X. Anomalous Diffusion of Polyelectrolyte Segments on Supported Charged Lipid Bilayers. ENTROPY (BASEL, SWITZERLAND) 2023; 25:e25050796. [PMID: 37238551 DOI: 10.3390/e25050796] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/03/2023] [Revised: 05/04/2023] [Accepted: 05/11/2023] [Indexed: 05/28/2023]
Abstract
This work provides mesoscale models for the anomalous diffusion of a polymer chain on a heterogeneous surface with rearranging randomly distributed adsorption sites. Both the "bead-spring" model and oxDNA model were simulated on supported lipid bilayer membranes with various molar fractions of charged lipids, using Brownian dynamics method. Our simulation results demonstrate that "bead-spring" chains exhibit sub-diffusion on charged lipid bilayers which agrees with previous experimental observations for short-time dynamics of DNA segments on membranes. In addition, the non-Gaussian diffusive behaviors of DNA segments have not been observed in our simulations. However, a simulated 17 base pairs double stranded DNA, using oxDNA model, performs normal diffusion on supported cationic lipid bilayers. Due to the number of positively charged lipids attracted by short DNA is small, the energy landscape that the short DNA experiences during diffusion is not as heterogeneous as that experienced by long DNA chains, which results in normal diffusion rather than sub-diffusion for short DNA.
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Affiliation(s)
- Shi Yu
- Department of Chemical Engineering, China University of Mining & Technology, Xuzhou 221116, China
| | - Jianqiao Zhao
- Department of Chemical Engineering, China University of Mining & Technology, Xuzhou 221116, China
| | - Ruizhi Chu
- Department of Chemical Engineering, China University of Mining & Technology, Xuzhou 221116, China
- Key Laboratory of Coal-Based CO2 Capture and Geological Storage, China University of Mining & Technology, Xuzhou 221116, China
| | - Xiao Li
- Department of Chemical Engineering, China University of Mining & Technology, Xuzhou 221116, China
- Key Laboratory of Coal-Based CO2 Capture and Geological Storage, China University of Mining & Technology, Xuzhou 221116, China
| | - Guoguang Wu
- Department of Chemical Engineering, China University of Mining & Technology, Xuzhou 221116, China
- Key Laboratory of Coal-Based CO2 Capture and Geological Storage, China University of Mining & Technology, Xuzhou 221116, China
| | - Xianliang Meng
- Department of Chemical Engineering, China University of Mining & Technology, Xuzhou 221116, China
- Key Laboratory of Coal-Based CO2 Capture and Geological Storage, China University of Mining & Technology, Xuzhou 221116, China
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