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Zhang J, Searles DJ, Duignan T. A Method for Efficiently Predicting the Radial Distribution Function and Osmotic Coefficients of Aqueous Electrolyte Solutions. J Chem Theory Comput 2024. [PMID: 39099091 DOI: 10.1021/acs.jctc.4c00363] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 08/06/2024]
Abstract
The prediction of the structural and thermodynamic properties of electrolyte solutions is critical for a huge range of practical situations where these solutions play a vital role. Theoretical models, such as the continuum solvent model, attempt to explain the behavior of solutions using a coarse-grained description of the interactions of species in the solution, whereas molecular simulations aim to directly compute the behavior of the solution, including the interactions between all ions and molecules in the system. Both methods have limitations: theoretical models are generally less accurate because they rely on assumptions, while molecular simulations require significant computational resources, particularly if higher accuracy is desired. To address these issues, we propose an affordable and effective method that combines the advantages of the modified Poisson-Boltzmann equation (MPBE) with classical molecular dynamics (MD) simulations to predict the radial distribution functions and thermodynamic properties of electrolyte solutions. We demonstrate a method of using the MPBE to compute the short-range potential of mean force (PMF) from the radial distribution functions (RDFs) and vice versa. Furthermore, we provide insights into the relationship between the RDFs and the short-range PMF based on the MPBE. Our analysis reveals that the effective short-range PMFs can be approximately calculated using low concentration simulations but the short-range PMFs are slightly concentration-dependent in simulations at higher concentrations. Additionally, we demonstrate that for concentrated solutions, osmotic coefficients can be calculated in agreement with experiment using a virial approach. This is based on the effective short-range PMFs and RDFs obtained from the MPBE method. Our proposed MPBE can therefore accelerate the calculation of the structural and thermodynamic properties of electrolyte solutions.
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Affiliation(s)
- Junji Zhang
- School of Chemical Engineering, The University of Queensland, Brisbane, QLD 4072, Australia
| | - Debra J Searles
- Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane, QLD 4072, Australia
- School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD 4072, Australia
| | - Timothy Duignan
- School of Chemical Engineering, The University of Queensland, Brisbane, QLD 4072, Australia
- Queensland Micro- and Nanotechnology Centre, Griffith University, Nathan, QLD 4111, Australia
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Gao X, Han Z, Zhao Y, Zhou G, Lyu X, Qi Z, Liu F, Tucker ME, Steiner M, Han C. Interaction of microorganisms with carbonates from the micro to the macro scales during sedimentation: Insights into the early stage of biodegradation. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 356:120714. [PMID: 38537463 DOI: 10.1016/j.jenvman.2024.120714] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/17/2023] [Revised: 02/21/2024] [Accepted: 03/19/2024] [Indexed: 04/07/2024]
Abstract
The assembly process of Organic Matter (OM) from single molecules to polymers and the formation process of Ca-CO3 ion-pairs are explored at the micro-scale, and then the relationship between OM and carbonate based on the results of microbially-induced carbonate precipitation (MICP) laboratory experiments is established at the macro-scale. Molecular dynamics (MD) is used to model the assembly of OM (a) in an aqueous solution, (b) on surfaces of calcite (10 1‾ 4) crystals and (c) on defective calcite (101‾ 4) crystal surfaces. From the MICP experiments, carbonate minerals containing abundant OM were precipitated and were characterized by Scanning Electron Microscopy (SEM), X-Ray Diffractometry (XRD) and Fourier Transform Infrared Spectroscopy (FTIR). The results of the MD show that OM is assembled into polymers in all three simulation systems. Although the Ca-CO3 ion-pairs and OM were briefly combined, the aggregation assembly of OM molecules and the precipitation of carbonate calcium are not related in the long run. The highly specific surface area of the defective calcite shows an increase in the adsorption of OM. The van der Waals forces, which are primarily responsible for controlling the assembly of OM molecules, increase with the degree of aggregation. According to the MICP experiments, OM is enriched on the mineral surfaces, and more OM is found at the steps of defective crystals with their larger surface areas. Through MD and MICP laboratory experiments, this work systematically describes the interaction of OM and carbonate minerals from the micro to the macro scales, and this provides insight into the interaction between OM and carbonates and biogeochemical processes related to the accumulation of OM in sediments.
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Affiliation(s)
- Xiao Gao
- Shandong Provincial Key Laboratory of Depositional Mineralization and Sedimentary Minerals, College of Earth Science and Engineering, Shandong University of Science and Technology, Qingdao 266590, China; Laboratory for Marine Mineral Resources, Center for Isotope Geochemistry and Geochronology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China; College of Safety and Environmental Engineering, Shandong University of Science and Technology, Qingdao 266590, China
| | - Zuozhen Han
- Shandong Provincial Key Laboratory of Depositional Mineralization and Sedimentary Minerals, College of Earth Science and Engineering, Shandong University of Science and Technology, Qingdao 266590, China; Laboratory for Marine Mineral Resources, Center for Isotope Geochemistry and Geochronology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China
| | - Yanyang Zhao
- Shandong Provincial Key Laboratory of Depositional Mineralization and Sedimentary Minerals, College of Earth Science and Engineering, Shandong University of Science and Technology, Qingdao 266590, China; Laboratory for Marine Mineral Resources, Center for Isotope Geochemistry and Geochronology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China
| | - Gang Zhou
- College of Safety and Environmental Engineering, Shandong University of Science and Technology, Qingdao 266590, China
| | - Xiaowei Lyu
- Qingdao Qiushi Industrial Technology Research Institute, Qingdao 266427, China
| | - Zhenhua Qi
- Shandong Provincial Key Laboratory of Depositional Mineralization and Sedimentary Minerals, College of Earth Science and Engineering, Shandong University of Science and Technology, Qingdao 266590, China
| | - Fang Liu
- College of Chemical Engineering, China University of Petroleum, Qingdao 266580, China; State Key Laboratory of Petroleum Pollution Control, Beijing 102206, China
| | - Maurice E Tucker
- School of Earth Sciences, University of Bristol, Bristol BS8 1RJ, UK; Cabot Institute, University of Bristol, Cantock's Close, Bristol BS8 1UJ, UK
| | - Michael Steiner
- Shandong Provincial Key Laboratory of Depositional Mineralization and Sedimentary Minerals, College of Earth Science and Engineering, Shandong University of Science and Technology, Qingdao 266590, China; Department of Earth Sciences, Freie Universität Berlin, Malteserstrasse 74-100, Haus D, Berlin 12249, Germany
| | - Chao Han
- Shandong Provincial Key Laboratory of Depositional Mineralization and Sedimentary Minerals, College of Earth Science and Engineering, Shandong University of Science and Technology, Qingdao 266590, China; Laboratory for Marine Mineral Resources, Center for Isotope Geochemistry and Geochronology, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266237, China.
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Schuitemaker A, Koziara KB, Raiteri P, Gale JD, Demichelis R. New model for aspartic acid species in aqueous calcium carbonate growth environments: challenges and perspectives. Phys Chem Chem Phys 2024; 26:4909-4921. [PMID: 38261361 DOI: 10.1039/d3cp04674e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2024]
Abstract
The lack of experimental data on the dynamics of aspartic acid species in water for its range of protonation states and the details of their atomic-level interaction with aqueous calcium carbonate species is a driver for accurate force field development. A classical model that is consistent with the few pieces of experimental data available and with first principles calculations has been developed. The complex dynamics of the aspartate anions relevant to biomineralization and calcium carbonate crystal growth has been explored in water, providing a quantitative description of solvation structure and free energies, including conformational free energy profiles and pairing free energies. The model has been used to probe the structure and dynamics of aqueous calcium aspartate homo- and hetero-chiral clusters, confirming their unlikelihood due to weak and water-mediated interactions. This supports the hypothesis that the formation of such clusters, observed while growing vaterite in the presence of acidic chiral amino acids, is favoured by the presence of the crystal surface.
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Affiliation(s)
- Alicia Schuitemaker
- Australian Research Council Centre of Excellence in Exciton Science, School of Chemistry, University of Sydney, Sydney, New South Wales, Australia
- The University of Sydney Nano Institute, University of Sydney, Sydney, New South Wales, Australia
- School of Molecular and Life Sciences, Curtin University, GPO Box U1987, 6845 Perth, Western Australia, Australia.
| | - Katarzyna B Koziara
- School of Molecular and Life Sciences, Curtin University, GPO Box U1987, 6845 Perth, Western Australia, Australia.
| | - Paolo Raiteri
- School of Molecular and Life Sciences, Curtin University, GPO Box U1987, 6845 Perth, Western Australia, Australia.
| | - Julian D Gale
- School of Molecular and Life Sciences, Curtin University, GPO Box U1987, 6845 Perth, Western Australia, Australia.
| | - Raffaella Demichelis
- School of Molecular and Life Sciences, Curtin University, GPO Box U1987, 6845 Perth, Western Australia, Australia.
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Liu C, Liu C, Shi Z, Li Z, Wang X, Huang F. Trojan-horse mineralization of trigger factor to impregnate non-woven alginate fabrics for enhanced hemostatic efficacy. Carbohydr Polym 2023; 320:121213. [PMID: 37659813 DOI: 10.1016/j.carbpol.2023.121213] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2023] [Revised: 06/24/2023] [Accepted: 07/16/2023] [Indexed: 09/04/2023]
Abstract
Uncontrolled hemorrhage remains a leading cause of mortality after trauma. This work describes a facile mineralization strategy for enhancing hemostatic efficacy of alginate non-woven fabrics, involving the precipitation of amorphous CaCO3 induced by alginate fibers, along with Trojan-horse-like tissue factor (TF) encapsulation. The amorphous CaCO3 served as a transient carrier, capable of releasing Ca2+ and TF upon contact with blood. Coagulation test and rat tail cut and hemorrhaging liver models all revealed superior hemostatic capability of mineralized TF-in-alginate fabrics compared to bare fabrics, solely mineralized form, or commercial zeolite-modified gauze, benefiting from the combined hemostatic properties of alginate matrix and released Ca2+ and TF. Meanwhile, comprehensive biocompatibility and mechanical stability evaluations demonstrate the ternary composite's good biosafety. These results along with the extension study with chitosan- and cellulose-based dressings underline the great potential and versatility of polysaccharide-hemostat-mediated CaCO3 mineralization with TF integration for achieving rapid hemorrhage control.
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Affiliation(s)
- Chengkun Liu
- State Key Laboratory of Heavy Oil Processing & College of Chemistry and Chemical Engineering, China University of Petroleum (East China), 66 West Changjiang Road, Qingdao, Shandong 266580, China
| | - Chang Liu
- State Key Laboratory of Heavy Oil Processing & College of Chemistry and Chemical Engineering, China University of Petroleum (East China), 66 West Changjiang Road, Qingdao, Shandong 266580, China
| | - Zhuang Shi
- State Key Laboratory of Heavy Oil Processing & College of Chemistry and Chemical Engineering, China University of Petroleum (East China), 66 West Changjiang Road, Qingdao, Shandong 266580, China
| | - Zi Li
- State Key Laboratory of Heavy Oil Processing & College of Chemistry and Chemical Engineering, China University of Petroleum (East China), 66 West Changjiang Road, Qingdao, Shandong 266580, China
| | - Xiaoqiang Wang
- State Key Laboratory of Heavy Oil Processing & College of Chemistry and Chemical Engineering, China University of Petroleum (East China), 66 West Changjiang Road, Qingdao, Shandong 266580, China.
| | - Fang Huang
- State Key Laboratory of Heavy Oil Processing & College of Chemistry and Chemical Engineering, China University of Petroleum (East China), 66 West Changjiang Road, Qingdao, Shandong 266580, China
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Ramnarain V, Georges T, Ortiz Peña N, Ihiawakrim D, Longuinho M, Bulou H, Gervais C, Sanchez C, Azaïs T, Ersen O. Monitoring of CaCO 3 Nanoscale Structuration through Real-Time Liquid Phase Transmission Electron Microscopy and Hyperpolarized NMR. J Am Chem Soc 2022; 144:15236-15251. [PMID: 35971919 DOI: 10.1021/jacs.2c05731] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Calcium carbonate (CaCO3) is one of the most significant biominerals in nature. Living organisms are able to control its biomineralization by means of an organic matrix to tailor a myriad of hybrid functional materials. The soluble organic components are often proteins rich in acidic amino-acids such as l-aspartic acid. While several studies have demonstrated the influence of amino acids on the crystallization of calcium carbonate, nanoscopic insight of their impact on CaCO3 mineralization, in particular at the early stages, is still lacking. Herein, we implement liquid phase-transmission electron microscopy (LP-TEM) in order to visualize in real-time and at the nanoscale the prenucleation stages of CaCO3 formation. We observe that l-aspartic acid favors the formation of individual and aggregated prenucleation clusters which are found stable for several minutes before the transformation into amorphous nanoparticles. Combination with hyperpolarized solid state nuclear magnetic resonance (DNP NMR) and density functional theory (DFT) calculations allow shedding light on the underlying mechanism at the prenucleation stage. The promoting nature of l-aspartic acid with respect to prenucleation clusters is explained by specific interactions with both Ca2+ and carbonates and the stabilization of the Ca2+-CO32-/HCO3- ion pairs favoring the formation and stabilization of the CaCO3 transient precursors. The study of prenucleation stages of mineral formation by the combination of in situ LP-TEM, advanced analytical techniques (including hyperpolarized solid-state NMR), and numerical modeling allows the real-time monitoring of prenucleation species formation and evolution and the comprehension of their relative stability.
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Affiliation(s)
- Vinavadini Ramnarain
- Institut de Physique et Chimie des Matériaux de Strasbourg, 23 Rue du Loess, 67034 Strasbourg, Cedex 2, France.,ICFRC, 8 Allée Gaspard Monge, 67000 Strasbourg, France
| | - Tristan Georges
- Laboratoire de Chimie de Matière Condensée de Paris, Sorbonne Université, 75005 Paris, France
| | - Nathaly Ortiz Peña
- Laboratoire Matériaux et Phénomènes Quantiques, 75025 Paris, Cedex 13, France
| | - Dris Ihiawakrim
- Institut de Physique et Chimie des Matériaux de Strasbourg, 23 Rue du Loess, 67034 Strasbourg, Cedex 2, France.,ICFRC, 8 Allée Gaspard Monge, 67000 Strasbourg, France
| | - Mariana Longuinho
- CBPF, Rua Dr. Xavier Sigaud, 150 Urca I, CEP 22290-180, Rio de Janeiro, Brasil.,UFRJ, Av Pedro Calmon, 550 Edificio da Reitoria, Iha de do Fundao, CEP 21941-901 Rio de Janeiro, Brasil
| | - Hervé Bulou
- Institut de Physique et Chimie des Matériaux de Strasbourg, 23 Rue du Loess, 67034 Strasbourg, Cedex 2, France.,ICFRC, 8 Allée Gaspard Monge, 67000 Strasbourg, France
| | - Christel Gervais
- Laboratoire de Chimie de Matière Condensée de Paris, Sorbonne Université, 75005 Paris, France
| | - Clément Sanchez
- Laboratoire de Chimie de Matière Condensée de Paris, Sorbonne Université, 75005 Paris, France.,USIAS, Université de Strasbourg, 67000 Strasbourg, France
| | - Thierry Azaïs
- Laboratoire de Chimie de Matière Condensée de Paris, Sorbonne Université, 75005 Paris, France
| | - Ovidiu Ersen
- Institut de Physique et Chimie des Matériaux de Strasbourg, 23 Rue du Loess, 67034 Strasbourg, Cedex 2, France.,ICFRC, 8 Allée Gaspard Monge, 67000 Strasbourg, France
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