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Kim KT, Henkelman G, Katz LE, Werth CJ. New Insights into Calcite Dissolution Mechanisms under Water, Proton, or Carbonic Acid-Dominated Conditions. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:11331-11341. [PMID: 38907708 DOI: 10.1021/acs.est.4c00162] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/24/2024]
Abstract
Carbonate minerals are ubiquitous in nature, and their dissolution impacts many environmentally relevant processes including preferential flow during geological carbon sequestration, pH buffering with climate-change induced ocean acidification, and organic carbon bioavailability in melting permafrost. In this study, we advance the atomic level understanding of calcite dissolution mechanisms to improve our ability to predict this complex process. We performed high pressure and temperature (1300 psi and 50 °C) batch experiments to measure transient dissolution of freshly cleaved calcite under H2O, H+, and H2CO3-dominated conditions, without and with an inhibitory anionic surfactant present. Before and after dissolution experiments, we measured dissolution etch-pit geometries using laser profilometry, and we used density functional theory to investigate relative adsorption energies of competing species that affect dissolution. Our results support the hypothesis that calcite dissolution is controlled by the ability of H2O to preferentially adsorb to surface Ca atoms over competing species, even when dissolution is dominated by H+ or H2CO3. More importantly, we identify for the first time that adsorbed H+ enhances the role of water by weakening surface Ca-O bonds. We also identify that H2CO3 undergoes dissociative adsorption resulting in adsorbed HCO3- and H+. Adsorbed HCO3- that competes with H2O for Ca acute edge sites inhibits dissolution, while adsorbed H+ at the neighboring surface of CO3 enhances dissolution. The net effect of the dissociative adsorption of H2CO3 is enhanced dissolution. These results will impact future efforts to more accurately model the impact of solutes in complex water matrices on carbonate mineral dissolution.
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Affiliation(s)
- Kyung Tae Kim
- Department of Civil, Architecture & Environmental Engineering, The University of Texas at Austin, Austin, Texas 78721, Unites States
| | - Graeme Henkelman
- Department of Chemistry, The University of Texas at Austin, Austin, Texas 78721, United States
| | - Lynn E Katz
- Department of Civil, Architecture & Environmental Engineering, The University of Texas at Austin, Austin, Texas 78721, Unites States
| | - Charles J Werth
- Department of Civil, Architecture & Environmental Engineering, The University of Texas at Austin, Austin, Texas 78721, Unites States
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Claesson PM, Wojas NA, Corkery R, Dedinaite A, Schoelkopf J, Tyrode E. The dynamic nature of natural and fatty acid modified calcite surfaces. Phys Chem Chem Phys 2024; 26:2780-2805. [PMID: 38193529 DOI: 10.1039/d3cp04432g] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2024]
Abstract
Calcium carbonate, particularly in the form of calcite, is an abundant mineral widely used in both human-made products and biological systems. The calcite surface possesses a high surface energy, making it susceptible to the adsorption of organic contaminants. Moreover, the surface is also reactive towards a range of chemicals, including water. Consequently, studying and maintaining a clean and stable calcite surface is only possible under ultrahigh vacuum conditions and for limited amounts of time. When exposed to air or solution, the calcite surface undergoes rapid transformations, demanding a comprehensive understanding of the properties of calcite surfaces in different environments. Similarly, attention must also be directed towards the kinetics of changes, whether induced by fluctuating environments or at constant condition. All these aspects are encompassed in the expression "dynamic nature", and are of crucial importance in the context of the diverse applications of calcite. In many instances, the calcite surface is modified by adsorption of fatty acids to impart a desired nonpolar character. Although the binding between carboxylic acid groups and calcite surfaces is strong, the fatty acid layer used for surface modification undergoes significant alterations when exposed to water vapour and liquid water droplets. Therefore, it is also crucial to understand the dynamic nature of the adsorbed layer. This review article provides a comprehensive overview of the current understanding of both the dynamics of the calcite surface as well as when modified by fatty acid surface treatments.
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Affiliation(s)
- Per M Claesson
- KTH Royal Institute of Technology, Department of Chemistry, Division of Surface and Corrosion Science, Teknikringen 29, SE-100 44 Stockholm, Sweden.
| | - Natalia A Wojas
- RISE Research Institutes of Sweden, Division of Bioeconomy and Health - Material and Surface Design, Drottning Kristinas väg 61B, SE-114 28 Stockholm, Sweden
| | - Robert Corkery
- KTH Royal Institute of Technology, Department of Chemistry, Division of Surface and Corrosion Science, Teknikringen 29, SE-100 44 Stockholm, Sweden.
| | - Andra Dedinaite
- KTH Royal Institute of Technology, School of Engineering Sciences in Chemistry, Biotechnology and Health, Engineering Pedagogics, SE-100 44 Stockholm, Sweden
- RISE Research Institutes of Sweden, Division Bioeconomy and Health, Department Chemical Process and Pharmaceutical Development, Box 5604, SE-114 86 Stockholm, Sweden
| | | | - Eric Tyrode
- KTH Royal Institute of Technology, Department of Chemistry, Division of Surface and Corrosion Science, Teknikringen 29, SE-100 44 Stockholm, Sweden.
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Duchstein P, Löffler F, Zahn D. Efficient Assessment of 'Instantaneous pK' Values from Molecular Dynamics Simulations. Chemphyschem 2024; 25:e202300489. [PMID: 37927201 DOI: 10.1002/cphc.202300489] [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: 07/12/2023] [Revised: 10/30/2023] [Accepted: 10/30/2023] [Indexed: 11/07/2023]
Abstract
We present a molecular simulation approach to studying the role of local and momentary molecular environment for potential acid-base reactions. For this, we combine thermodynamic considerations on the pK of ionic species with rapid sampling of energy changes related to (de)protonation. Using dispersed carbonate ions in water as a reference, our approach aims at the fast assessment of the momentary protonation energy, and thus the 'instantaneous pK', of calcium-carbonate ion aggregates. The latter include transient complexes that are elusive to long sampling runs. This motivated the elaboration of approximate, yet particularly fast assessable sampling strategies. Along this line, we were able to characterize instantaneous pK values at a statistical accuracy of 0.4 pK units within sampling runs of only 10 ps duration, whereas statistical errors reduce to 0.1 pK units in 75 ps sampling runs, respectively. This readily enabled the required time resolution for the characterization of [Cax (CO3 )y ]2(x-y) aggregates with x=1,2 and y=1,2,3, respectively. In turn, the analysis of the pH-dependent nature of calcite-water interfaces and dynamically ordered liquid-like oxyanion polymers (dollop) domains is outlined at 10 ps resolution.
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Affiliation(s)
- Patrick Duchstein
- Lehrstuhl für Theoretische Chemie/Computer Chemie Centrum, Friedrich-Alexander Universität Erlangen-Nürnberg, Nägelsbachstraße 25, 91052, Erlangen, Germany
| | - Felix Löffler
- Lehrstuhl für Theoretische Chemie/Computer Chemie Centrum, Friedrich-Alexander Universität Erlangen-Nürnberg, Nägelsbachstraße 25, 91052, Erlangen, Germany
| | - Dirk Zahn
- Lehrstuhl für Theoretische Chemie/Computer Chemie Centrum, Friedrich-Alexander Universität Erlangen-Nürnberg, Nägelsbachstraße 25, 91052, Erlangen, Germany
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Davila-Hernandez FA, Jin B, Pyles H, Zhang S, Wang Z, Huddy TF, Bera AK, Kang A, Chen CL, De Yoreo JJ, Baker D. Directing polymorph specific calcium carbonate formation with de novo protein templates. Nat Commun 2023; 14:8191. [PMID: 38097544 PMCID: PMC10721895 DOI: 10.1038/s41467-023-43608-1] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2023] [Accepted: 11/15/2023] [Indexed: 12/17/2023] Open
Abstract
Biomolecules modulate inorganic crystallization to generate hierarchically structured biominerals, but the atomic structure of the organic-inorganic interfaces that regulate mineralization remain largely unknown. We hypothesized that heterogeneous nucleation of calcium carbonate could be achieved by a structured flat molecular template that pre-organizes calcium ions on its surface. To test this hypothesis, we design helical repeat proteins (DHRs) displaying regularly spaced carboxylate arrays on their surfaces and find that both protein monomers and protein-Ca2+ supramolecular assemblies directly nucleate nano-calcite with non-natural {110} or {202} faces while vaterite, which forms first in the absence of the proteins, is bypassed. These protein-stabilized nanocrystals then assemble by oriented attachment into calcite mesocrystals. We find further that nanocrystal size and polymorph can be tuned by varying the length and surface chemistry of the designed protein templates. Thus, bio-mineralization can be programmed using de novo protein design, providing a route to next-generation hybrid materials.
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Affiliation(s)
- Fatima A Davila-Hernandez
- Department of Biochemistry, University of Washington, Seattle, WA, 98195, USA
- Institute for Protein Design, University of Washington, Seattle, WA, 98105, USA
- Molecular Engineering Graduate Program, University of Washington, Seattle, WA, 98105, USA
| | - Biao Jin
- Physical Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA.
- Department of Materials Science and Engineering, University of Washington, Seattle, WA, 98195, USA.
| | - Harley Pyles
- Department of Biochemistry, University of Washington, Seattle, WA, 98195, USA
- Institute for Protein Design, University of Washington, Seattle, WA, 98105, USA
| | - Shuai Zhang
- Physical Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA
- Department of Materials Science and Engineering, University of Washington, Seattle, WA, 98195, USA
| | - Zheming Wang
- Physical Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA
| | - Timothy F Huddy
- Department of Biochemistry, University of Washington, Seattle, WA, 98195, USA
- Institute for Protein Design, University of Washington, Seattle, WA, 98105, USA
| | - Asim K Bera
- Department of Biochemistry, University of Washington, Seattle, WA, 98195, USA
- Institute for Protein Design, University of Washington, Seattle, WA, 98105, USA
| | - Alex Kang
- Department of Biochemistry, University of Washington, Seattle, WA, 98195, USA
- Institute for Protein Design, University of Washington, Seattle, WA, 98105, USA
| | - Chun-Long Chen
- Physical Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA
- Department of Chemical Engineering, University of Washington, Seattle, WA, 98195, USA
| | - James J De Yoreo
- Physical Sciences Division, Pacific Northwest National Laboratory, Richland, WA, 99352, USA.
- Department of Materials Science and Engineering, University of Washington, Seattle, WA, 98195, USA.
| | - David Baker
- Department of Biochemistry, University of Washington, Seattle, WA, 98195, USA.
- Institute for Protein Design, University of Washington, Seattle, WA, 98105, USA.
- Howard Hughes Medical Institute, University of Washington, Seattle, WA, 98105, USA.
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Drecun O, Striolo A, Bernardini C, Sarwar M. Hydration Structures on γ-Alumina Surfaces With and Without Electrolytes Probed by Atomistic Molecular Dynamics Simulations. J Phys Chem B 2022; 126:9105-9122. [PMID: 36321420 PMCID: PMC9661474 DOI: 10.1021/acs.jpcb.2c06491] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
A wide range of systems, both engineered and natural, feature aqueous electrolyte solutions at interfaces. In this study, the structure and dynamics of water at the two prevalent crystallographic terminations of gamma-alumina, [110] and [100], and the influence of salts─sodium chloride, ammonium acetate, barium acetate, and barium nitrate on such properties─were investigated using equilibrium molecular dynamics simulations. The resulting interfacial phenomena were quantified from simulation trajectories via atomic density profiles, angle probability distributions, residence times, 2-D density distributions within the hydration layers, and hydrogen bond density profiles. Analysis and interpretation of the results are supported by simulation snapshots. Taken together, our results show stronger interaction and closer association of water with the [110] surface, compared to [100], while ion-induced disruption of interfacial water structure was more prevalent at the [100] surface. For the latter, a stronger association of cations is observed, namely sodium and ammonium, and ion adsorption appears determined by their size. The differences in surface-water interactions between the two terminations are linked to their respective surface features and distributions of surface groups, with atomistic-scale roughness of the [110] surface promoting closer association of interfacial water. The results highlight the fundamental role of surface characteristics in determining surface-water interactions, and the resulting effects on ion-surface and ion-water interactions. Since the two terminations of gamma-alumina considered represent interfaces of significance to numerous industrial applications, the results provide insights relevant for catalyst preparation and adsorption-based water treatment, among other applications.
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Affiliation(s)
- Olivera Drecun
- Department
of Chemical Engineering, University College
London, London WC1E 7JE, United Kingdom
| | - Alberto Striolo
- Department
of Chemical Engineering, University College
London, London WC1E 7JE, United Kingdom,School
of Chemical, Biological and Materials Engineering, University of Oklahoma, Norman, Oklahoma 73019, United States,
| | - Cecilia Bernardini
- Johnson
Matthey Technology Centre, Sonning Common, Reading RG4 9NH, United Kingdom
| | - Misbah Sarwar
- Johnson
Matthey Technology Centre, Sonning Common, Reading RG4 9NH, United Kingdom
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John S, Kühnle A. Hydration Structure at the Calcite-Water (10.4) Interface in the Presence of Rubidium Chloride. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2022; 38:11691-11698. [PMID: 36120896 DOI: 10.1021/acs.langmuir.2c01745] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Solid-liquid interfaces are of significant importance in a multitude of geochemical and technological fields. More specifically, the solvation structure plays a decisive role in the properties of the interfaces. Atomic force microscopy (AFM) has been used to resolve the interfacial hydration structure in the presence and absence of ions. Despite many studies investigating the calcite-water interface, the impact of ions on the hydration structure at this interface has rarely been studied. Here, we investigate the calcite-water interface at various concentrations (ranging from 0 to 5 M) of rubidium chloride (RbCl) using three-dimensional atomic force microscopy (3D AFM). We present molecularly resolved images of the hydration structure at the interface. Interestingly, the characteristic pattern of the hydration structure appears similar regardless of the RbCl concentration. The presence of the ions is detected in an indirect manner by more frequent contrast changes and slice displacements.
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Affiliation(s)
- Simon John
- Physical Chemistry I, Faculty of Chemistry, Bielefeld University, Universitätsstraße 25, 33615 Bielefeld, Germany
| | - Angelika Kühnle
- Physical Chemistry I, Faculty of Chemistry, Bielefeld University, Universitätsstraße 25, 33615 Bielefeld, Germany
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Dos and don'ts tutorial for sample alignment in sum frequency generation spectroscopy. Biointerphases 2022; 17:031203. [PMID: 35549393 DOI: 10.1116/6.0001851] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
This Tutorial aims to provide a concise yet practical guideline for different scenarios that one may face in a sum frequency generation (SFG) spectroscopy laboratory, especially when it comes to sample alignment. The effort is made to reconstruct the real and often challenging sample alignment conditions for a broad range of liquid or solid samples interfacing solid, liquid, or gas phases, with a pedagogical approach. Both newcomer operators of an SFG setup without a strong experience in nonlinear spectroscopy and the more experienced SFG users can utilize the approaches that are provided in this Tutorial for an easier and more reliable sample alignment in their SFG laboratories.
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