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Sardo M, Morais T, Soares M, Vieira R, Ilkaeva M, Lourenço MAO, Marín-Montesinos I, Mafra L. Unravelling the structure of CO 2 in silica adsorbents: an NMR and computational perspective. Chem Commun (Camb) 2024; 60:4015-4035. [PMID: 38525497 PMCID: PMC11003455 DOI: 10.1039/d3cc05942a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2023] [Accepted: 03/08/2024] [Indexed: 03/26/2024]
Abstract
This comprehensive review describes recent advancements in the use of solid-state NMR-assisted methods and computational modeling strategies to unravel gas adsorption mechanisms and CO2 speciation in porous CO2-adsorbent silica materials at the atomic scale. This work provides new perspectives for the innovative modifications of these materials rendering them more amenable to the use of advanced NMR methods.
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Affiliation(s)
- Mariana Sardo
- CICECO - Aveiro Institute of Materials, Department of Chemistry, University of Aveiro, 3810-193 Aveiro, Portugal.
| | - Tiago Morais
- CICECO - Aveiro Institute of Materials, Department of Chemistry, University of Aveiro, 3810-193 Aveiro, Portugal.
- Department of Chemistry, University of Iceland, Science Institute, Dunhaga 3, 107 Reykjavik, Iceland
| | - Márcio Soares
- CICECO - Aveiro Institute of Materials, Department of Chemistry, University of Aveiro, 3810-193 Aveiro, Portugal.
| | - Ricardo Vieira
- CICECO - Aveiro Institute of Materials, Department of Chemistry, University of Aveiro, 3810-193 Aveiro, Portugal.
| | - Marina Ilkaeva
- CICECO - Aveiro Institute of Materials, Department of Chemistry, University of Aveiro, 3810-193 Aveiro, Portugal.
- Department of Chemical and Environmental Engineering, University of Oviedo, Av. Julián Clavería 8, 33006 Oviedo, Spain
| | - Mirtha A O Lourenço
- CICECO - Aveiro Institute of Materials, Department of Chemistry, University of Aveiro, 3810-193 Aveiro, Portugal.
| | - Ildefonso Marín-Montesinos
- CICECO - Aveiro Institute of Materials, Department of Chemistry, University of Aveiro, 3810-193 Aveiro, Portugal.
| | - Luís Mafra
- CICECO - Aveiro Institute of Materials, Department of Chemistry, University of Aveiro, 3810-193 Aveiro, Portugal.
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2
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Vlugt TJH. Partial molar properties from single molecular dynamics simulations. MOLECULAR SIMULATION 2022. [DOI: 10.1080/08927022.2022.2126509] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/14/2022]
Affiliation(s)
- Thijs J. H. Vlugt
- Engineering Thermodynamics, Process & Energy Department, Faculty of Mechanical, Maritime and Materials Engineering, Delft, The Netherlands
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3
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Ustinov EA, Gorbunov VA, Akimenko SS. Thermodynamics of self-assembled molecular layers of trimesic acid from fields-supported kinetic Monte Carlo simulation. Phys Chem Chem Phys 2022; 24:26111-26123. [DOI: 10.1039/d2cp03380a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
A technique has been developed for calculating the thermodynamic characteristics of rigid self-assembled organic adsorption layers and the parameters of polymorphic transitions using two types of external fields and the kinetic Monte Carlo method.
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Affiliation(s)
- Eugene A. Ustinov
- Ioffe Institute, 26 Polytechnicheskaya, St. Petersburg, 194021, Russian Federation
| | - Vitaly A. Gorbunov
- Ioffe Institute, 26 Polytechnicheskaya, St. Petersburg, 194021, Russian Federation
- Omsk State Technical University, 11 Pr. Mira, Omsk, 644050, Russian Federation
| | - Sergey S. Akimenko
- Ioffe Institute, 26 Polytechnicheskaya, St. Petersburg, 194021, Russian Federation
- Omsk State Technical University, 11 Pr. Mira, Omsk, 644050, Russian Federation
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4
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Salehi HS, Polat HM, de Meyer F, Houriez C, Coquelet C, Vlugt TJH, Moultos OA. Vapor pressures and vapor phase compositions of choline chloride urea and choline chloride ethylene glycol deep eutectic solvents from molecular simulation. J Chem Phys 2021; 155:114504. [PMID: 34551525 DOI: 10.1063/5.0062408] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022] Open
Abstract
Despite the widespread acknowledgment that deep eutectic solvents (DESs) have negligible vapor pressures, very few studies in which the vapor pressures of these solvents are measured or computed are available. Similarly, the vapor phase composition is known for only a few DESs. In this study, for the first time, the vapor pressures and vapor phase compositions of choline chloride urea (ChClU) and choline chloride ethylene glycol (ChClEg) DESs are computed using Monte Carlo simulations. The partial pressures of the DES components were obtained from liquid and vapor phase excess Gibbs energies, computed using thermodynamic integration. The enthalpies of vaporization were computed from the obtained vapor pressures, and the results were in reasonable agreement with the few available experimental data in the literature. It was found that the vapor phases of both DESs were dominated by the most volatile component (hydrogen bond donor, HBD, i.e., urea or ethylene glycol), i.e., 100% HBD in ChClEg and 88%-93% HBD in ChClU. Higher vapor pressures were observed for ChClEg compared to ChClU due to the higher volatility of ethylene glycol compared to urea. The influence of the liquid composition of the DESs on the computed properties was studied by considering different mole fractions (i.e., 0.6, 0.67, and 0.75) of the HBD. Except for the partial pressure of ethylene glycol in ChClEg, all the computed partial pressures and enthalpies of vaporization showed insensitivity toward the liquid composition. The activity coefficient of ethylene glycol in ChClEg was computed at different liquid phase mole fractions, showing negative deviations from Raoult's law.
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Affiliation(s)
- Hirad S Salehi
- Engineering Thermodynamics, Process & Energy Department, Faculty of Mechanical, Maritime and Materials Engineering, Delft University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
| | - H Mert Polat
- Engineering Thermodynamics, Process & Energy Department, Faculty of Mechanical, Maritime and Materials Engineering, Delft University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
| | - Frédérick de Meyer
- CCUS and Acid Gas Entity, Liquefied Natural Gas Department, Exploration Production, Total Energies S.E., 92078 Paris, France
| | - Céline Houriez
- CTP - Centre of Thermodynamics of Processes, Mines ParisTech, PSL University, 35 rue Saint Honoré, 77305 Fontainebleau, France
| | - Christophe Coquelet
- CTP - Centre of Thermodynamics of Processes, Mines ParisTech, PSL University, 35 rue Saint Honoré, 77305 Fontainebleau, France
| | - Thijs J H Vlugt
- Engineering Thermodynamics, Process & Energy Department, Faculty of Mechanical, Maritime and Materials Engineering, Delft University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
| | - Othonas A Moultos
- Engineering Thermodynamics, Process & Energy Department, Faculty of Mechanical, Maritime and Materials Engineering, Delft University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
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5
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Eslami H, Das S, Zhou T, Müller-Plathe F. How Alcoholic Disinfectants Affect Coronavirus Model Membranes: Membrane Fluidity, Permeability, and Disintegration. J Phys Chem B 2020; 124:10374-10385. [PMID: 33172260 PMCID: PMC7670823 DOI: 10.1021/acs.jpcb.0c08296] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/11/2020] [Revised: 10/28/2020] [Indexed: 01/17/2023]
Abstract
Atomistic molecular dynamics simulations have been carried out with a view to investigating the stability of the SARS-CoV-2 exterior membrane with respect to two common disinfectants, namely, aqueous solutions of ethanol and n-propanol. We used dipalmitoylphosphatidylcholine (DPPC) as a model membrane material and did simulations on both gel and liquid crystalline phases of membrane surrounded by aqueous solutions of varying alcohol concentrations (up to 17.5 mol %). While a moderate effect of alcohol on the gel phase of membrane is observed, its liquid crystalline phase is shown to be influenced dramatically by either alcohol. Our results show that aqueous solutions of only 5 and 10 mol % alcohol already have significant weakening effects on the membrane. The effects of n-propanol are always stronger than those of ethanol. The membrane changes its structure, when exposed to disinfectant solutions; uptake of alcohol causes it to swell laterally but to shrink vertically. At the same time, the orientational order of lipid tails decreases significantly. Metadynamics and grand-canonical ensemble simulations were done to calculate the free-energy profiles for permeation of alcohol and alcohol/water solubility in the DPPC. We found that the free-energy barrier to permeation of the DPPC liquid crystalline phase by all permeants is significantly lowered by alcohol uptake. At a disinfectant concentration of 10 mol %, it becomes insignificant enough to allow almost free passage of the disinfectant to the inside of the virus to cause damage there. It should be noted that the disinfectant also causes the barrier for water permeation to drop. Furthermore, the shrinking of the membrane thickness shortens the gap needed to be crossed by penetrants from outside the virus into its core. The lateral swelling also increases the average distance between head groups, which is a secondary barrier to membrane penetration, and hence further increases the penetration by disinfectants. At alcohol concentrations in the disinfectant solution above 15 mol %, we reliably observe disintegration of the DPPC membrane in its liquid crystalline phase.
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Affiliation(s)
- Hossein Eslami
- Eduard-Zintl-Institut
für Anorganische und Physikalische Chemie, Technische Universität Darmstadt, Alarich-Weiss-Str. 8, Darmstadt 64287, Germany
- Department
of Chemistry, College of Sciences, Persian
Gulf University, Boushehr 75168, Iran
| | - Shubhadip Das
- Eduard-Zintl-Institut
für Anorganische und Physikalische Chemie, Technische Universität Darmstadt, Alarich-Weiss-Str. 8, Darmstadt 64287, Germany
| | - Tianhang Zhou
- Eduard-Zintl-Institut
für Anorganische und Physikalische Chemie, Technische Universität Darmstadt, Alarich-Weiss-Str. 8, Darmstadt 64287, Germany
| | - Florian Müller-Plathe
- Eduard-Zintl-Institut
für Anorganische und Physikalische Chemie, Technische Universität Darmstadt, Alarich-Weiss-Str. 8, Darmstadt 64287, Germany
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Rahbari A, Hens R, Ramdin M, Moultos OA, Dubbeldam D, Vlugt TJH. Recent advances in the continuous fractional component Monte Carlo methodology. MOLECULAR SIMULATION 2020. [DOI: 10.1080/08927022.2020.1828585] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
- A. Rahbari
- Engineering Thermodynamics, Process & Energy Department, Faculty of Mechanical, Maritime and Materials Engineering, Delft University of Technology, Delft, Netherlands
| | - R. Hens
- Engineering Thermodynamics, Process & Energy Department, Faculty of Mechanical, Maritime and Materials Engineering, Delft University of Technology, Delft, Netherlands
| | - M. Ramdin
- Engineering Thermodynamics, Process & Energy Department, Faculty of Mechanical, Maritime and Materials Engineering, Delft University of Technology, Delft, Netherlands
| | - O. A. Moultos
- Engineering Thermodynamics, Process & Energy Department, Faculty of Mechanical, Maritime and Materials Engineering, Delft University of Technology, Delft, Netherlands
| | - D. Dubbeldam
- Van 't Hoff Institute for Molecular Sciences, University of Amsterdam, Amsterdam, Netherlands
| | - T. J. H. Vlugt
- Engineering Thermodynamics, Process & Energy Department, Faculty of Mechanical, Maritime and Materials Engineering, Delft University of Technology, Delft, Netherlands
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7
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Hens R, Rahbari A, Caro-Ortiz S, Dawass N, Erdős M, Poursaeidesfahani A, Salehi HS, Celebi AT, Ramdin M, Moultos OA, Dubbeldam D, Vlugt TJH. Brick-CFCMC: Open Source Software for Monte Carlo Simulations of Phase and Reaction Equilibria Using the Continuous Fractional Component Method. J Chem Inf Model 2020; 60:2678-2682. [PMID: 32275829 PMCID: PMC7312392 DOI: 10.1021/acs.jcim.0c00334] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2020] [Indexed: 12/02/2022]
Abstract
We present a new molecular simulation code, Brick-CFCMC, for performing Monte Carlo simulations using state-of-the-art simulation techniques. The Continuous Fractional Component (CFC) method is implemented for simulations in the NVT/NPT ensembles, the Gibbs Ensemble, the Grand-Canonical Ensemble, and the Reaction Ensemble. Molecule transfers are facilitated by the use of fractional molecules which significantly improve the efficiency of the simulations. With the CFC method, one can obtain phase equilibria and properties such as chemical potentials and partial molar enthalpies/volumes directly from a single simulation. It is possible to combine trial moves from different ensembles. This enables simulations of phase equilibria in a system where also a chemical reaction takes place. We demonstrate the applicability of our software by investigating the esterification of methanol with acetic acid in a two-phase system.
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Affiliation(s)
- Remco Hens
- Engineering
Thermodynamics, Process & Energy Department, Faculty of Mechanical,
Maritime and Materials Engineering, Delft
University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
| | - Ahmadreza Rahbari
- Engineering
Thermodynamics, Process & Energy Department, Faculty of Mechanical,
Maritime and Materials Engineering, Delft
University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
| | - Sebastián Caro-Ortiz
- Engineering
Thermodynamics, Process & Energy Department, Faculty of Mechanical,
Maritime and Materials Engineering, Delft
University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
| | - Noura Dawass
- Engineering
Thermodynamics, Process & Energy Department, Faculty of Mechanical,
Maritime and Materials Engineering, Delft
University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
| | - Máté Erdős
- Engineering
Thermodynamics, Process & Energy Department, Faculty of Mechanical,
Maritime and Materials Engineering, Delft
University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
| | - Ali Poursaeidesfahani
- Engineering
Thermodynamics, Process & Energy Department, Faculty of Mechanical,
Maritime and Materials Engineering, Delft
University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
| | - Hirad S. Salehi
- Engineering
Thermodynamics, Process & Energy Department, Faculty of Mechanical,
Maritime and Materials Engineering, Delft
University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
| | - Alper T. Celebi
- Engineering
Thermodynamics, Process & Energy Department, Faculty of Mechanical,
Maritime and Materials Engineering, Delft
University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
| | - Mahinder Ramdin
- Engineering
Thermodynamics, Process & Energy Department, Faculty of Mechanical,
Maritime and Materials Engineering, Delft
University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
| | - Othonas A. Moultos
- Engineering
Thermodynamics, Process & Energy Department, Faculty of Mechanical,
Maritime and Materials Engineering, Delft
University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
| | - David Dubbeldam
- Van’t
Hoff Institute for Molecular Sciences, University
of Amsterdam, Science Park 904, 1098XH Amsterdam, The Netherlands
| | - Thijs J. H. Vlugt
- Engineering
Thermodynamics, Process & Energy Department, Faculty of Mechanical,
Maritime and Materials Engineering, Delft
University of Technology, Leeghwaterstraat 39, 2628CB Delft, The Netherlands
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