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Požar M, Lovrinčević B, Perera A. The influence of charge ordering in the microscopic structure of monohydroxy alcohols. JOURNAL OF PHYSICS. CONDENSED MATTER : AN INSTITUTE OF PHYSICS JOURNAL 2024; 36:265102. [PMID: 38537282 DOI: 10.1088/1361-648x/ad3870] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2023] [Accepted: 03/27/2024] [Indexed: 04/06/2024]
Abstract
While radiation scattering data provides insight inside the microstructure of liquids, the Debye relation relating the scattering intensityI(k) to the atom-atom structure factorsSab(k)shows that, ultimately, it is these individual structure correlation functions which contain the relevant information about the micro-structure. However, these quantities are not observables, except in few cases where one can invert the Debye relation to obtain the structure functions. In the majority of other cases, the need for model dependent computer simulations is unavoidable. The resulting calculations reveal that the scattering pre-peak is the result of cancellations between positive pre-peaks and negative anti-peaks contributions from the atom-atom structure factors. What of systems where this cancellation is such that it entirely suppresses the scattering pre-peak? One would be tempted to falsely conclude that there is no underlying micro-heterogeneity. Hence, the structure functions appear as hidden variables, and it is important to understand the relation between their features and the micro-structure of the system. Through the computer simulation study of various mono-ols, ranging from methanol to 1-nonanol, as well as the branched octanols, we show how the features of the atom-atom pair correlation functiongab(r)affect that of the structure factorsSab(k), and reveal that the micro-structure is ultimately the result of the charge ordering between different atoms in the system.
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Affiliation(s)
- Martina Požar
- Department of Physics, Faculty of Science, University of Split, Rudjera Boškovića 33, 21000 Split, Croatia
| | - Bernarda Lovrinčević
- Department of Physics, Faculty of Science, University of Split, Rudjera Boškovića 33, 21000 Split, Croatia
| | - Aurélien Perera
- Department of Physics, Faculty of Science, University of Split, Rudjera Boškovića 33, 21000 Split, Croatia
- Laboratoire de Physique Théorique de la Matière Condensée (UMR CNRS 7600), Sorbonne Université, 4 Place Jussieu, F75252 Paris cedex 05, France
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Požar M, Bolle J, Dogan-Surmeier S, Schneider E, Paulus M, Sternemann C, Perera A. On the dual behaviour of water in octanol-rich aqueous n-octanol mixtures: an X-ray scattering and computer simulation study. Phys Chem Chem Phys 2024; 26:4099-4110. [PMID: 38226462 DOI: 10.1039/d3cp04651f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2024]
Abstract
Aqueous n-octanol (n = 1, 2, 3, and 4) mixtures from the octanol rich side are studied by X-ray scattering and computer simulation, with a focus on structural changes, particularly in what concerns the hydration of the hydroxyl-group aggregated chain-like structures, under the influence of various branching of the alkyl tails. Previous studies have indicated that hydroxyl-group chain-cluster formation is hindered in proportion to the branching number. Here, water mole fractions up to x = 0.2 are examined, i.e. up to the miscibility limit. It is found that water molecules within the hydroxyl-chain domains participate in the chain formations in a different manner for 1-octanol and the branched octanols. The hydration of the octanol hydroxyl chains is confirmed by the shifting of the scattering pre-peak position kPP to smaller values, both from measured and simulated X-ray scattering intensities, which corresponds to an increased size of the clusters. Experimental pre-peak amplitudes are seen to increase with increasing water content for 1-octanol, while this trend is reversed in all branched octanols, with the amplitudes decreasing with the increase of the branching number. Conjecturing that the amplitudes of pre-peaks are related to the density of the corresponding aggregates, these results are interpreted as water breaking large OH hydroxyl chains in 1-octanol, hence increasing the density of aggregates, while enhancing hydroxyl aggregates in branched alcohols by inserting itself into the OH chains. The analysis of the cluster distributions from computer simulations provide more details on the role of water. For cluster sizes smaller than dc = 2π/kPP, water is found to always play the role of a structure enforcer for all n-octanols, while for clusters of size dc water is always a destructor. For cluster sizes larger than dc, the role of water differs from 1-octanol and the branched ones: it acts as a structure maker or breaker in inverse proportion to the hindering of OH hydroxyl chain structures arising from the topology of the alkyl tails (branched or not).
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Affiliation(s)
- Martina Požar
- Faculty of Science, University of Split, Ru era Boškovic'a 33, 21000 Split, Croatia.
| | - Jennifer Bolle
- Fakultät Physik/DELTA, Technische Universität Dortmund, D-44221 Dortmund, Germany
| | | | - Eric Schneider
- Fakultät Physik/DELTA, Technische Universität Dortmund, D-44221 Dortmund, Germany
| | - Michael Paulus
- Fakultät Physik/DELTA, Technische Universität Dortmund, D-44221 Dortmund, Germany
| | - Christian Sternemann
- Fakultät Physik/DELTA, Technische Universität Dortmund, D-44221 Dortmund, Germany
| | - Aurélien Perera
- Laboratoire de Physique Théorique de la Matière Condensée (UMR CNRS 7600), Sorbonne Université, 4 Place Jussieu, F75252, Paris cedex 05, France.
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3
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Semenescu AD, Moacă EA, Iftode A, Dehelean CA, Tchiakpe-Antal DS, Vlase L, Rotunjanu S, Muntean D, Chiriac SD, Chioibaş R. Recent Updates Regarding the Antiproliferative Activity of Galium verum Extracts on A375 Human Malignant Melanoma Cell Line. Life (Basel) 2024; 14:112. [PMID: 38255727 PMCID: PMC10820234 DOI: 10.3390/life14010112] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2023] [Revised: 01/04/2024] [Accepted: 01/08/2024] [Indexed: 01/24/2024] Open
Abstract
The biological activity of Galium verum herba was exerted on various tumor cell lines with incredible results, but their potential effect on malignant melanoma has not been established yet. Therefore, the current study was structured in two directions: (i) the investigation of the phytochemical profile of diethyl ether (GvDEE) and butanol (GvBuOH) extracts of G. verum L. and (ii) the evaluation of their biological profile on A375 human malignant melanoma cell line. The GvDEE extract showed an FT-IR profile different from the butanol one, with high antioxidant capacity (EC50 of GvDEE = 0.12 ± 0.03 mg/mL > EC50 of GvBuOH = 0.18 ± 0.05 mg/mL). The GvDEE extract also showed antimicrobial potential, especially against Gram-positive bacteria strains, compared to the butanol extract, which has no antimicrobial activity against any bacterial strain tested. The results regarding the antitumor potential showed that both extracts decreased A375 cell viability largely (69% at a dose of 55 µg/mL of the GvDEE extract). Moreover, both extracts induce nuclear fragmentation by forming apoptotic bodies and slight chromatin condensation, which is more intense for GvDEE. Considering the results, one can state that the Galium verum herba possesses antitumor effects on the A375 human malignant melanoma cell line, a promising phytocompound for the antitumor approach to skin cancer.
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Affiliation(s)
- Alexandra-Denisa Semenescu
- Department of Toxicology, Drug Industry, Management and Legislation, Faculty of Pharmacy, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timisoara, Romania; (A.-D.S.); (E.-A.M.); (C.-A.D.)
- Research Centre for Pharmaco-Toxicological Evaluation, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timisoara, Romania
| | - Elena-Alina Moacă
- Department of Toxicology, Drug Industry, Management and Legislation, Faculty of Pharmacy, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timisoara, Romania; (A.-D.S.); (E.-A.M.); (C.-A.D.)
- Research Centre for Pharmaco-Toxicological Evaluation, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timisoara, Romania
| | - Andrada Iftode
- Department of Toxicology, Drug Industry, Management and Legislation, Faculty of Pharmacy, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timisoara, Romania; (A.-D.S.); (E.-A.M.); (C.-A.D.)
- Research Centre for Pharmaco-Toxicological Evaluation, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timisoara, Romania
| | - Cristina-Adriana Dehelean
- Department of Toxicology, Drug Industry, Management and Legislation, Faculty of Pharmacy, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timisoara, Romania; (A.-D.S.); (E.-A.M.); (C.-A.D.)
- Research Centre for Pharmaco-Toxicological Evaluation, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timisoara, Romania
| | - Diana-Simona Tchiakpe-Antal
- Department of Pharmaceutical Botany, Faculty of Pharmacy, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timisoara, Romania;
| | - Laurian Vlase
- Department of Pharmaceutical Technology and Biopharmaceutics, Faculty of Pharmacy, “Iuliu Hatieganu” University of Medicine and Pharmacy, 8th Victor Babes Street, 400347 Cluj-Napoca, Romania;
| | - Slavita Rotunjanu
- Department of Pharmacology-Pharmacotherapy, Faculty of Pharmacy, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timisoara, Romania;
| | - Delia Muntean
- Department of Microbiology, Faculty of Medicine, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timisoara, Romania;
- Multidisciplinary Research Center on Antimicrobial Resistance, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timisoara, Romania
| | - Sorin Dan Chiriac
- Department X—Surgery II, Faculty of Medicine, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timisoara, Romania;
| | - Raul Chioibaş
- Department IX—Surgery I, Faculty of Medicine, “Victor Babes” University of Medicine and Pharmacy Timisoara, 2nd Eftimie Murgu Square, 300041 Timișoara, Romania;
- CBS Medcom Hospital, 12th Popa Sapca Street, 300047 Timisoara, Romania
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Macchiagodena M, Bassu G, Vettori I, Fratini E, Procacci P, Pagliai M. 2-Butanol Aqueous Solutions: A Combined Molecular Dynamics and Small/Wide-Angle X-ray Scattering Study. J Phys Chem A 2022; 126:8826-8833. [DOI: 10.1021/acs.jpca.2c05708] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Affiliation(s)
- Marina Macchiagodena
- Dipartimento di Chimica “Ugo Schiff”, Università degli Studi di Firenze, Via della Lastruccia 3, 50019 Sesto Fiorentino, Firenze, Italy
| | - Gavino Bassu
- Dipartimento di Chimica “Ugo Schiff”, Università degli Studi di Firenze, Via della Lastruccia 3, 50019 Sesto Fiorentino, Firenze, Italy
- Consorzio per lo Sviluppo dei Sistemi a Grande Interfase (CSGI), Via della Lastruccia 3, 50019 Sesto Fiorentino, Firenze, Italy
| | - Irene Vettori
- Dipartimento di Chimica “Ugo Schiff”, Università degli Studi di Firenze, Via della Lastruccia 3, 50019 Sesto Fiorentino, Firenze, Italy
- Consorzio per lo Sviluppo dei Sistemi a Grande Interfase (CSGI), Via della Lastruccia 3, 50019 Sesto Fiorentino, Firenze, Italy
| | - Emiliano Fratini
- Dipartimento di Chimica “Ugo Schiff”, Università degli Studi di Firenze, Via della Lastruccia 3, 50019 Sesto Fiorentino, Firenze, Italy
- Consorzio per lo Sviluppo dei Sistemi a Grande Interfase (CSGI), Via della Lastruccia 3, 50019 Sesto Fiorentino, Firenze, Italy
| | - Piero Procacci
- Dipartimento di Chimica “Ugo Schiff”, Università degli Studi di Firenze, Via della Lastruccia 3, 50019 Sesto Fiorentino, Firenze, Italy
| | - Marco Pagliai
- Dipartimento di Chimica “Ugo Schiff”, Università degli Studi di Firenze, Via della Lastruccia 3, 50019 Sesto Fiorentino, Firenze, Italy
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Reetz MT, König G. n
‐Butanol: An Ecologically and Economically Viable Extraction Solvent for Isolating Polar Products from Aqueous Solutions. European J Org Chem 2021. [DOI: 10.1002/ejoc.202100829] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Manfred T. Reetz
- Max-Planck-Institut für Kohlenforschung Kaiser-Wilhelm-Platz 1 45470 Mülheim an der Ruhr Germany
- Tianjin Institute of Industrial Biotechnology Chinese Academy of Sciences Tianjin China
| | - Gerhard König
- Centre for Enzyme Innovation University of Portsmouth St Michael's Building Portsmouth PO1 2DT United Kingdom
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Bolle J, Bierwirth SP, Požar M, Perera A, Paulus M, Münzner P, Albers C, Dogan S, Elbers M, Sakrowski R, Surmeier G, Böhmer R, Tolan M, Sternemann C. Isomeric effects in structure formation and dielectric dynamics of different octanols. Phys Chem Chem Phys 2021; 23:24211-24221. [PMID: 34693949 DOI: 10.1039/d1cp02468j] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The understanding of the microstructure of associated liquids promoted by hydrogen-bonding and constrained by steric hindrance is highly relevant in chemistry, physics, biology and for many aspects of daily life. In this study we use a combination of X-ray diffraction, dielectric spectroscopy and molecular dynamics simulations to reveal temperature induced changes in the microstructure of different octanol isomers, i.e., linear 1-octanol and branched 2-, 3- and 4-octanol. In all octanols, the hydroxyl groups form the basis of chain-, cyclic- or loop-like bonded structures that are separated by outwardly directed alkyl chains. This clustering is analyzed through the scattering pre-peaks observed from X-ray scattering and simulations. The charge ordering which pilots OH aggregation can be linked to the strength of the Debye process observed in dielectric spectroscopy. Interestingly, all methods used here converge to the same interpretation: as one moves from 1-octanol to the branched octanols, the cluster structure evolves from loose large aggregates to a larger number of smaller, tighter aggregates. All alcohols exhibit a peculiar temperature dependence of both the pre-peak and Debye process, which can be understood as a change in microstructure promoted by chain association with increased chain length possibly assisted by ring-opening effects. All these results tend to support the intuitive picture of the entropic constraint provided by branching through the alkyl tails and highlight its capital entropic role in supramolecular assembly.
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Affiliation(s)
- Jennifer Bolle
- Fakultät Physik/DELTA, Technische Universität Dortmund, 44227 Dortmund, Germany.
| | - S Peter Bierwirth
- Fakultät Physik, Technische Universität Dortmund, 44227 Dortmund, Germany
| | - Martina Požar
- University of Split, Faculty of Science, Ruera Boškovića 33, 21000, Split, Croatia
| | - Aurélien Perera
- Sorbonne Université, Laboratoire de Physique Théorique de la Matiére Condensée (UMR CNRS 7600), 4 Place Jussieu, F75252, Paris cedex 05, France
| | - Michael Paulus
- Fakultät Physik/DELTA, Technische Universität Dortmund, 44227 Dortmund, Germany.
| | - Philipp Münzner
- Fakultät Physik, Technische Universität Dortmund, 44227 Dortmund, Germany
| | - Christian Albers
- Fakultät Physik/DELTA, Technische Universität Dortmund, 44227 Dortmund, Germany.
| | - Susanne Dogan
- Fakultät Physik/DELTA, Technische Universität Dortmund, 44227 Dortmund, Germany.
| | - Mirko Elbers
- Fakultät Physik/DELTA, Technische Universität Dortmund, 44227 Dortmund, Germany.
| | - Robin Sakrowski
- Fakultät Physik/DELTA, Technische Universität Dortmund, 44227 Dortmund, Germany.
| | - Göran Surmeier
- Fakultät Physik/DELTA, Technische Universität Dortmund, 44227 Dortmund, Germany.
| | - Roland Böhmer
- Fakultät Physik, Technische Universität Dortmund, 44227 Dortmund, Germany
| | - Metin Tolan
- Fakultät Physik/DELTA, Technische Universität Dortmund, 44227 Dortmund, Germany.
| | - Christian Sternemann
- Fakultät Physik/DELTA, Technische Universität Dortmund, 44227 Dortmund, Germany.
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Jukić I, Požar M, Lovrinčević B, Perera A. Universal features in the lifetime distribution of clusters in hydrogen-bonding liquids. Phys Chem Chem Phys 2021; 23:19537-19546. [PMID: 34524299 DOI: 10.1039/d1cp02027g] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Hydrogen-bonding liquids, typically water and alcohols, are known to form labile structures (network, chains, etc.); hence, the lifetime of these structures is an important microscopic parameter, which can be calculated via computer simulations. Since these cluster entities are mostly statistical in nature, one would expect that, in the short-timescale regime, their lifetime distribution would be a broad Gaussian-like function of time, with a single maximum representing their mean lifetime, and be weakly dependent on criteria such as the bonding distance and angle, much similar to non-hydrogen-bonding simple liquids, while the long-timescale regime is known to have some power law dependence. Unexpectedly, all the hydrogen-bonding liquids studied herein, namely water and alcohols, display three highly hierarchical specific lifetimes, in the sub-picosecond range 0-0.5 ps. The dominant lifetime depends very strongly on the bonding-distance criterion and is related to hydrogen-bonded pairs. This mode is absent in non-H-bonding simple liquids. The secondary and tertiary mean lifetimes are related to clusters and are nearly independent of the bonding criterion. Of these two lifetimes, only the first one can be related to that of simple liquids, which poses the question of the nature of the third lifetime. The study of alcohols reveals that this third lifetime is related to the topology of the H-bonded clusters and that its distribution may also be affected by the alkyl tail surrounding the "bath". This study shows that hydrogen-bonding liquids have a universal hierarchy of hydrogen-bonding lifetimes with a timescale regularity across very different types, and which depend on the topology of the cluster structures.
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Affiliation(s)
- Ivo Jukić
- Sorbonne Université, Laboratoire de Physique Théorique de la Matière Condensée (UMR CNRS 7600), 4 Place Jussieu, F75252, Paris cedex 05, France.
- University of Split, Faculty of Science, Ruđera Boškovića 33, 21000, Split, Croatia.
| | - Martina Požar
- University of Split, Faculty of Science, Ruđera Boškovića 33, 21000, Split, Croatia.
| | - Bernarda Lovrinčević
- University of Split, Faculty of Science, Ruđera Boškovića 33, 21000, Split, Croatia.
| | - Aurélien Perera
- Sorbonne Université, Laboratoire de Physique Théorique de la Matière Condensée (UMR CNRS 7600), 4 Place Jussieu, F75252, Paris cedex 05, France.
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Guo Y, Surblys D, Matsubara H, Ohara T. A molecular dynamics study of the effect of functional groups and side chain on adsorption of alcoholic surfactant and interfacial thermal transport. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2021.116243] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
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Cerar J, Jamnik A, Szilágyi I, Tomšič M. Solvation of nonionic poly(ethylene oxide) surfactant Brij 35 in organic and aqueous-organic solvents. J Colloid Interface Sci 2021; 594:150-159. [PMID: 33761392 DOI: 10.1016/j.jcis.2021.02.113] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2020] [Revised: 02/23/2021] [Accepted: 02/24/2021] [Indexed: 11/17/2022]
Abstract
HYPOTHESIS By combining the experimental small- and wide-angle x-ray scattering (SWAXS) method with molecular dynamics simulations and the theoretical 'complemented-system approach' it is possible to obtain detailed information about the intra- and inter-molecular structure and dynamics of the solvation and hydration of the surfactant in organic and mixed solvents, e.g., of the nonionic surfactant Brij 35 (C12E23) in alcohols and aqueous alcohol-rich ternary systems. This first application of the complemented-system approach to the surfactant system will promote the use of this powerful methodology that is based on experimental and calculated SWAXS data in studies of colloidal systems. By applying high-performance computing systems, such an approach is readily available for studies in the colloidal domain. EXPERIMENTS SWAXS experiments and MD simulations were performed for binary Brij 35/alcohol and ternary Brij 35/water/alcohol systems with ethanol, n-butanol and n-hexanol as the organic solvent component at 25 °C. FINDINGS We confirmed the presence of solvated Brij 35 monomers in the studied organic media, revealed their preferential hydration and discussed their structural and dynamic features at the intra- and inter-molecular levels. Anisotropic effective surfactant molecular conformations were found. The influence of the hydrophobicity of the organic solvent on the hydration phenomena of surfactant molecules was explained.
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Affiliation(s)
- Jure Cerar
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna pot 113, SI-1000 Ljubljana, Slovenia
| | - Andrej Jamnik
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna pot 113, SI-1000 Ljubljana, Slovenia
| | - István Szilágyi
- MTA-SZTE Lendület Biocolloids Research Group, Interdisciplinary Excellence Center, Department of Physical Chemistry and Materials Science, University of Szeged, H-6720 Szeged, Hungary
| | - Matija Tomšič
- Faculty of Chemistry and Chemical Technology, University of Ljubljana, Večna pot 113, SI-1000 Ljubljana, Slovenia.
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10
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Maiti A, Daschakraborty S. Effect of TMAO on the Structure and Phase Transition of Lipid Membranes: Potential Role of TMAO in Stabilizing Cell Membranes under Osmotic Stress. J Phys Chem B 2021; 125:1167-1180. [PMID: 33481606 DOI: 10.1021/acs.jpcb.0c08335] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Extremophiles adopt strategies to deal with different environmental stresses, some of which are severely damaging to their cell membrane. To combat high osmotic stress, deep-sea organisms synthesize osmolytes, small polar organic molecules, like trimethylamine-N-oxide (TMAO), and incorporate them in the cell. TMAO is known to protect cells from high osmotic or hydrostatic pressure. Several experimental and simulation studies have revealed the roles of such osmolytes on stabilizing proteins. In contrast, the effect of osmolytes on the lipid membrane is poorly understood and broadly debated. A recent experiment has found strong evidence of the possible role of TMAO in stabilizing lipid membranes. Using the molecular dynamics (MD) simulation technique, we have demonstrated the effect of TMAO on two saturated fully hydrated lipid membranes in their fluid and gel phases. We have captured the impact of TMAO's concentration on the membrane's structural properties along with the fluid/gel phase transition temperatures. On increasing the concentration of TMAO, we see a substantial increase in the packing density of the membrane (estimated by area, thickness, and volume) and enhancement in the orientational order of lipid molecules. Having repulsive interaction with the lipid head group, the TMAO molecules are expelled away from the membrane surface, which induces dehydration of the lipid head groups, increasing the packing density. The addition of TMAO also increases the fluid/gel phase transition temperature of the membrane. All of these results are in close agreement with the experimental observations. This study, therefore, provides a molecular-level understanding of how TMAO can influence the cell membrane of deep-sea organisms and help in combating the osmotic stress condition.
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Affiliation(s)
- Archita Maiti
- Department of Chemistry, Indian Institute of Technology Patna, Patna, Bihar 801106, India
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11
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Engelbrecht LDV, Farris R, Vasiliu T, Demurtas M, Piras A, Cesare Marincola F, Laaksonen A, Porcedda S, Mocci F. Theoretical and Experimental Study of the Excess Thermodynamic Properties of Highly Nonideal Liquid Mixtures of Butanol Isomers + DBE. J Phys Chem B 2021; 125:587-600. [PMID: 33428423 DOI: 10.1021/acs.jpcb.0c10076] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Binary alcohol + ether liquid mixtures are of significant importance as potential biofuels or additives for internal combustion engines and attract considerable fundamental interest as model systems containing one strongly H-bonded self-associating component (alcohol) and one that is unable to do so (ether), but that can interact strongly as a H-bond acceptor. In this context, the excess thermodynamic properties of these mixtures, specifically the excess molar enthalpies and volumes (HE and VE), have been extensively measured. Butanol isomer + di-n-butyl ether (DBE) mixtures received significant attention because of interesting differences in their VE, changing from negative (1- and isobutanol) to positive (2- and tert-butanol) with increasing alkyl group branching. With the aim of shedding light on the differences in alcohol self-association and cross-species H-bonding, considered responsible for the observed differences, we studied representative 1- and 2-butanol + DBE mixtures by molecular dynamics simulations and experimental excess property measurements. The simulations reveal marked differences in the self-association of the two isomers and, while supporting the existing interpretations of the HE and VE in a general sense, our results suggest, for the first time, that subtle changes in H-bonded topologies may contribute significantly to the anomalous volumetric properties of these mixtures.
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Affiliation(s)
- Leon de Villiers Engelbrecht
- Dipartimento di Scienze Chimiche e Geologiche, Università degli Studi di Cagliari, S.S. 554 Bivio Sestu, Monserrato, 09042 Cagliari, Italy
| | - Riccardo Farris
- Dipartimento di Scienze Chimiche e Geologiche, Università degli Studi di Cagliari, S.S. 554 Bivio Sestu, Monserrato, 09042 Cagliari, Italy
| | - Tudor Vasiliu
- Centre of Advanced Research in Bio-nanoconjugates and Biopolymers, Romanian Academy-Petru Poni (PP) Institute of Macromolecular Chemistry, 00487 Iasi, Romania
| | - Monica Demurtas
- Dipartimento di Scienze Chimiche e Geologiche, Università degli Studi di Cagliari, S.S. 554 Bivio Sestu, Monserrato, 09042 Cagliari, Italy
| | - Alessandra Piras
- Dipartimento di Scienze Chimiche e Geologiche, Università degli Studi di Cagliari, S.S. 554 Bivio Sestu, Monserrato, 09042 Cagliari, Italy
| | - Flaminia Cesare Marincola
- Dipartimento di Scienze Chimiche e Geologiche, Università degli Studi di Cagliari, S.S. 554 Bivio Sestu, Monserrato, 09042 Cagliari, Italy
| | - Aatto Laaksonen
- Centre of Advanced Research in Bio-nanoconjugates and Biopolymers, Romanian Academy-Petru Poni (PP) Institute of Macromolecular Chemistry, 00487 Iasi, Romania.,Department of Materials and Environmental Chemistry, Division of Physical Chemistry, Arrhenius Laboratory, Stockholm University (SU), 106 91 Stockholm, Sweden.,State Key Laboratory of Materials-Oriented and Chemical Engineering, Nanjing Tech University (NTU), 210009 Nanjing, China.,Department of Engineering Sciences and Mathematics, Division of Energy Science, Luleå University of Technology, SE-97187 Luleå, Sweden
| | - Silvia Porcedda
- Dipartimento di Scienze Chimiche e Geologiche, Università degli Studi di Cagliari, S.S. 554 Bivio Sestu, Monserrato, 09042 Cagliari, Italy
| | - Francesca Mocci
- Dipartimento di Scienze Chimiche e Geologiche, Università degli Studi di Cagliari, S.S. 554 Bivio Sestu, Monserrato, 09042 Cagliari, Italy
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12
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Keshavarz F, Kurtén T, Vehkamäki H, Kangasluoma J. Seed-Adsorbate Interactions as the Key of Heterogeneous Butanol and Diethylene Glycol Nucleation on Ammonium Bisulfate and Tetramethylammonium Bromide. J Phys Chem A 2020; 124:10527-10539. [PMID: 33267578 DOI: 10.1021/acs.jpca.0c08373] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Condensation particle counter (CPC) instruments are commonly used to detect atmospheric nanoparticles. They operate on the basis of condensing an organic working fluid on the nanoparticle seeds to grow the particles to a detectable size, and at the size of few nanometers, their efficiency depends on how well the working fluid interacts with the seeds under the measurement conditions. This study models the first steps of heterogeneous nucleation of two working fluids commonly used in CPCs (diethylene glycol (DEG) and n-butanol) onto two positively charged seeds, ammonium bisulfate and tetramethylammonium bromide. The nucleation process is modeled on a molecular level using a combination of systematic configurational sampling and density functional theory (DFT). We take into account the conformational flexibility of DEG and n-butanol and determine the key factors that can improve the efficiency of nanoparticle measurements by CPCs. The results show that hydrogen bonding between the seed and the working fluid molecules is central to the adsorption of the first DEG/n-butanol molecules onto the seeds. However, intermolecular hydrogen bonding between the adsorbed molecules can also enhance the nucleation process for the weakly adsorbing vapor molecules. Accordingly, the heterogeneous nucleation probability is higher for working fluid-nanoparticle combinations with a higher potential for hydrogen bonding; in this case, DEG and ammonium bisulfate. Moreover, conformational analysis and methodology evaluations indicate that the consideration of adsorbate conformers and step-wise addition of the vapor molecules to the seeds is not essential for qualitative modeling of heterogeneous nucleation systems, at least for systems where the adsorbate and seed chemical properties are clearly different. This is the first molecular-level modeling study reporting detailed chemical reasons for experimentally observed seed and working fluid preferences in CPCs and reproducing the experimental observations. Our presented approach can be likely used for predicting preferences in similar nucleating systems.
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Affiliation(s)
- Fatemeh Keshavarz
- Institute for Atmospheric and Earth System Research/Physics, Faculty of Science, University of Helsinki, P.O. Box 64, 00014 Helsinki, Finland
| | - Theo Kurtén
- Department of Chemistry, Faculty of Science, University of Helsinki, FI-00014 Helsinki, Finland
| | - Hanna Vehkamäki
- Institute for Atmospheric and Earth System Research/Physics, Faculty of Science, University of Helsinki, P.O. Box 64, 00014 Helsinki, Finland
| | - Juha Kangasluoma
- Institute for Atmospheric and Earth System Research/Physics, Faculty of Science, University of Helsinki, P.O. Box 64, 00014 Helsinki, Finland.,Aerosol and Haze Laboratory, Beijing Advanced Innovation Center for Soft Matter Science and Engineering, Beijing University of Chemical Technology, 100029 Beijing, China
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13
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Požar M, Bolle J, Sternemann C, Perera A. On the X-ray Scattering Pre-peak of Linear Mono-ols and the Related Microstructure from Computer Simulations. J Phys Chem B 2020; 124:8358-8371. [PMID: 32856907 DOI: 10.1021/acs.jpcb.0c05932] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The X-ray scattering intensities (I(k)) of linear alkanols OH(CH2)n-1CH3 obtained from experiments (methanol to 1-undecanol) and computer simulations (methanol to 1-nonanol) of different force field models are comparatively studied particularly in order to explain the origin and the properties of the scattering pre-peak in the k-vector range 0.3-1 Å-1. The experimental I(k) values show two apparent features: the pre-peak position kP decreases with increasing n, and more intriguingly, the amplitude AP goes through a maximum at 1-butanol (n = 4). The first feature is well reproduced by all force-field models, while the second shows strong model dependence. The simulations reveal various shapes of clusters of the hydroxyl head-group from n>2. kP is directly related to the size of the meta-objects corresponding to such clusters surrounded by their alkyl tails. The explanation of the AP turnover at n = 4 is more involved in terms of cancellations of atom-atom structure factor S(k) contributions related to domain ordering. The flexibility of the alkyl tails tends to reduce the cross contributions, thus revealing the crucial importance of this parameter in the models. Force fields with all-atom representation are less successful in reproducing the pre-peak features for smaller alkanols, n<6, possibly because they blur the charge ordering process since all atoms bear partial charges. The analysis clearly shows that it is not possible to obtain a model-free explanation of the features of I(k).
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Affiliation(s)
- Martina Požar
- Faculty of Science, University of Split, Rudjera Boškovića 33, Split 21000, Croatia
| | - Jennifer Bolle
- Fakultät Physik/DELTA, Technische Universität Dortmund, Dortmund D-44221, Germany
| | - Christian Sternemann
- Fakultät Physik/DELTA, Technische Universität Dortmund, Dortmund D-44221, Germany
| | - Aurélien Perera
- Laboratoire de Physique Thé orique de la Matière Condensé e (UMR CNRS 7600), Sorbonne Université, 4 Place Jussieu, Paris F75252 cedex 05, France
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14
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Structural, rheological and dynamic aspects of hydrogen-bonding molecular liquids: Aqueous solutions of hydrotropic tert-butyl alcohol. J Colloid Interface Sci 2020; 560:730-742. [DOI: 10.1016/j.jcis.2019.10.094] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2019] [Revised: 10/23/2019] [Accepted: 10/24/2019] [Indexed: 11/23/2022]
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15
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Tomšič M, Cerar J, Jamnik A. Supramolecular structure vs. rheological properties: 1,4–Butanediol at room and elevated temperatures. J Colloid Interface Sci 2019; 557:328-335. [DOI: 10.1016/j.jcis.2019.09.020] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2019] [Revised: 09/03/2019] [Accepted: 09/05/2019] [Indexed: 01/14/2023]
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16
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Wang Y, Wang G, Yao J, Li H. Restricting Effect of Solvent Aggregates on Distribution and Mobility of CuCl2 in Homogenous Catalysis. ACS Catal 2019. [DOI: 10.1021/acscatal.9b01723] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Yongtao Wang
- Department of Chemistry, ZJU-NHU United R&D Center, Zhejiang University, 38 Zheda Road, Hangzhou 310027, P.R. China
| | - Guanqi Wang
- Department of Chemistry, ZJU-NHU United R&D Center, Zhejiang University, 38 Zheda Road, Hangzhou 310027, P.R. China
| | - Jia Yao
- Department of Chemistry, ZJU-NHU United R&D Center, Zhejiang University, 38 Zheda Road, Hangzhou 310027, P.R. China
| | - Haoran Li
- Department of Chemistry, ZJU-NHU United R&D Center, Zhejiang University, 38 Zheda Road, Hangzhou 310027, P.R. China
- State Key Laboratory of Chemical Engineering, College of Chemical and Biological Engineering, Zhejiang University, Hangzhou 310027, P.R. China
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17
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Cerar J, Jamnik A, Tomšič M. Supra-molecular structure and rheological aspects of liquid terminal 1,n‑diols from ethylene glycol, 1,3‑propandiol, 1,4‑butanediol to 1,5‑pentanediol. J Mol Liq 2019. [DOI: 10.1016/j.molliq.2018.11.075] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
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18
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19
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Frederix PWJM, Patmanidis I, Marrink SJ. Molecular simulations of self-assembling bio-inspired supramolecular systems and their connection to experiments. Chem Soc Rev 2018; 47:3470-3489. [PMID: 29688238 PMCID: PMC5961611 DOI: 10.1039/c8cs00040a] [Citation(s) in RCA: 92] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2018] [Indexed: 01/01/2023]
Abstract
In bionanotechnology, the field of creating functional materials consisting of bio-inspired molecules, the function and shape of a nanostructure only appear through the assembly of many small molecules together. The large number of building blocks required to define a nanostructure combined with the many degrees of freedom in packing small molecules has long precluded molecular simulations, but recent advances in computational hardware as well as software have made classical simulations available to this strongly expanding field. Here, we review the state of the art in simulations of self-assembling bio-inspired supramolecular systems. We will first discuss progress in force fields, simulation protocols and enhanced sampling techniques using recent examples. Secondly, we will focus on efforts to enable the comparison of experimentally accessible observables and computational results. Experimental quantities that can be measured by microscopy, spectroscopy and scattering can be linked to simulation output either directly or indirectly, via quantum mechanical or semi-empirical techniques. Overall, we aim to provide an overview of the various computational approaches to understand not only the molecular architecture of nanostructures, but also the mechanism of their formation.
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Affiliation(s)
- Pim W. J. M. Frederix
- Groningen Biomolecular Sciences and Biotechnology Institute and Zernike Institute for Advanced Materials , University of Groningen , Groningen , The Netherlands . ;
| | - Ilias Patmanidis
- Groningen Biomolecular Sciences and Biotechnology Institute and Zernike Institute for Advanced Materials , University of Groningen , Groningen , The Netherlands . ;
| | - Siewert J. Marrink
- Groningen Biomolecular Sciences and Biotechnology Institute and Zernike Institute for Advanced Materials , University of Groningen , Groningen , The Netherlands . ;
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20
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Gattuso H, García-Iriepa C, Sampedro D, Monari A, Marazzi M. Simulating the Electronic Circular Dichroism Spectra of Photoreversible Peptide Conformations. J Chem Theory Comput 2017; 13:3290-3296. [DOI: 10.1021/acs.jctc.7b00163] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Affiliation(s)
- Hugo Gattuso
- Théorie-Modélisation-Simulation, Université de Lorraine − Nancy, SRSMC, Boulevard des Aiguillettes, 54506 Vandoeuvre-lès-Nancy, Nancy, France
- Théorie-Modélisation-Simulation,
CNRS, SRSMC, Boulevard des Aiguillettes, 54506 Vandoeuvre-lès-Nancy, Nancy, France
| | - Cristina García-Iriepa
- Departamento
de Química, Centro de Investigación en Síntesis
Química (CISQ), Universidad de La Rioja, Madre de Dios
53, E-26006 Logroño, Spain
- Unidad
Docente de Química Física, Universidad de Alcalá, E-28871 Alcalá de Henares, Madrid, Spain
| | - Diego Sampedro
- Departamento
de Química, Centro de Investigación en Síntesis
Química (CISQ), Universidad de La Rioja, Madre de Dios
53, E-26006 Logroño, Spain
| | - Antonio Monari
- Théorie-Modélisation-Simulation, Université de Lorraine − Nancy, SRSMC, Boulevard des Aiguillettes, 54506 Vandoeuvre-lès-Nancy, Nancy, France
- Théorie-Modélisation-Simulation,
CNRS, SRSMC, Boulevard des Aiguillettes, 54506 Vandoeuvre-lès-Nancy, Nancy, France
| | - Marco Marazzi
- Théorie-Modélisation-Simulation, Université de Lorraine − Nancy, SRSMC, Boulevard des Aiguillettes, 54506 Vandoeuvre-lès-Nancy, Nancy, France
- Théorie-Modélisation-Simulation,
CNRS, SRSMC, Boulevard des Aiguillettes, 54506 Vandoeuvre-lès-Nancy, Nancy, France
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