Solute Molecules Research Articles

Solute translocation probability, lifetime, and "rectification" in membrane channels with localized constriction.

We study the translocation probability and lifetime of a solute molecule in a cylindrical membrane channel that contains a localized constriction at an arbitrary location. Using a one-dimensional continuous diffusion description of solute dynamics in the channel, we explore two models. The first one describes a molecule's interaction with the constriction in terms of a narrow rectangular barrier in the potential of mean force. The second novel model proposed here represents this interaction by introducing an infinitely thin permeable partition. It is shown that when the parameters of the two models are chosen to warrant the same translocation probability, both models predict the same mean lifetime of the molecule in the channel. While the translocation probability is independent of the constriction location, the mean lifetime is a function of the location. The benefit of the thin partition model is that it allows one to lump together the height and length of the potential barrier into a single parameter, which is the partition's permeability. It is shown that in the case of an asymmetric location of the localized constriction and strong repulsion between the solutes, the solute flux through the channel is a function of the direction in which it goes, analogous to the phenomenon known in ion channel electrophysiology as rectification.

Organization of hyaluronic acid molecules in solutions

AbstractThe organization of hyaluronic acid (HA) solutions was investigated by small angle neutron scattering (SANS). It was demonstrated that HA formed clusters greater than several hundred nanometers. The SANS response revealed a weak correlation peak, corresponding to ordering over a distance scale of about 80 nm. At higher wave vectors, the SANS response indicated the presence of rod-like structures. Addition of calcium ions only weakly affects the structure of the HA solution, but significantly reduces its osmotic pressure. The osmotic component of the SANS response is in good agreement with the intensity obtained from direct osmotic pressure measurements. The results are consistent with the rigid structure of the HA molecule. Graphical abstract

Time-resolved THz Stark spectroscopy of molecules in solution

For decades, it was considered all but impossible to perform Stark spectroscopy on molecules in a liquid solution, because their concomitant orientation to the applied electric field results in overwhelming background signals. A way out was to immobilize the solute molecules by freezing the solvent. While mitigating solute orientation, freezing removes the possibility to study molecules in liquid environments at ambient conditions. Here we demonstrate time-resolved THz Stark spectroscopy, utilizing intense single-cycle terahertz pulses as electric field source. At THz frequencies, solute molecules have no time to orient their dipole moments. Hence, dynamic Stark spectroscopy on the time scales of molecular vibrations or rotations in both non-polar and polar solvents at arbitrary temperatures is now possible. We verify THz Stark spectroscopy for two judiciously selected molecular systems and compare the results to conventional Stark spectroscopy and first principle calculations.

Porous Nanographenes, Graphene Nanoribbons, and Nanoporous Graphene Selectively Synthesized from the Same Molecular Precursor.

We demonstrate a family of molecular precursors based on 7,10-dibromo-triphenylenes that can selectively produce different varieties of atomically precise porous graphene nanomaterials through the use of different synthetic environments. Upon Yamamoto polymerization of these molecules in solution, the free rotations of the triphenylene units around the C-C bonds result in the formation of cyclotrimers in high yields. In contrast, in on-surface polymerization of the same molecules on Au(111) these rotations are impeded, and the coupling proceeds toward the formation of long polymer chains. These chains can then be converted to porous graphene nanoribbons (pGNRs) by annealing. Correspondingly, the solution-synthesized cyclotrimers can also be deposited onto Au(111) and converted into porous nanographenes (pNGs) via thermal treatment. Thus, both processes start with the same molecular precursor and end with a porous graphene nanomaterial on Au(111), but the type of product, pNG or pGNR, depends on the specific coupling approach. We also produced extended nanoporous graphenes (NPGs) through the lateral fusion of highly aligned pGNRs on Au(111) that were grown at high coverage. The pNGs can also be synthesized directly in solution by Scholl oxidative cyclodehydrogenation of cyclotrimers. We demonstrate the generality of this approach by synthesizing two varieties of 7,10-dibromo-triphenylenes that selectively produced six nanoporous products with different dimensionalities. The basic 7,10-dibromo-triphenylene monomer is amenable to structural modifications, potentially providing access to many new porous graphene nanomaterials. We show that by constructing different porous structures from the same building blocks, it is possible to tune the energy band gap in a wide range.

Osmosis: A Natural Approach for Treating Constipation

Osmosis is a natural process that occurs in living organisms and plays a vital role in maintaining their health. This abstract investigates the effectiveness of treating constipation with salt water after getting out of bed in the morning using the process of osmosis. Constipation is a common bowel problem caused by diet, lifestyle, medications, or other factors that make stool hard or impede the ability to pass it comfortably, affecting people of all ages worldwide. By conducting osmosis, where solute molecules move through a semi permeable membrane from low solute concentration to high solute concentration, salt water treatment softens stool and facilitates bowel movements. This paper presents an overview of treatment protocols, including materials, methods and observational results. Preliminary findings indicate promising results, with participants experiencing increased frequency and ease of bowel movements after consuming salt water. This paper explores the benefits of osmosis in treating constipation and how it works. We discuss the osmosis and their mechanisms of action, as well as their safety and efficacy. Overall, we conclude that osmosis is a safe and effective way to treat constipation and has the potential to change the life style of millions of people across the Globe.

Water Solvent Reorganization upon Ultrafast Resonant Stimulated X-ray Raman Excitation of a Metalloporphyrin Dimer.

We propose an X-ray Raman pump-X-ray diffraction probe scheme to follow solvation dynamics upon charge migration in a solute molecule. The X-ray Raman pump selectively prepares a valence electronic wavepacket in the solute, while the probe provides information about the entire molecular ensemble. A combination of molecular dynamics and ab initio quantum chemistry simulations is applied to a Zn-Ni porphyrin dimer in water. Using time-resolved X-ray diffraction and pair distribution functions, we extracted solvation shell dynamics.

Sustainable deep eutectic solvents induced the polymorph selectivity and high purification efficiency

Deep eutectic solvents (DESs), as modern green solvents, have been examined as sustainable crystallization media in recent years. Nevertheless, their roles in affecting nucleation and polymorph control of crystal materials are still poorly understood. Herein, we report the use of DES for controlling polymorph crystallization and investigate systematically the mechanism of DES solvent characteristics on polymorph selectivity. Concomitant crystallization of sulfathiazole (STZ) polymorphs has been widely reported in organic solvents, while we found DES can improve its polymorph selectivity significantly. Pure forms II and IV were selectively and rapidly obtained from solvents containing [thymol][fatty acid] and [thymol][coumarin] DESs, respectively. The microstructural changes of DES exhibited dynamic regulatory effect on STZ polymorph selectivity. Analysis of 1H NMR, viscosity and computational simulations revealed that the DES hydrogen-bonding network structures were preserved for DES contents above 50 wt% in binary solvents, which affected the nucleation kinetics of STZ and its molecular assembly during crystallization process. Further mechanistic investigations suggested that DES hydrogen-bonding network structures exerted confinement effect and nucleation-templating effect through DES-solute interactions (hydrogen-bonding and π-π stacking interactions for [thymol][fatty acid] and [thymol][coumarin] systems, respectively), which limited the motion of solute molecules and delayed nucleation rate as well as induced the STZ nucleation toward specific orientations, thus achieving polymorph selectivity. In addition, DESs could be recycled and exhibited good reproducibility in achieving STZ polymorph purification. This study offers a sustainably effective strategy for polymorph purification of crystalline materials and promotes advance the fundamental understanding of DES solvent characteristics on polymorph control.

Automated Crystallization Monitoring in Material Development using Computer Vision and Neuronal Networks

AbstractCrystallization is critical in producing various substances in the food and pharmaceutical industries. The process begins with nucleation from a supersaturated solution, followed by the directed movement of solute molecules toward the newly formed nuclei. This movement is influenced by different factors such as molecular attraction and thermodynamic properties, which influence the resulting crystal size and shape. This paper presents an automated monitoring approach for the growth process of crystallization from saturated solutions. To monitor such a process, a combination of artificial intelligence and computer vision is used. The approach was developed for application in material research to automate the processing of numerous samples, which would otherwise require laboratory personnel.

Probing Isolated Water Molecules in Aqueous Acetonitrile Solutions Using Oxygen K-Edge X-ray Absorption Spectroscopy.

Oxygen K-edge X-ray absorption spectroscopy (XAS) of an aqueous acetonitrile solution exhibited a sharp peak at approximately 537 eV, which was similar to that of water vapor and was not observed in liquid water. The inner-shell spectra of isolated water molecules and water clusters of different sizes surrounded by acetonitrile molecules were obtained by extracting these water structures from the liquid structures of aqueous acetonitrile solutions, as calculated using molecular dynamics simulations. The sharp peak profiles of the O K-edge XAS spectra were derived not from water clusters but from isolated water molecules surrounded by acetonitrile molecules. The present study proposes that isolated water molecules are easily formed in aqueous acetonitrile solutions and that the electronic structures of the isolated water molecules can be analyzed using O K-edge XAS spectra, which separates the contributions of small water clusters.

Unraveling the Molecular Weight Dependence of High Magnetic Field to Manipulate the Semiconducting Polymer Molecular Orientation.

The magnetic alignment of molecules, which exploits the anisotropy of diamagnetic susceptibility, provides a clean and versatile approach to the structural manipulation of semiconducting polymers. Here, the magnetic-alignment dynamics of two molecular-weight (MW) batches of a diketopyrrolopyrrole (DPP)-based copolymer (PDVT-8) were investigated. Microstructural characterizations revealed that the magnetically aligned, high-MW (Mn = 53.7 kDa) PDVT-8 film exhibited a higher degree of backbone chain alignment and film crystallinity compared with the low-MW (Mn = 17.6 kDa) PDVT-8 film grown via the same magnetic alignment method. We found that as the MW increases, the degree of preaggregation of the polymer molecules in solution significantly increases and the aggregation mode changes from H-aggregation to J-aggregation through a cooperative assembly mechanism. These events improved the responsiveness of high-MW polymer molecules to magnetic fields. Field-effect transistors based on the magnetic aligned high-MW PDVT-8 films exhibited a 6.8-fold increase in hole mobility compared to the spin-coated films, along with a mobility anisotropy ratio of 12.6. This work establishes a significant correlation among chain aggregation behavior in solution, polymer film microstructures, magnetic responsiveness, and carrier transport performance in donor-acceptor polymer systems.

Comparative Study of the Impurity Effect on SnAgCu and SnZn Solder Joints with Electrodeposited Cu.

Sn-3Ag-0.5Cu (SAC305)- and Sn-9Zn-based alloys (Sn-Zn-X, X = Al, In) are lead-free solders used in the fabrication of solder joints with Cu metallization. Electroplating is a facile technology used to fabricate Cu metallization. However, the addition of functional additive molecules in the plating solution may result in impurity residues in the Cu electroplated layer, causing damage to the solder joints. This study investigates the impurity effect on solder joints constructed by joining various solder alloys to the Cu electroplated layers. Functional additives are formulated to fabricate high-impurity and low-impurity Cu electroplated samples. The as-joined solder joint samples are thermally aged at 120 °C and 170 °C to explore the interfacial reactions between solder alloys and Cu. The results show that the impurity effect on the interfacial reactions between SAC305 and Cu is significant. Voids are massively formed at the SAC305/Cu interface incorporated with a high impurity content, and the Cu6Sn5 intermetallic compound (IMC) grows at a faster rate. In contrast, the growth of the Cu5Zn8 IMC formed in the SnZn-based solder joints is not significantly influenced by the impurity content in the Cu electroplated layers. Voids are not observed in the SnZn-based solder joints regardless of the impurity content, indicative of an insignificant impurity effect. The discrepancy of the impurity effect is rationalized by the differences in the IMC formation and associated atomic interdiffusion in the SAC305- and SnZn-based solder joints.

Capture enhanced neutron irradiation for the treatment of the Alzheimer Disease: Micro-nanodosimetric characterization of beta amyloid peptide samples

Alzheimer Disease (AD) is the most common cause of dementia. 46.8 million people live with AD worldwide, with numbers projected to almost double every 20 years. The etiological mechanisms underlying the neuropathological changes in AD remain unclear. The beta amyloid peptide Aβ is considered to be the main culprit of the pathological processes. NECTAR (NEutron Capture-enhanced Treatment of neurotoxic Amyloid aggRegates) project proposes an alternative and revolutionary strategy to address AD, investigating the safety, feasibility and effectiveness of a Capture-Enhanced Neutron Irradiation to structurally damage Aβ aggregates, by exploiting capture agent vectors containing B-10 and Gd-157.Among many others, one of the goals of the project is to perform calculations and measurements of microdosimetric and nanodosimetric quantities to characterize the effect of reaction products at local level and to link it to the fibrils depolymerization process. In this framework, a new low-pressure tissue-equivalent proportional counter (TEPC) was designed and developed. The system is a wall-free TEPC able to measure micro-nanometric dose deposition for different biological samples. It is characterized by two main features: i) a wall-less structure allows the charged particles produced by the sample to access the sensitive volume, where their effects are studied; ii) a trigger system enables the assessment of the number of ionizations induced in the sensitive volume related to a single primary particle for obtaining nandosimetric information.The prototype system was tested in the PGNAA (Prompt Gamma Neutron Activation Analysis) facility of the LENA reactor (Pavia) to directly study secondary particles from Aβ fibrils, loaded with Boron. Results of the micro-nanodosimetric characterization of high LET secondaries from Aβ-fibrils were compared to a reference Boron sample. For a 500 nm simulated site size, the presence of Boron in the Aβ sample greatly populates microdosimetric spectra at high lineal energy values. Instead, lower LET particles (photons, protons) from reactions on the other Aβ aggregate solution molecules populate the low lineal energy portion of the distribution.The nanodosimetric distributions highlights the presence of different field components on the nanodosimetric spectra: low LET particles (protons/electrons) produce small ionization clusters, while alpha and Lithium ions induce larger clusters, thus have a higher biological effect. The nanodosimetric measurements have been compared with Monte Carlo simulations performed with a track-structure code, showing a good agreement.This multi-level approach provides a deeper physical understanding of the mixed secondaries field coming from B-enriched target, as well as a reference for the biological effect on Aβ fibrils at nanometer level. These preliminary measurements represent the first microdosimetric and nanodosimetric characterization of the secondary mixed field directly emitted by a biological sample irradiated with neutrons.

Experimental and Theoretical Rotational Diffusion Studies of 7DM4M1M1,8, N-2(1H)-one and 7A4T2H1B-2-one in Series of Alcohol Solvents: Stoke's-Einstein-Debye and Alavi-Waldeck Models.

Rotational diffusion studies of two solutes 7-(dimethylamino)-4-methoxy-1-methyl-1,8-naphthyridin-2(1H)-one (7DM4M1M1,8, N-2(1H)-one) and 7-amino-4-(trifluoromethyl)-2H-1-benzopyran-2-one (7A4T2H1B-2-one) having equal volumes but different chemical natures are studied in series of alcohol solvents at 303K using steady-state methods. HOMO-LUMO, Electron density, Molecular electrostatic potential (MEP), etc., are obtained from computational calculations using Gaussian 09 software. Rotational reorientation times of 7DM4M1M1,8, N-2(1H)-one solute molecule is found to be less than 7A4T2H1B-2-one solute molecule indicates it rotates slowly in chosen solvents. Stoke's-Einstein-Debye (SED) model with stick boundary conditions for the 7A4T2H1B-2-one solute molecule is modeled to describe mechanical friction. Polar solutes along with mechanical friction also experience dielectric friction. Both these frictions being non-separable, the Alavi-Waldeck (AW) model is studied for dielectric friction contribution to the total friction solute experiences in solvents. AW model effectively explains the observed dielectric friction in alcohol solvents.

Three-phase equilibria of hydrates from computer simulation. II. Finite-size effects in the carbon dioxide hydrate.

In this work, the effects of finite size on the determination of the three-phase coexistence temperature (T3) of the carbon dioxide (CO2) hydrate have been studied by molecular dynamic simulations and using the direct coexistence technique. According to this technique, the three phases involved (hydrate-aqueous solution-liquid CO2) are placed together in the same simulation box. By varying the number of molecules of each phase, it is possible to analyze the effect of simulation size and stoichiometry on the T3 determination. In this work, we have determined the T3 value at 8 different pressures (from 100 to 6000bar) and using 6 different simulation boxes with different numbers of molecules and sizes. In two of these configurations, the ratio of the number of water and CO2 molecules in the aqueous solution and the liquid CO2 phase is the same as in the hydrate (stoichiometric configuration). In both stoichiometric configurations, the formation of a liquid drop of CO2 in the aqueous phase is observed. This drop, which has a cylindrical geometry, increases the amount of CO2 available in the aqueous solution and can in some cases lead to the crystallization of the hydrate at temperatures above T3, overestimating the T3 value obtained from direct coexistence simulations. The simulation results obtained for the CO2 hydrate confirm the sensitivity of T3 depending on the size and composition of the system, explaining the discrepancies observed in the original work by Míguez et al. [J. Chem Phys. 142, 124505 (2015)]. Non-stoichiometric configurations with larger unit cells show a convergence of T3 values, suggesting that finite-size effects for these system sizes, regardless of drop formation, can be safely neglected. The results obtained in this work highlight that the choice of a correct initial configuration is essential to accurately estimate the three-phase coexistence temperature of hydrates by direct coexistence simulations.

Time-Dependent Multilevel Density Functional Theory.

We present a novel three-layer approach based on multilevel density functional theory (MLDFT) and polarizable molecular mechanics to simulate the electronic excitations of chemical systems embedded in an external environment within the time-dependent DFT formalism. In our method, the electronic structure of a target system, the chromophore, is determined in the field of an embedded inactive layer, which is treated as frozen. Long-range interactions are described by employing the polarizable fluctuating charge (FQ) force field. The resulting MLDFT/FQ thus accurately describes both electrostatics (and polarization) and non-electrostatic target-environment interactions. The robustness and reliability of the approach are demonstrated by comparing our results with experimental data reported for various organic molecules in solution.

Graphene Oxide-Induced Prototropism and Enhancement of Fluorescence Yield of Organic Molecules in Solutions: Recent Advances.

Till date, humankind has mainly acknowledged the quenching phenomenon of graphene oxide (GO). From a fundamental science standpoint, the unique and dynamic prospects of graphene oxide have been showcased in a brief but concise manner. Worldwide research studies have proven that graphene oxide has tremendous potentiality in showcasing breakthroughs in the fields of both basic science and innovative applications. In this Perspective, the fact that, apart from the very common fluorescence quenching phenomenon, graphene oxide can also enhance fluorescence intensity, promote prototropism, demonstrate aggregation-induced emission, and itself exhibit photoluminescence properties in nonaqueous media has been highlighted. It draws attention to the fact regarding unveiling the unknown properties of graphene oxide that might be useful to scientific communities in upcoming years.

Study on the mechanism of interaction between cations and the surface of nano-SiO2 particle in the salt solution by using molecular dynamics simulation

Nano-SiO2 solution has great potential for application in the field of oil and gas exploration and development. However, its application is restricted due to the aggregation of nano-SiO2 in stratum water. This paper studies the process of interaction between nano-SiO2 particles and salt solutions by using the molecular dynamics simulation experiments, including the characteristics of transportation and diffusion of cations around the nano SiO2, the effect of cations on the recombination and destruction of hydrogen bonds, the interaction energy between cations and nano SiO2. The main results are as follows. During the transportation and diffusion of cations in the solution, the hydrogen bonds of water molecules are broken, so that the hydrogen bonds can be rearranged, and a stable solvated layer can be formed. In the solvated layer, the repulsive force of solvation can prevent the charge exchange between cation and the charged surface of nano SiO2 particle. Compared with the monovalent salt solution, more divalent cations can break through the solvation layer to generate the charge exchange on the surface of nano-SiO2 particle. More divalent cations can conduct small amplitude oscillation movement near the surface of nano-SiO2 particle due to the strong electrostatic effect. When the concentration of salt solution is increased (3000 mg/L → 7000 mg/L) and the valence of cations is increased (monovalent → bivalent), the hydrogen bond is easier to break through the solvation layer to gather on the surface of nano SiO2 particles, which is unfavorable to the stability of nano SiO2 particles. When the cations transport to the position of 7 Å away from the surface of nano-SiO2 particles, the short-range force (including hydrogen bond force, van der Waals force, and electrostatic force) begins to affect the movement of cations. When the cations transport to the position of 2 ∼ 3 Å away from the surface of nano-SiO2 particles, the charge exchange occurs between cations and the surface of nano SiO2 particle, so that the local energy is increased and the cation continues to oscillate. In summary, with the increasing of concentration of salt solution and the valence state, more cations can break through the solvation layer to be adsorbed on the surface of nano SiO2 particle, showing that the ability of transportation and diffusion of cations is weakened, the interaction energy between nano SiO2 particle and salt solution molecules is enhanced. The electrostatic force is the main force to destroy the stability of nano SiO2 particle. The conclusions can provide a certain theoretical basis for the efficient application of nano-SiO2 materials in the field of oil and gas exploration and development and other interrelated industry.

Constructing Dual-State Emissive Fluorophores via Boc Protection and Discovering a High-Fidelity Imaging Probe for Lipid Droplets.

Dual-state emissive (DSE) materials exhibit fluorescence in both solid and solution states and have become an emerging material in the fields of materials science and sensing in recent years. However, due to the lack of effective and universal preparation methods, DSE materials, especially those with long emission wavelengths, are still scarce. Developing an effective method for constructing such DSE molecules is urgently needed. In this study, we constructed three DSE molecules (NRP-Boc, DCIP-Boc, and DCMP-Boc) with far-red to near-infrared fluorescence by simply modifying three traditional aggregation-caused quenching (ACQ) fluorophores with tert-butyloxycarbonyl (Boc) groups. Density functional theory (DFT) calculations and crystal data revealed the reasons for the bright fluorescence of these three molecules in solution and solid, demonstrating that this Boc protection method is a simple and effective strategy for constructing DSE molecules. We also found that these three DSE molecules have the potential to target and visualize lipid droplets (LDs). Among them, DCIP-Boc shows advantages of a large Stokes shift, long emission wavelength, low fluorescence background, and good photostability in cells, providing a powerful new molecular tool with DSE property for high-fidelity imaging of LDs.

The effects of modifiers on electrospray ionization for small-to-medium-sized molecules in comparison with solution-phase ionization.

Modifiers are essential additives in electrospray ionization (ESI) mass spectrometric analysis to enhance the production of ionic species in the gas phase for the detection of small-to-medium-sized molecules in biological and aqueous samples. Therefore, an appropriate modifier, in conjunction with the right ionization polarity, is crucial for sensitive ESI mass spectrometric analysis. However, the charge carried by basic and acidic functional groups in solution is neither quantitatively nor qualitatively reflected in the MS spectrum. For example, adding an acidic modifier will cause sufficient protonation of a basic functional group in solution; however, this may result in inferior positive ESI compared to using a basic modifier. Another example is when the MS spectrum does not reflect the charge distribution of multiply charged molecules in solution. Therefore, this review will summarize and discuss the proposed mechanisms by which modifiers induce and influence ESI. It will also cover molecular characteristics that affect ESI, such as charge state and polarity, which result in a difference between solution-phase ionization and ESI.

Chemotactic particles as strong electrolytes: Debye-Hückel approximation and effective mobility law.

We consider a binary mixture of chemically active particles that produce or consume solute molecules and that interact with each other through the long-range concentration fields they generate. We analytically calculate the effective phoretic mobility of these particles when the mixture is submitted to a constant, external concentration gradient, at leading order in the overall concentration. Relying on an analogy with the modeling of strong electrolytes, we show that the effective phoretic mobility decays with the square root of the concentration: our result is, therefore, a nonequilibrium counterpart to the celebrated Kohlrausch and Debye-Hückel-Onsager conductivity laws for electrolytes, which are extended here to particles with long-range nonreciprocal interactions. The effective mobility law we derive reveals the existence of a regime of maximal mobility and could find applications in the description of nanoscale transport phenomena in living cells.