Search

Multicomponent macromolecular mixtures often form higher-order structures, which may display non-ideal mixing and aging behaviors. In this work, we first propose a minimal model of a quaternary system that takes into account the formation of a complex via a chemical reaction involving two macromolecular species; the complex may then phase separate from the buffer and undergo a further transition into a gel-like state. We subsequently investigate how physical parameters such as molecular size, stoichiometric coefficients, equilibrium constants, and interaction parameters affect the phase behavior of the mixture and its propensity to undergo aging via gelation. In addition, we analyze the thermodynamic stability of the system and identify the spinodal regions and their overlap with gelation boundaries. The approach developed in this work can be readily generalized to study systems with an arbitrary number of components. More broadly, it provides a physically based starting point for the investigation of the kinetics of the coupled complex formation, phase separation, and gelation processes in spatially extended systems. [ABSTRACT FROM AUTHOR]

We present a simple approximation to estimate the largest charge that a given molecule can hold until fragmentation into smaller charged species becomes more energetically favorable. This approximation solely relies on the ionization potentials, electron affinities of the parent and fragment species, and also on the neutral parent's dissociation energy. By parameterizing these quantities, it is possible to obtain analytical phase diagrams of polycationic stability. We demonstrate the applicability of this approach by discussing the maximal charge dependence on the size of the molecular system. A numerical demonstration for linear polyenes, monocyclic annulenes, and helium clusters is provided. [ABSTRACT FROM AUTHOR]

Static and time-dependent quantum-mechanical approaches have been employed in the literature to characterize the physics of light-emitting molecules and nanostructures. However, the electromagnetic emission induced by an input current has remained beyond the realm of molecular simulations. This is the challenge addressed here with the help of an equation of motion for the density matrix coupled to a photon bath based on a Redfield formulation. This equation is evolved within the framework of the driven-Liouville von Neumann approach, which incorporates open boundaries by introducing an applied bias and a circulating current. The dissipated electromagnetic power can be computed in this context from the time derivative of the energy. This scheme is applied in combination with a self-consistent tight-binding Hamiltonian to investigate the effects of bias and molecular size on the electroluminescence of metallic and semiconducting chains. For the latter, a complex interplay between bias and molecular length is observed: there is an optimal number of atoms that maximizes the emitted power at high voltages but not at low ones. This unanticipated behavior can be understood in terms of the band bending produced along the semiconducting chain, a phenomenon that is captured by the self-consistency of the method. A simple analytical model is proposed that explains the main features revealed by the simulations. The methodology, applied here at a self-consistent tight-binding level but extendable to more sophisticated Hamiltonians such as density functional tight binding and time dependent density functional theory, promises to be helpful for quantifying the power and quantum efficiency of nanoscale electroluminescent devices. [ABSTRACT FROM AUTHOR]

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 6000 bar) 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. [ABSTRACT FROM AUTHOR]

Polymers are known to wet nanopores with high surface energy through an atomically thin precursor film followed by slower capillary filling. We present here light interference spectroscopy using a mesoporous membrane-based chip that allows us to observe the dynamics of these phenomena in situ down to the sub-nanometer scale at milli- to microsecond temporal resolution. The device consists of a mesoporous silicon film (average pore size 6 nm) with an integrated photonic crystal, which permits to simultaneously measure the phase shift of thin film interference and the resonance of the photonic crystal upon imbibition. For a styrene dimer, we find a flat fluid front without a precursor film, while the pentamer forms an expanding molecular thin film moving in front of the menisci of the capillary filling. These different behaviors are attributed to a significantly faster pore-surface diffusion compared to the imbibition dynamics for the pentamer and vice versa for the dimer. In addition, both oligomers exhibit anomalously slow imbibition dynamics, which could be explained by apparent viscosities of six and eleven times the bulk value, respectively. However, a more consistent description of the dynamics is achieved by a constriction model that emphasizes the increasing importance of local undulations in the pore radius with the molecular size and includes a sub-nanometer hydrodynamic dead, immobile zone at the pore wall but otherwise uses bulk fluid parameters. Overall, our study illustrates that interferometric, opto-fluidic experiments with mesoporous media allow for a remarkably detailed exploration of the nano-rheology of polymeric liquids. [ABSTRACT FROM AUTHOR]

Beyond well-documented confinement and surface effects arising from the large internal surface and severely confining porosity of nanoporous hosts, the transport of nanoconfined fluids remains puzzling in many aspects. With striking examples such as memory, i.e., non-viscous effects, intermittent dynamics, and surface barriers, the dynamics of fluids in nanoconfinement challenge classical formalisms (e.g., random walk, viscous/advective transport)—especially for molecular pore sizes. In this context, while molecular frameworks such as intermittent Brownian motion, free volume theory, and surface diffusion are available to describe the self-diffusion of a molecularly confined fluid, a microscopic theory for collective diffusion (i.e., permeability), which characterizes the flow induced by a thermodynamic gradient, is lacking. Here, to fill this knowledge gap, we invoke the concept of "De Gennes narrowing," which relates the wavevector-dependent collective diffusivity D0(q) to the fluid structure factor S(q). First, using molecular simulation for a simple yet representative fluid confined in a prototypical solid (zeolite), we unravel an essential coupling between the wavevector-dependent collective diffusivity and the structural ordering imposed on the fluid by the crystalline nanoporous host. Second, despite this complex interplay with marked Bragg peaks in the fluid structure, the fluid collective dynamics is shown to be accurately described through De Gennes narrowing. Moreover, in contrast to the bulk fluid, the departure from De Gennes narrowing for the confined fluid in the macroscopic limit remains small as the fluid/solid interactions in severe confinement screen collective effects and, hence, weaken the wavevector dependence of collective transport. [ABSTRACT FROM AUTHOR]

The GW electron–hole interaction kernel, which includes two second-order exchange terms in addition to the first-order direct and exchange terms considered in the conventional GW + Bethe–Salpeter method, is applied to 10 two-molecular systems and six thermally activated delayed fluorescence (TADF) molecules in which inter- and intramolecular charge transfer excitations are expected to occur. The contributions of the two second-order exchange terms are almost zero for intermolecular charge transfer excitations and ∼0.75 eV for intramolecular charge transfer excitations according to our exciton analysis method with exciton wave functions. For TADF molecules, we found that the second-order exchange terms are more significant than the first-order exchange terms, and the contributions—even for local-type and delocalized-type excitations—are not negligibly small. We revealed that the two second-order exchange terms are proportional to the molecular size, the exciton binding energy, and the electron–hole overlap strength for intramolecular charge-transfer excitations. We believe that our findings are indispensable for further considerations of the GW method in the future. [ABSTRACT FROM AUTHOR]

We present a new program implementation of the Gaussian process regression adaptive density-guided approach [Schmitz et al., J. Chem. Phys. 153, 064105 (2020)] for automatic and cost-efficient potential energy surface construction in the MidasCpp program. A number of technical and methodological improvements made allowed us to extend this approach toward calculations of larger molecular systems than those previously accessible and maintain the very high accuracy of constructed potential energy surfaces. On the methodological side, improvements were made by using a Δ-learning approach, predicting the difference against a fully harmonic potential, and employing a computationally more efficient hyperparameter optimization procedure. We demonstrate the performance of this method on a test set of molecules of growing size and show that up to 80% of single point calculations could be avoided, introducing a root mean square deviation in fundamental excitations of about 3 cm−1. A much higher accuracy with errors below 1 cm−1 could be achieved with tighter convergence thresholds still reducing the number of single point computations by up to 68%. We further support our findings with a detailed analysis of wall times measured while employing different electronic structure methods. Our results demonstrate that GPR-ADGA is an effective tool, which could be applied for cost-efficient calculations of potential energy surfaces suitable for highly accurate vibrational spectra simulations. [ABSTRACT FROM AUTHOR]

Finite-size effects are challenging in molecular dynamics simulations because they have significant effects on computed static and dynamic properties, in particular diffusion constants, friction coefficients, and time- or frequency-dependent response functions. We investigate the influence of periodic boundary conditions on the velocity autocorrelation function and the frequency-dependent friction of a particle in a fluid, and show that the long-time behavior (starting at the picosecond timescale) is significantly affected. We develop an analytical correction allowing us to subtract the periodic boundary condition effects. By this, we unmask the power-law long-time tails of the memory kernel and the velocity autocorrelation function in liquid water and a Lennard-Jones fluid from simulations with rather small box sizes. [ABSTRACT FROM AUTHOR]

Lignin is an inexpensive bio-adsorbent and has many applications in the adsorption of heavy metals. The structure and size of the lignin molecular chain affect its properties. Introducing of amino functional groups to the structure of lignin can improve its physical and chemical properties and increase its reactivity and adsorption power. Lignin cross-linking also improves its performance and adsorption characteristics. In the first step, lignin as a black liquor was extracted and purified from the waste of the wood factory. The lignin was then reacted with phenol to obtain lignophenol. The obtained lignophenol was then aminated via reacting with the ethylene diamine. Finally, in order to increase the strength of the adsorbent structure and prevent the dissolution of the adsorbent at low pHs (suitable for adsorption), 37% aqueous formaldehyde was added to the aminated lignin, from which aminated and cross-linked lignophenol was then obtained. Different types of lignins including lignin, lignophenol and amine-functionalized (branched or cross-linked) lignophenol were well synthesized and identified. The results of FT-IR spectrum showed that the amine functional groups were well attached to the lignophenol branches and the lignophenol was converted to the amino-containing lignophenol. Also, the results of acid–base titration and 11HNMR show that phenol was successfully bonded onto the lignin and amine functional groups were observed in lignin structure. The results of acid–base titration, elemental analysis and zeta potential tests also confirmed amination of lignophenol. [ABSTRACT FROM AUTHOR]

This article explores the expansion of the genetic alphabet through the creation of unnatural nucleobase pairs. These new nucleobase pairs can be incorporated into DNA, allowing for the generation of unique functional proteins. The article discusses the development of xeno-nucleic acids (XNAs) and the use of charge-transfer interactions and click chemistry to design synthetic nucleobases. It also explores the synthesis and potential applications of C-nucleosides, as well as the design and applications of unnatural nucleobases in DNA and RNA. The researchers successfully created a semi-synthetic organism with an expanded genetic alphabet and investigated the stability and pairing selectivity of abasic DNA duplexes containing unnatural nucleobases. The article also discusses the use of fluorescent nucleosides in detecting DNA lesions and the potential applications of chimeric DNA duplexes in various fields. The research provides valuable insights for researchers interested in genetic alphabet expansion and the study of nucleic acids and proteins. [Extracted from the article]

A novel boron‐containing novolac (triphenyl borate‐formaldehyde resin, TPBF) was synthesized. The structure, thermoplasticity, molecular weight, and molecular weight distribution of TPBF have been characterized with FT‐IR, melt viscosity, 13C NMR and GPC. The thermal stability of TPBF was investigated by TGA, indicating the thermal stability of TPBF was much better than that of normal novolac (phenol‐formaldehyde resin, PF). TPBFs with different molar ratios of formaldehyde to benzene ring in triphenyl borate (TPB) were also synthesized and compared for molecular size, polydispersity and thermal stability. Further, the thermal degradation kinetics of TPBFs and PF were studied by TGA using Madhusdanan‐Krishnan‐Ninan method and the activation energies were calculated at different degradation stages. It was found that the thermal degradations of TPBFs and PF are a multistage reaction and the degradation reactions in every stage follow the first order reaction mechanism. Finally, the activation energies of thermal degradations of novolac increase with the introduction of boron, the progress of degradation reaction as well as the increase of molar ratios. [ABSTRACT FROM AUTHOR]

Combustion and air-pollution aerosol particles often contain a substantial mass fraction of carbon. In biomass or residual-fuel smoke, this carbon may span a continuum of molecular sizes and physical properties, from macromolecular black carbon (BC) and tarballs to smaller molecules of organic particulate matter (OM). The quantification of these materials presents a metrological challenge which rapid temperature programmed oxidation instruments (RTPOs) may address. RTPOs collect particles on filters, which are then rapidly heated (> 700 K/min) in ambient or synthetic air while CO2 in the emitted gases is quantified either with (e.g. the "FATCAT" instrument) or without (e.g., "TCA08") first passing gases over an oxidation catalyst. Both RTPOs monitor CO2 concentrations in real time to provide thermograms; both report total carbon mass by reference to baseline-subtracted CO2 thermograms. In this study, we investigated the response of these instruments to a variety of laboratory samples. Integrated carbon mass from the FATCAT and TCA08 agreed with one another, and with reference measurements, for both mature, fully graphitized soot (OC/TC < 0.1) and young, partially formed soot (OC/TC = 0.6 after denuding at 350 °C). However, due to its lack of an oxidation catalyst, the TCA08 CO2 measurements were 10-fold lower than reference measurements for two model OM compounds (dioctyl sebacate and sucrose). Since a previous atmospheric study has observed consistency between a TCA08 and a reference instrument, our data imply a large difference in the evaporation kinetics of these surrogates and atmospheric OM, as expected for highly-viscous (glassy) atmospheric OM. Finally, we discuss the thermograms of nebulized BC surrogates (C60, graphene, graphite), which showed two peaks at lower and higher temperatures, even after denuding at 350 °C. [ABSTRACT FROM AUTHOR]

Persistent organic pollutants pose a great threat to amphibian populations, but information on the bioaccumulation of contaminants in amphibians remains scarce. To examine the tissue distribution and maternal transfer of organic halogenated pollutants (OHPs) in frogs, seven types of tissues from black‐spotted frog (muscle, liver, kidney, stomach, intestine, heart, and egg) were collected from an e‐waste–polluted area in South China. Among the seven frog tissues, median total OHP concentrations of 2.3 to 9.7 μg/g lipid weight were found (in 31 polychlorinated biphenyl [PCB] individuals and 15 polybrominated diphenyl ether [PBDE], dechlorane plus [syn‐DP and anti‐DP], bexabromobenzene [HBB], polybrominated biphenyl] PBB153 and ‐209], and decabromodiphenyl ethane [DBDPE] individuals). Sex‐specific differences in contaminant concentration and compound compositions were observed among the frog tissues, and eggs had a significantly higher contaminant burden on the whole body of female frogs. In addition, a significant sex difference in the concentration ratios of other tissues to the liver was observed in most tissues except for muscle. These results suggest that egg production may involve the mobilization of other maternal tissues besides muscle, which resulted in the sex‐specific distribution. Different parental tissues had similar maternal transfer mechanisms; factors other than lipophilicity (e.g., molecular size and proteinophilic characteristics) could influence the maternal transfer of OHPs in frogs. Environ Toxicol Chem 2024;43:1557–1568. © 2024 SETAC [ABSTRACT FROM AUTHOR]

Macrocycles offer an attractive format for drug development due to their good binding properties and potential to cross cell membranes. To efficiently identify macrocyclic ligands for new targets, methods for the synthesis and screening of large combinatorial libraries of small cyclic peptides were developed, many of them using thiol groups for efficient peptide macrocyclization. However, a weakness of these libraries is that invariant thiol‐containing building blocks such as cysteine are used, resulting in a region that does not contribute to library diversity but increases molecule size. Herein, we synthesized a series of structurally diverse thiol‐containing elements and used them for the combinatorial synthesis of a 2,688‐member library of small, structurally diverse peptidic macrocycles with unprecedented skeletal complexity. We then used this library to discover potent thrombin and plasma kallikrein inhibitors, some also demonstrating favorable membrane permeability. X‐ray structure analysis of macrocycle‐target complexes showed that the size and shape of the newly developed thiol elements are key for binding. The strategy and library format presented in this work significantly enhance structural diversity by allowing combinatorial modifications to a previously invariant region of peptide macrocycles, which may be broadly applied in the development of membrane permeable therapeutics. [ABSTRACT FROM AUTHOR]

Macrocycles offer an attractive format for drug development due to their good binding properties and potential to cross cell membranes. To efficiently identify macrocyclic ligands for new targets, methods for the synthesis and screening of large combinatorial libraries of small cyclic peptides were developed, many of them using thiol groups for efficient peptide macrocyclization. However, a weakness of these libraries is that invariant thiol‐containing building blocks such as cysteine are used, resulting in a region that does not contribute to library diversity but increases molecule size. Herein, we synthesized a series of structurally diverse thiol‐containing elements and used them for the combinatorial synthesis of a 2,688‐member library of small, structurally diverse peptidic macrocycles with unprecedented skeletal complexity. We then used this library to discover potent thrombin and plasma kallikrein inhibitors, some also demonstrating favorable membrane permeability. X‐ray structure analysis of macrocycle‐target complexes showed that the size and shape of the newly developed thiol elements are key for binding. The strategy and library format presented in this work significantly enhance structural diversity by allowing combinatorial modifications to a previously invariant region of peptide macrocycles, which may be broadly applied in the development of membrane permeable therapeutics. [ABSTRACT FROM AUTHOR]

Rice prolamins are categorized into three groups by molecular size (10, 13, or 16 kDa), while the 13 kDa prolamins are assigned to four subgroups (Pro13a-I, Pro13a-II, Pro13b-I, and Pro13b-II) based on cysteine residue content. Since lowering prolamin content in rice is essential to minimize indigestion and allergy risks, we generated four knockout lines using CRISPR-Cas9, which selectively reduced the expression of a specific subgroup of the 13 kDa prolamins. These four mutant rice lines also showed the compensatory expression of glutelins and non-targeted prolamins and were accompanied by low grain weight, altered starch content, and atypically-shaped starch granules and protein bodies. Transcriptome analysis identified 746 differentially expressed genes associated with 13 kDa prolamins during development. Correlation analysis revealed negative associations between genes in Pro13a-I and those in Pro13a-II and Pro13b-I/II subgroups. Furthermore, alterations in the transcription levels of 9 ER stress and 17 transcription factor genes were also observed in mutant rice lines with suppressed expression of 13 kDa prolamin. Our results provide profound insight into the functional role of 13 kDa rice prolamins in the regulatory mechanisms underlying rice seed development, suggesting their promising potential application to improve nutritional and immunological value. [ABSTRACT FROM AUTHOR]

This article presents crystal structures of chalcogenadiazolecarboxylic acids bearing both a hydrogen and a chalcogen bond donor. The selected molecules varied in the size of the aromatic unit, the chalcogen atom and/or the position of the carboxyl group in the core structure. The most common synthons in their lattice are R 22 (8) self-complementary acid dimers or four-membered [Ch⋯N]2 rings. Supramolecular synthons where chalcogenadiazole moieties interact with the carboxyl group were also identified. Both ESP calculations and experimental data showed that all the studied molecules adopted flat conformations, but only in the case of three crystal structures were flat sheets observed. To assess the contribution of hydrogen and chalcogen bonds to the stabilization of the crystal structure, crystal lattice energy calculations were performed. [ABSTRACT FROM AUTHOR]

Membranes are important in the pharmaceutical industry for the separation of antibiotics and salts. However, its widespread adoption has been hindered by limited control of the membrane microstructure (pore architecture and free‐volume elements), separation threshold, scalability, and operational stability. In this study, 4,4′,4′′,4′′′‐methanetetrayltetrakis(benzene‐1,2‐diamine) (MTLB) as prepared as a molecular building block for fabricating thin‐film composite membranes (TFCMs) via interfacial polymerization. The relatively large molecular size and rigid molecular structure of MTLB, along with its non‐coplanar and distorted conformation, produced thin and defect‐free selective layers (~27 nm) with ideal microporosities for antibiotic desalination. These structural advantages yielded an unprecedented high performance with a water permeance of 45.2 L m−2 h−1 bar−1 and efficient antibiotic desalination (NaCl/adriamycin selectivity of 422). We demonstrated the feasibility of the industrial scaling of the membrane into a spiral‐wound module (with an effective area of 2.0 m2). This module exhibited long‐term stability and performance that surpassed those of state‐of‐the‐art membranes used for antibiotic desalination. This study provides a scientific reference for the development of high‐performance TFCMs for water purification and desalination in the pharmaceutical industry. [ABSTRACT FROM AUTHOR]

The O antigen (OAg) polysaccharide is one of the most diverse surface molecules of Gram-negative bacterial pathogens. The structural classification of OAg, based on serological typing and sequence analysis, is important in epidemiology and the surveillance of outbreaks of bacterial infections. Despite the diverse chemical structures of OAg repeating units (RUs), the genetic basis of RU assembly remains poorly understood and represents a major limitation in assigning gene functions in polysaccharide biosynthesis. Here, we describe a genetic approach to interrogate the functional order of glycosyltransferases (GTs). Using Shigella flexneri as a model, we established an initial glycosyltransferase (IT)-controlled system, which allows functional order allocation of the subsequent GT in a 2-fold manner as follows: (i) first, by reporting the growth defects caused by the sequestration of UndP through disruption of late GTs and (ii) second, by comparing the molecular sizes of stalled OAg intermediates when each putative GT is disrupted. Using this approach, we demonstrate that for RfbF and RfbG, the GT involved in the assembly of S. flexneri backbone OAg RU, RfbG, is responsible for both the committed step of OAg synthesis and the third transferase for the second L-Rha. We also show that RfbF functions as the last GT to complete the S. flexneri OAg RU backbone. We propose that this simple and effective genetic approach can be also extended to define the functional order of enzymatic synthesis of other diverse polysaccharides produced both by Gram-negative and Gram-positive bacteria. [ABSTRACT FROM AUTHOR]

The alkylation of toluene catalyzed by modified HZSM-5 was an economical and efficient way to produce para-xylene (PX) due to the full utilization of toluene and fewer by-products. It has attracted significant attention in optimizing the modification method for both high activity and PX selectivity. In this study, we employed SiO2 and MgO to co-modify HZSM-5 for the alkylation of toluene with dimethyl carbonate. The catalysts in which SiO2 was deposited first with trimethoxysilane (TMOS) as the precursor, showed significantly higher activity and PX selectivity than that of depositing MgO first. When the content of SiO2 and MgO was both 5%, the conversion of toluene was 12%, with the selectivity of PX up to 85% (400 °C) for the 5Si-5Mg/ZSM-5 catalyst (depositing SiO2 first). However, the conversion and selectivity were only 5% and 56% for the 5Mg-5Si/ZSM-5 catalyst (depositing MgO first). The analysis of structure and acid properties indicated that the pre-deposition of SiO2 can regulate the location of MgO, leading to the suppression of the external acid sites and the inhibition of the pore blockage by MgO. Owing to the pore size of ZSM-5 being slightly smaller than the molecular size of TMOS, TMOS molecules would be embedded in the pore entrance, making SiO2 tend to prevent MgO from entering the micropore of ZSM-5. [ABSTRACT FROM AUTHOR]

Podocyte health is vital for maintaining proper glomerular filtration in the kidney. Interdigitating foot processes from podocytes form slit diaphragms which regulate the filtration of molecules through size and charge selectivity. The abundance of lipid rafts, which are ordered membrane domains rich in cholesterol and sphingolipids, near the slit diaphragm highlights the importance of lipid metabolism in podocyte health. Emerging research shows the importance of sphingolipid metabolism to podocyte health through structural and signaling roles. Dysregulation in sphingolipid metabolism has been shown to cause podocyte injury and drive glomerular disease progression. In this review, we discuss the structure and metabolism of sphingolipids, as well as their role in proper podocyte function and how alterations in sphingolipid metabolism contributes to podocyte injury and drives glomerular disease progression. [ABSTRACT FROM AUTHOR]

The Arrhenius equation is generally adopted for the application of accelerated aging in laboratory tests, and activation energy is one of the important parameters in the equation. In most cases, activation energy was determined by obtaining a series of viscosity data at different temperature, which was a complex process. Therefore, this study aimed to analyze the correlation between activation energy for viscous flow (Eη) and molecular characteristics as well as rheological properties and obtain easily measurable properties that can be used to predict Eη. In this study, nine base asphalt binders were subjected to accelerated aging, and their viscosity, rheological properties, and molecular weight distribution were tested. Small molecule size (SMS) content was the most strongly correlated parameter with Eη for unaged asphalt binder compared with medium molecule size (MMS) content and large molecule size (LMS) content from the result of gray relation analysis. The correlation further weakened after considering aging, which indicated that the change in molecular distribution of asphalt binder may not be the decisive parameter in determining the change in Eη of asphalt binder. Single regression analysis showed a significant correlation between rheological performance parameters and Eη. It was feasible to predict Eη based on the failure temperature and obtain the modified Arrhenius equation. The modified equation could be used to calculate the accelerated aging factor and obtain the aging asphalt and accurate aging status of asphalt binders. By verification, the average error in predicting the Eη of the asphalt binder using the modified equation was less than 5%. [ABSTRACT FROM AUTHOR]

The self‐assembly of amphiphilic molecules produces structures of diverse dimensions, encompassing micelles, tubules, lamellae, and vesicles. This study focuses on elucidating the controllability of amphiphilic lipid molecule self‐assembly in size and uniformity to facilitate our understanding of the molecular characteristics that correlate with the functions and attributes of the assembled structures. Electrospray deposition allows micropatterning of lipid molecules in conjunction with a conductive–nonconductive patterned substrate. The solvent in the sprayed mist undergoes evaporation during flight, leading to the deposition of dry lipids exclusively on the conductive regions of the substrate. This process enables homogeneous lipid micropatterning, effectively circumventing the coffee‐ring effect. Subsequent hydration of the lipid pattern triggers the spontaneous formation of a size‐controlled, unilamellar vesicle array on the substrate, spanning an area of a few square millimeters. The vesicles exhibits monodispersity, with a coefficient of variation below 8% for sizes ranging from 5 to 20 μm. The size‐controlled self‐assembly process is adaptable to various lipid compositions, thereby demonstrating that the molecular characteristics manifest in the morphological features appear as phase separation, budding, and curvature of vesicle membranes. The approach further validates its suitability for conducting time‐resolved analyses of molecular transport and ligand binding on the monodispersed vesicle array. [ABSTRACT FROM AUTHOR]

Background: A significant challenge in cancer therapy lies in eradicating hidden disseminated tumor cells. Within Nuclear Medicine, Targeted Alpha Therapy is a promising approach for cancer treatment tackling disseminated cancer. As tumor size decreases, alpha-particles gain prominence due to their high Linear Energy Transfer (LET) and short path length. Among alpha-particle emitters, 211At stands out with its 7.2 hour half-life and 100% alpha emission decay. However, optimizing the pharmacokinetics of radiopharmaceuticals with short lived radionuclides such as 211At is pivotal, and in this regard, pretargeting is a valuable tool. This method involves priming the tumor with a modified monoclonal antibody capable of binding both the tumor antigen and the radiolabeled carrier, termed the "effector molecule. This smaller, faster-clearing molecule improves efficacy. Utilizing the Diels Alder click reaction between Tetrazine (Tz) and Trans-cyclooctene (TCO), the Tz-substituted effector molecule combines seamlessly with the TCO-modified antibody. This study aims to evaluate the in vivo biodistribution of two Poly-L-Lysine-based effector molecule sizes (10 and 21 kDa), labelled with 211At, and the in vitro binding of the most favorable polymer size, in order to optimize the pretargeted radioimmunotherapy with 211At. Results: In vivo results favor the smaller polymer's biodistribution pattern over the larger one, which accumulates in organs like the liver and spleen. This is especially evident when comparing the biodistribution of the smaller polymer to a directly labelled monoclonal antibody. The smaller variant also shows rapid and efficient binding to SKOV-3 cells preloaded with TCO-modified Trastuzumab in vitro, emphasizing its potential. Both polymer sizes showed equal or better in vivo stability of the astatine-carbon bond compared to a monoclonal antibody labelled with the same prosthetic group. Conclusions: Overall, the small Poly-L-Lysine-based effector molecule (10 kDa) holds the most promise for future research, exhibiting significantly lower uptake in the kidneys and spleen compared to the larger effector (21 kDa) while maintaining an in vivo stability of the astatine-carbon bond comparable to or better than intact antibodies. A proof of concept in vitro cell study demonstrates rapid reaction between the small astatinated effector and a TCO-labelled antibody, indicating the potential of this novel Poly-L-Lysine-based pretargeting system for further investigation in an in vivo tumor model. [ABSTRACT FROM AUTHOR]

A key player of excitable cells in the heart and brain is the L-type calcium channel CaV1.3. In the heart, it is required for voltage-dependent Ca2+-signaling, i.e., for controlling and modulating atrial cardiomyocyte excitation-contraction coupling. The clustering of CaV1.3 in functionally relevant channel multimers has not been addressed due to a lack of stoichiometric labeling combined with high-resolution imaging. Here, we developed a HaloTag-labeling strategy to visualize and quantify CaV1.3 clusters using STED nanoscopy to address the questions of cluster size and intra-cluster channel density. Channel clusters were identified in the plasma membrane of transfected live HEK293 cells as well as in giant plasma membrane vesicles derived from these cells that were spread on modified glass support to obtain supported plasma membrane bilayers (SPMBs). A small fraction of the channel clusters was colocalized with early and recycling endosomes at the membranes. STED nanoscopy in conjunction with live-cell and SPMB imaging enabled us to quantify CaV1.3 cluster sizes and their molecular density revealing significantly lower channel densities than expected for dense channel packing. CaV1.3 channel cluster size and molecular density were increased in SPMBs after treatment of the cells with the sympathomimetic compound isoprenaline, suggesting a regulated channel cluster condensation mechanism. The authors develop a HaloTag-labeling strategy to quantify the clustering of the L-type calcium channel CaV1.3 using live-cell STED nanoscopy. [ABSTRACT FROM AUTHOR]

Dissolved organic carbon (DOC) in the global oceans is an important long‐term carbon sink. Connections between molecular size, reactivity, and isotopic characteristics show that DOC exists on a continuum from biologically reactive to recalcitrant. The driving mechanisms behind the creation and persistence of recalcitrant DOC remain unknown. We show mean recalcitrant DOC (isolated via solid‐phase extraction; SPE‐DOC) δ13C values are 1.3 ± 0.6‰ lower than mean total DOC δ13C between depth ranges 0–200 m and 2–4 km on three GO‐SHIP Repeat Hydrography cruises. Lowest observed δ13C values correlate with low ∆14C and proximity to deep ocean hydrothermal systems. These data support the hypothesis that reworking of DOC through the microbial carbon pump is a key driver of the ocean's long‐term carbon sink. Mass‐balance modeling shows deep‐ocean DOC not captured by SPE is enriched in 13C, highlighting the need for continued research on non‐retained DOC to predict mechanisms that drive ocean carbon storage. Plain Language Summary: The global oceans play an important role in Earth's climate, and dissolved organic carbon (DOC) (produced by surface ocean photosynthesis) has been recognized as a potential long‐term carbon sink in the deep ocean. However, the mechanisms behind the long‐term sink remain unknown. Recent research has shown that a phenomenon called the microbial carbon pump (MCP) may be a driving force in the production of long‐lasting "recalcitrant" DOC via heterotrophic consumption of nitrogen and phosphorus rich biomolecules and subsequent production of recalcitrant DOC as by‐product. The work presented here shows that this phenomenon, previously recognized on regional scales, may be systematic across the global oceans, indicated by our measurements in the Pacific, Indian, and Southern Oceans. Key Points: Solid‐phase extracted dissolved organic carbon has low isotope signatures relative to bulk dissolved organic carbon in three ocean basinsThis research supports the hypothesis that bacteria drive the storage of recalcitrant organic matter through successive reworkingIsotope measurements show hydrothermal vent influence likely captured in deep‐ocean solid‐phase extracted dissolved organic carbon [ABSTRACT FROM AUTHOR]

Living systems rely on molecular building blocks with low structural symmetry. Therefore, constituent amino acids and nucleotides yield short-lived nuclear magnetic responses to electromagnetic radiation. Magnetic signals are at the basis of molecular imaging, structure determination and interaction studies. In solution state, as the molecular weight of analytes increases, coherences with long lifetimes are needed to yield advantageous through-space magnetisation transfers. Interactions between magnetic nuclei can only be detected provided the lifetimes of spin order are sufficient. In J-coupled pairs of nuclei, long-lived coherences (LLC's) connect states with different spin-permutation symmetry. Here in, we show sustained LLC's in protein Lysozyme, weighing 14.3 kDa, with lifetimes twice as long as those of classical magnetisation for the aliphatic protons of glycine residues. We found for the first time that, in a protein of significant molecular weight, LLC's yield substantial through-space magnetisation transfers: spin-order transfer stemming from LLC's overcame transfers from classical coherences by factors > 2. Furthermore, in agreement with theory, the permutation symmetry of LLC-based transfers allows mapping interacting atoms in the protein structure with respect to the molecular plane of glycine residues in a stereospecific manner. These findings can extend the scope of liquid-state high-resolution biomolecular spectroscopy. Solution NMR spectroscopy provides rich structural information on biomolecules, however, its resolution becomes limited when molecular size increases, due to short-lived nuclear magnetic responses to electromagnetic radiation. Here, the authors sustain long-lived coherences for the aliphatic protons of glycine residues within protein lysozyme, yielding substantial through-space magnetization transfers, and mapping interacting atoms in the protein structure. [ABSTRACT FROM AUTHOR]

The dysfunction of α and β cells in pancreatic islets can lead to diabetes. Many questions remain on the subcellular organization of islet cells during the progression of disease. Existing three-dimensional cellular mapping approaches face challenges such as time-intensive sample sectioning and subjective cellular identification. To address these challenges, we have developed a subcellular feature-based classification approach, which allows us to identify α and β cells and quantify their subcellular structural characteristics using soft X-ray tomography (SXT). We observed significant differences in whole-cell morphological and organelle statistics between the two cell types. Additionally, we characterize subtle biophysical differences between individual insulin and glucagon vesicles by analyzing vesicle size and molecular density distributions, which were not previously possible using other methods. These sub-vesicular parameters enable us to predict cell types systematically using supervised machine learning. We also visualize distinct vesicle and cell subtypes using Uniform Manifold Approximation and Projection (UMAP) embeddings, which provides us with an innovative approach to explore structural heterogeneity in islet cells. This methodology presents an innovative approach for tracking biologically meaningful heterogeneity in cells that can be applied to any cellular system. [ABSTRACT FROM AUTHOR]

Highlights: A comprehensive introduction into organic cathode materials for aqueous zinc-ion batteries with specific focus on their structural–property relationship based on the variations in composition, geometry, and molecular size. For each representative organic cathode, the unique electrochemistry has been discussed to provide insight into the underlying working mechanism. Summarized pros and cons of different organic cathodes and outlined challenges plus future research directions. Aqueous zinc-ion batteries (AZIBs) are one of the most compelling alternatives of lithium-ion batteries due to their inherent safety and economics viability. In response to the growing demand for green and sustainable energy storage solutions, organic electrodes with the scalability from inexpensive starting materials and potential for biodegradation after use have become a prominent choice for AZIBs. Despite gratifying progresses of organic molecules with electrochemical performance in AZIBs, the research is still in infancy and hampered by certain issues due to the underlying complex electrochemistry. Strategies for designing organic electrode materials for AZIBs with high specific capacity and long cycling life are discussed in detail in this review. Specifically, we put emphasis on the unique electrochemistry of different redox-active structures to provide in-depth understanding of their working mechanisms. In addition, we highlight the importance of molecular size/dimension regarding their profound impact on electrochemical performances. Finally, challenges and perspectives are discussed from the developing point of view for future AZIBs. We hope to provide a valuable evaluation on organic electrode materials for AZIBs in our context and give inspiration for the rational design of high-performance AZIBs. [ABSTRACT FROM AUTHOR]

Giant molecular acceptors (GMAs) are typically designed through the conjugated linking of individual small molecule acceptors (SMAs). This design imparts an extended molecular size, elevating the glass transition temperature (Tg) relative to their SMA counterparts. Consequently, it effectively suppresses the thermodynamic relaxation of the acceptor component when blended with polymer donors to construct stable polymer solar cells (PSCs). Despite their merits, the optimization of their chemical structure for further enhancing of device performance remains challenge. Different from previous reports utilizing p‐type linkers, here, we explore an n‐type linker, specifically the benzothiadiazole unit, to dimerize the SMA units via a click‐like Knoevenagel condensation, affording BT‐DL. In comparison with B‐DL with a benzene linkage, BT‐DL exhibits significantly stronger intramolecular super‐exchange coupling, a desirable property for the acceptor component. Furthermore, BT‐DL demonstrates a higher film absorption coefficient, redshifted absorption, larger crystalline coherence, and higher electron mobility. These inherent advantages of BT‐DL translate into a higher power conversion efficiency of 18.49 % in PSCs, a substantial improvement over the 9.17 % efficiency observed in corresponding devices with B‐DL as the acceptor. Notably, the BT‐DL based device exhibits exceptional stability, retaining over 90 % of its initial efficiency even after enduring 1000 hours of thermal stress at 90 °C. This work provides a cost‐effective approach to the synthesis of n‐type linker‐dimerized GMAs, and highlight their potential advantage in enhancing intramolecular coupling for more efficient and durable photovoltaic technologies. [ABSTRACT FROM AUTHOR]

Giant molecular acceptors (GMAs) are typically designed through the conjugated linking of individual small molecule acceptors (SMAs). This design imparts an extended molecular size, elevating the glass transition temperature (Tg) relative to their SMA counterparts. Consequently, it effectively suppresses the thermodynamic relaxation of the acceptor component when blended with polymer donors to construct stable polymer solar cells (PSCs). Despite their merits, the optimization of their chemical structure for further enhancing of device performance remains challenge. Different from previous reports utilizing p‐type linkers, here, we explore an n‐type linker, specifically the benzothiadiazole unit, to dimerize the SMA units via a click‐like Knoevenagel condensation, affording BT‐DL. In comparison with B‐DL with a benzene linkage, BT‐DL exhibits significantly stronger intramolecular super‐exchange coupling, a desirable property for the acceptor component. Furthermore, BT‐DL demonstrates a higher film absorption coefficient, redshifted absorption, larger crystalline coherence, and higher electron mobility. These inherent advantages of BT‐DL translate into a higher power conversion efficiency of 18.49 % in PSCs, a substantial improvement over the 9.17 % efficiency observed in corresponding devices with B‐DL as the acceptor. Notably, the BT‐DL based device exhibits exceptional stability, retaining over 90 % of its initial efficiency even after enduring 1000 hours of thermal stress at 90 °C. This work provides a cost‐effective approach to the synthesis of n‐type linker‐dimerized GMAs, and highlight their potential advantage in enhancing intramolecular coupling for more efficient and durable photovoltaic technologies. [ABSTRACT FROM AUTHOR]

Heavy metal ions have a serious effect on humans and the ecosystem. Molecular sieves have attracted significant attention in heavy metal ion adsorption with distinct microporosity and uniform pore size. In this paper, we successfully synthesized nano-sized NaA molecular sieves in the presence of an organic templating agent while aluminum isopropoxide and silica sol were used as the aluminum and silica sources. To synthesize molecular sieves of the ideal size, the anionic cation concentration and templating agent were adjusted. The findings of Cu(II) and Pb(II) adsorption on NaA molecular sieves showed that under the ideal conditions of adsorption time at 90 minutes, pH = 5, adsorption temperature at 25 °C, and starting adsorbent concentration at 100 mg g−1, the optimal adsorbing capacity could reach 230 mg g−1 and 600 mg g−1, respectively. Isotherm, kinetic, thermodynamic and reusability studies of heavy metal ion adsorption on NaA molecular sieves were carried out to investigate the adsorption kinetics. This work provides a new avenue to regulate the particle sizes of molecular sieves to enhance the adsorption capacity of heavy metal ions. [ABSTRACT FROM AUTHOR]

Context. The first hydrostatic core (FHSC) phase is a brief stage in the protostellar evolution that is difficult to detect. Its chemical composition determine that of later evolutionary stages. Numerical simulations are the tool of choice to study these objects. Aims. Our goal is to characterize the chemical evolution of gas and dust during the formation of the FHSC. Moreover, we are interested in analyzing, for the first time with 3D magnetohydrodynamic (MHD) simulations, the role of grain growth in its chemistry. Methods. We postprocessed 2 × 105 tracer particles from a RAMSES non-ideal MHD simulation using the codes NAUTILUS and SHARK to follow the chemistry and grain growth throughout the simulation. Results. Gas-phase abundances of most of the C, O, N, and S reservoirs in the hot corino at the end of the simulation match the ice-phase abundances from the prestellar phase. Interstellar complex organic molecules such as methyl formate, acetaldehyde, and formamide are formed during the warm-up process. Grain size in the hot corino (nH > 1011 cm−3) increases forty-fold during the last 30 kyr, with negligible effects on its chemical composition. At moderate densities (1010 < nH < 1011 cm−3) and cool temperatures 15 < T < 50 K, increasing grain sizes delay molecular depletion. At low densities (nH ~ 107 cm−3), grains do not grow significantly. To assess the need to perform chemo-MHD calculations, we compared our results with a two-step model that reproduces well the abundances of C and O reservoirs, but not the N and S reservoirs. Conclusions. The chemical composition of the FHSC is heavily determined by that of the parent prestellar core. Chemo-MHD computations are needed for an accurate prediction of the abundances of the main N and S elemental reservoirs. The impact of grain growth in moderately dense areas delaying depletion permits the use of abundance ratios as grain growth proxies. [ABSTRACT FROM AUTHOR]

Motivation Enhanced by contemporary computational advances, the prediction of drug–target interactions (DTIs) has become crucial in developing de novo and effective drugs. Existing deep learning approaches to DTI prediction are frequently beleaguered by a tendency to overfit specific molecular representations, which significantly impedes their predictive reliability and utility in novel drug discovery contexts. Furthermore, existing DTI networks often disregard the molecular size variance between macro molecules (targets) and micro molecules (drugs) by treating them at an equivalent scale that undermines the accurate elucidation of their interaction. Results We propose a novel DTI network with a differential-scale scheme to model the binding site for enhancing DTI prediction, which is named as BindingSiteDTI. It explicitly extracts multiscale substructures from targets with different scales of molecular size and fixed-scale substructures from drugs, facilitating the identification of structurally similar substructural tokens, and models the concealed relationships at the substructural level to construct interaction feature. Experiments conducted on popular benchmarks, including DUD-E, human, and BindingDB, shown that BindingSiteDTI contains significant improvements compared with recent DTI prediction methods. Availability and implementation The source code of BindingSiteDTI can be accessed at https://github.com/MagicPF/BindingSiteDTI. [ABSTRACT FROM AUTHOR]

A series of new granular carbonaceous adsorbents was prepared via single-stage physical and chemical activation of walnut shells. Their suitability for removing various types of organic pollutants (represented by dyes, surfactants and water-soluble polymers) from the liquid phase was assessed. The activation of the precursor was carried out with CO2 and H3PO4 using conventional heating. Activated biocarbons were characterized in terms of chemical composition, acidic–basic nature of the surface, textural and electrokinetic properties as well as thermal stability. Depending on the type of activating agent used during the activation procedure, the obtained biocarbons differed in terms of specific surface area (from 401 to 1361 m2/g) and the type of porous structure produced (microporosity contribution in the range of 45–75%). Adsorption tests proved that the effectiveness of removing organic pollutants from the liquid phase depended to a large extent on the type of prepared adsorbent as well as the chemical nature and the molecular size of the adsorbate used. The chemically activated sample showed greater removal efficiency in relation to all tested pollutants. Its maximum adsorption capacity for methylene blue, poly(acrylic acid), poly(ethylene glycol) and Triton X-100 reached the levels of 247.1, 680.9, 38.5 and 61.8 mg/g, respectively. [ABSTRACT FROM AUTHOR]

Immunoglobulin G-based monoclonal antibodies (mAbs) have been effective in treating various diseases, but their large molecular size can limit their penetration of tissue and efficacy in multifactorial diseases, necessitating the exploration of alternative forms. In this study, we constructed a phage display library comprising single-domain antibodies (sdAbs; or "VHHs"), known for their small size and remarkable stability, using a total of 1.6 × 109 lymphocytes collected from 20 different alpacas, resulting in approximately 7.16 × 1010 colonies. To assess the quality of the constructed library, next-generation sequencing-based high-throughput profiling was performed, analyzing approximately 5.65 × 106 full-length VHH sequences, revealing 92% uniqueness and confirming the library's diverse composition. Systematic characterization of the library revealed multiple sdAbs with high affinity for three therapeutically relevant antigens. In conclusion, our alpaca sdAb phage display library provides a versatile resource for diagnostics and therapeutics. Furthermore, the library's vast natural VHH antibody repertoire offers insights for generating humanized synthetic sdAb libraries, further advancing sdAb-based therapeutics. [ABSTRACT FROM AUTHOR]

Biologic therapy involving anti-tumor necrosis factor-α (anti-TNFα) agents has fundamentally changed the management of patients with immune-mediated inflammatory diseases, including rheumatoid arthritis, thus benefiting many patients. Nevertheless, the inability of some patients to achieve low disease activity or clinical remission remains a major concern. To address such concerns, next-generation anti-TNFα agents that differ from the immunoglobulin G-format anti-TNFα agents that have been used to date are being developed using antibody-engineering technology. Their unique design employing novel molecular characteristics affords several advantages, such as early improvement of clinical symptoms, optimization of drug bioavailability, enhancement of tissue penetration, and a reduction in side effects. This holds promise for a new paradigm shift in biologic therapy via the use of next-generation anti-TNFα agents. Ozoralizumab, a next-generation anti-TNFα agent that was recently approved in Japan, comprises a variable region heavy-chain format. It has a completely different structure from conventional therapeutic antibodies, such as a small molecular size, an albumin-binding module, and a unique format that produces an avidity effect. Ozoralizumab exhibited rapid biodistribution into joints, provided attenuation of Fcγ receptor-mediated inflammatory responses, and had a high binding affinity to TNFα in non-clinical studies. In clinical trials, ozoralizumab yielded an early improvement in clinical symptoms, a sustained efficacy for up to 52 weeks, and an acceptable tolerability in patients with rheumatoid arthritis. This review focuses on the results of pre-clinical and clinical trials for ozoralizumab and outlines the progress in next-generation antibody development. [ABSTRACT FROM AUTHOR]

Assessing the feasibility of porous formations for hydrogen geo-storage demands a comprehensive understanding of hydrogen (H 2) transport behavior in porous media at subsurface conditions. In this study, we employ molecular dynamics simulations to evaluate the effects of pressure (20–500 atm), pore size (2–20 nm), and surface composition on H 2 diffusion and interactions within organic and inorganic slit pores. Our analysis of H 2 density profiles and interaction energies reveals a distinct preference for H 2 molecules to adsorb more readily onto graphene surfaces than kaolinite surfaces. However, self-diffusion results demonstrate that H 2 molecules interact relatively weakly with both substrate types. Further insights are provided by velocity autocorrelation functions, emphasizing the occurrence of wall-mediated collisions as H 2 molecules diffuse along the pore surfaces, particularly within kaolinite. This highlights the significance of surface roughness in mitigating H 2 loss via diffusion in subsurface nanopores, given the small molecular size of H 2 and its limited interactions with both organic and inorganic materials. Furthermore, the results demonstrate that self-diffusion coefficients in both pore types increase with pore size and decrease with pressure. Notably, surface composition plays a critical role in low-pressure environments, with self-diffusion coefficients beginning to converge beyond a pressure of 100 atm. Self-diffusion coefficients also become less sensitive to slit aperture beyond a pressure of 50 atm. In high-pressure environments, hydrogen transport is governed by thermal collisions between gas molecules, leading to negligible property variations between pore types. These findings hold significance in the investigation of efficient H 2 storage within porous media and caprock formations. • H 2 molecules adsorb more readily onto graphene surfaces than kaolinite surfaces. • H 2 molecules interact relatively weakly with both graphene and kaolinite. • Surface roughness is a fundamental property governing potential H 2 loss. • H 2 self-diffusion generally increases with pore size and decreases with pressure. • Surface composition plays a critical role in H 2 transport at lower pressures. [ABSTRACT FROM AUTHOR]

In the global market era, food product control is very challenging. It is impossible to track and control all production and delivery chains not only for regular customers but also for the State Sanitary Inspections. Certified laboratories currently use accurate food safety and quality inspection methods. However, these methods are very laborious and costly. The present review highlights the need to develop fast, robust, and cost-effective analytical assays to determine food contamination. Application of the molecularly imprinted polymers (MIPs) as selective recognition units for chemosensors' fabrication was herein explored. MIPs enable fast and inexpensive electrochemical and optical transduction, significantly improving detectability, sensitivity, and selectivity. MIPs compromise durability of synthetic materials with a high affinity to target analytes and selectivity of molecular recognition. Imprinted molecular cavities, present in MIPs structure, are complementary to the target analyte molecules in terms of size, shape, and location of recognizing sites. They perfectly mimic natural molecular recognition. The present review article critically covers MIPs' applications in selective assays for a wide range of food products. Moreover, numerous potential applications of MIPs in the food industry, including sample pretreatment before analysis, removal of contaminants, or extraction of high-value ingredients, are discussed. [ABSTRACT FROM AUTHOR]

Poly(vinyl alcohol) (PVA) has ice binding and ice nucleating properties. Here, we explore the dependence of the molecular size of PVA on its ice nucleation activity. For this purpose, we studied ice nucleation in aqueous solutions of PVA samples with molar masses ranging from 370 to 145 000 g mol−1, with a particular focus on oligomer samples with low molar mass. The experiments employed a novel microfluidic setup that is a follow-up on the previous WeIzmann Supercooled Droplets Observation on a Microarray (WISDOM) design by Reicher et al. The modified setup introduced and characterized here, termed nanoliter Bielefeld Ice Nucleation ARraY (nanoBINARY), uses droplet microfluidics with droplets (96 ± 4) µm in diameter and a fluorinated continuous oil phase and surfactant. A comparison of homogeneous and heterogeneous ice nucleation data obtained with nanoBINARY to those obtained with WISDOM shows very good agreement, underpinning its ability to study low-temperature ice nucleators as well as homogeneous ice nucleation due to the low background of impurities. The experiments on aqueous PVA solutions revealed that the ice nucleation activity of shorter PVA chains strongly decreases with a decrease in molar mass. While the cumulative number of ice nucleating sites per mass nm of polymers with different molar masses is the same, it becomes smaller for oligomers and completely vanishes for dimer and monomer representatives such as 1,3-butanediol, propan-2-ol, and ethanol, most likely because these molecules become too small to effectively stabilize the critical ice embryo. Overall, our results are consistent with PVA polymers and oligomers acting as heterogeneous ice nucleators. [ABSTRACT FROM AUTHOR]

We construct a coarse-grained, structure-based, low-resolution, 6-bead flexible model of bovine serum albumin (BSA, PDB: 4F5S), which is a popular example of a globular protein in biophysical research. The model is obtained via direct Boltzmann inversion using all-atom simulations of a single molecule, and its particular form is selected from a large pool of 6-bead coarse-grained models using two suitable metrics that quantify the agreement in the distribution of collective coordinates between all-atom and coarse-grained Brownian dynamics simulations of solutions in the dilute limit. For immunoglobulin G (IgG), a similar structure-based 12-bead model has been introduced in the literature [Chaudhri et al., J. Phys. Chem. B 116, 8045 (2012)] and is employed here to compare findings for the compact BSA molecule and the more anisotropic IgG molecule. We define several modified coarse-grained models of BSA and IgG, which differ in their internal constraints and thus account for a variation of flexibility. We study denser solutions of the coarse-grained models with purely repulsive molecules (achievable by suitable salt conditions) and address the effect of packing and flexibility on dynamic and static behavior. Translational and rotational self-diffusivity is enhanced for more elastic models. Finally, we discuss a number of effective sphere sizes for the BSA molecule, which can be defined from its static and dynamic properties. Here, it is found that the effective sphere diameters lie between 4.9 and 6.1 nm, corresponding to a relative spread of about ±10% around a mean of 5.5 nm. [ABSTRACT FROM AUTHOR]

Hydrocarbon pyrolysis is a complex process involving large numbers of chemical species and types of chemical reactions. Its quantitative description is important for planetary sciences, in particular, for understanding the processes occurring in the interior of icy planets, such as Uranus and Neptune, where small hydrocarbons are subjected to high temperature and pressure. We propose a computationally cheap methodology based on an originally developed ten-reaction model and the configurational model from random graph theory. This methodology generates accurate predictions for molecule size distributions for a variety of initial chemical compositions and temperatures ranging from 3200 to 5000 K. Specifically, we show that the size distribution of small molecules is particularly well predicted, and the size of the largest molecule can be accurately predicted provided that this molecule is not too large. [ABSTRACT FROM AUTHOR]

A systematic study is made of the accuracy and efficiency of a number of existing quadrature schemes for molecular Kohn–Sham Density-Functional Theory (DFT) using 408 molecules and 254 chemical reactions. Included are the fixed SG-x (x = 0–3) grids of Gill et al., Dasgupta, and Herbert, the 3-zone grids of Treutler and Ahlrichs, a fixed five-zone grid implemented in Molpro, and a new adaptive grid scheme. While all methods provide a systematic reduction of errors upon extension of the grid sizes, significant differences are observed in the accuracies for similar grid sizes with various approaches. For the tests in this work, the SG-x fixed grids are less suitable to achieve high accuracies in the DFT integration, while our new adaptive grid performed best among the schemes studied in this work. The extra computational time to generate the adaptive grid scales linearly with molecular size and is negligible compared with the time needed for the self-consistent field iterations for large molecules. A comparison of the grid accuracies using various density functionals shows that meta-GGA functionals need larger integration grids than GGA functionals to reach the same degree of accuracy, confirming previous investigations of the numerical stability of meta-GGA functionals. On the other hand, the grid integration errors are almost independent of the basis set, and the basis set errors are mostly much larger than the errors caused by the numerical integrations, even when using the smallest grids tested in this work. [ABSTRACT FROM AUTHOR]

π–π interactions are among the most important intermolecular interactions in supramolecular systems. Here we determine experimentally a universal parameter for their strength that is simply based on the size of the interacting contact surfaces. Toward this goal we designed a new cyclophane based on terrylene bisimide (TBI) π‐walls connected by para‐xylylene spacer units. With its extended π‐surface this cyclophane proved to be an excellent and universal host for the complexation of π‐conjugated guests, including small and large polycyclic aromatic hydrocarbons (PAHs) as well as dye molecules. The observed binding constants range up to 108 M−1 and show a linear dependence on the 2D area size of the guest molecules. This correlation can be used for the prediction of binding constants and for the design of new host–guest systems based on the herewith derived universal Gibbs interaction energy parameter of 0.31 kJ/molÅ2 in chloroform. [ABSTRACT FROM AUTHOR]

π–π interactions are among the most important intermolecular interactions in supramolecular systems. Here we determine experimentally a universal parameter for their strength that is simply based on the size of the interacting contact surfaces. Toward this goal we designed a new cyclophane based on terrylene bisimide (TBI) π‐walls connected by para‐xylylene spacer units. With its extended π‐surface this cyclophane proved to be an excellent and universal host for the complexation of π‐conjugated guests, including small and large polycyclic aromatic hydrocarbons (PAHs) as well as dye molecules. The observed binding constants range up to 108 M−1 and show a linear dependence on the 2D area size of the guest molecules. This correlation can be used for the prediction of binding constants and for the design of new host–guest systems based on the herewith derived universal Gibbs interaction energy parameter of 0.31 kJ/molÅ2 in chloroform. [ABSTRACT FROM AUTHOR]

Fluid efflux from the brain plays an important role in solute waste clearance. Current experimental approaches provide little spatial information, and data collection is limited due to short duration or low frequency of sampling. One approach shows tracer efflux to be independent of molecular size, indicating bulk flow, yet also decelerating like simple membrane diffusion. In an apparent contradiction to this report, other studies point to tracer efflux acceleration. We here develop a one-dimensional advection-diffusion model to gain insight into brain efflux principles. The model is characterized by nine physiological constants and three efflux parameters for which we quantify prior uncertainty. Using Bayes' rule and the two efflux studies, we validate the model and calculate data-informed parameter distributions. The apparent contradictions in the efflux studies are resolved by brain surface boundaries being bottlenecks for efflux. To critically test the model, a custom MRI efflux assay measuring solute dispersion in tissue and release to cerebrospinal fluid was employed. The model passed the test with tissue bulk flow velocities in the range 60 to 190 μm/h. Dimensional analysis identified three principal determinants of efflux, highlighting brain surfaces as a restricting factor for metabolite solute clearance. [ABSTRACT FROM AUTHOR]

Diffusion within extracellular matrix is essential to deliver nutrients and larger metabolites to the avascular region of the meniscus. It is well known that both structure and composition of the meniscus vary across its regions; therefore, it is crucial to fully understand how the heterogenous meniscal architecture affects its diffusive properties. The objective of this study was to investigate the effect of meniscal region (core tissue, femoral, and tibial surface layers) and molecular weight on the diffusivity of several molecules in porcine meniscus. Tissue samples were harvested from the central area of porcine lateral menisci. Diffusivity of fluorescein (MW 332 Da) and three fluorescence-labeled dextrans (MW 3k, 40k, and 150k Da) was measured via fluorescence recovery after photobleaching. Diffusivity was affected by molecular size, decreasing as the Stokes' radius of the solute increased. There was no significant effect of meniscal region on diffusivity for fluorescein, 3k and 40k dextrans (p>0.05). However, region did significantly affect the diffusivity of 150k Dextran, with that in the tibial surface layer being larger than in the core region (p = 0.001). Our findings contribute novel knowledge concerning the transport properties of the meniscus fibrocartilage. This data can be used to advance the understanding of tissue pathophysiology and explore effective approaches for tissue restoration. [ABSTRACT FROM AUTHOR]

The nucleus preserves the genomic DNA of eukaryotic organisms and maintains the integrity of the cell by regulating the transport of molecules across the nuclear membrane. It is hitherto assumed that small molecules having a size below the passive permeability limit are allowed to diffuse freely to the nucleus while the transport of larger molecules is regulated via an active mechanism involving energy. Here we report on the kinetics of nuclear import and export of dextran molecules having a size below the passive permeability limit. The studies carried out using time-lapse confocal fluorescence microscopy show a clear deviation from the passive diffusion model. In particular, it is observed that the steady-state concentration of dextran molecules inside the nucleus is consistently less than the concentration outside, in contradiction to the predictions of the passive diffusion model. Detailed analysis and modeling of the transport show that the nuclear export rates significantly differ from the import rates, and the difference in rates is dependent on the size of the molecules. The nuclear export rates are further confirmed by an independent experimental study where we observe the diffusion of dextran molecules from the nucleus directly. Our experiments and transport model would suggest that the nucleus actively rejects exogenous macromolecules even below the passive permeability limit. This result can have a significant impact on biomedical research, especially in areas related to targeted drug delivery and gene therapy. [ABSTRACT FROM AUTHOR]

Background: Radionuclide molecular imaging can be used to visualize the expression levels of molecular targets. Affibody molecules, small and high affinity non-immunoglobulin scaffold-based proteins, have demonstrated promising properties as targeting vectors for radionuclide tumour imaging of different molecular targets. B7-H3 (CD276), an immune checkpoint protein belonging to the B7 family, is overexpressed in different types of human malignancies. Visualization of overexpression of B7-H3 in malignancies enables stratification of patients for personalized therapies. Affinity maturation of anti-B7-H3 Affibody molecules as an approach to improve the binding affinity and targeting properties was recently investigated. In this study, we tested the hypothesis that a dimeric format may be an alternative option to increase the apparent affinity of Affibody molecules to B7-H3 and accordingly improve imaging contrast. Results: Two dimeric variants of anti-B7-H3 Affibody molecules were produced (designated ZAC12*-ZAC12*-GGGC and ZAC12*-ZTaq_3-GGGC). Both variants were labelled with Tc-99m (99mTc) and demonstrated specific binding to B7-H3-expressing cells in vitro. [99mTc]Tc-ZAC12*-ZAC12*-GGGC showed subnanomolar affinity (KD1=0.28 ± 0.10 nM, weight = 68%), which was 7.6-fold higher than for [99mTc]Tc-ZAC12*-ZTaq_3-GGGC (KD=2.1 ± 0.9 nM). Head-to-head biodistribution of both dimeric variants of Affibody molecules compared with monomeric affinity matured SYNT-179 (all labelled with 99mTc) in mice bearing B7-H3-expressing SKOV-3 xenografts demonstrates that both dimers have lower tumour uptake and lower tumour-to-organ ratios compared to the SYNT-179 Affibody molecule. Conclusion: The improved functional affinity by dimerization does not compensate the disadvantage of increased molecular size for imaging purposes. [ABSTRACT FROM AUTHOR]