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Bacterial microcompartments (BMC) are complex macromolecular assemblies that participate in varied chemical processes in about one fourth of bacterial species. BMC-encapsulated enzymatic activities are segregated from other cell contents by means of semipermeable shells, justifying why BMC are viewed as prototype nano-reactors for biotechnological applications. Herein, we undertook a comparative study of bending propensities of BMC hexamers (BMC-H), the most abundant shell constituents. Published data show that some BMC-H, like β-carboxysomal CcmK, tend to assemble flat whereas other BMC-H often build curved objects. Inspection of available crystal structures presenting BMC-H in tiled arrangements permitted us to identify two major assembly modes with a striking connection with experimental trends. All-atom molecular dynamics (MD) supported that BMC-H bending is triggered robustly only from the arrangement adopted in crystals by BMC-H that experimentally form curved objects, leading to very similar arrangements to those found in structures of recomposed BMC shells. Simulations on triplets of planar-behaving hexamers, which were previously reconfigured to comply with such organization, confirmed that bending propensity is mostly defined by the precise lateral positioning of hexamers, rather than by BMC-H identity. Finally, an interfacial lysine was pinpointed as the most decisive residue in controlling PduA spontaneous curvature. Globally, results presented herein should contribute to improve our understanding of the variable mechanisms of biogenesis characterized for BMC, and of possible strategies to regulate BMC size and shape. Author summary: Bacterial microcompartments are complex macromolecular ensembles that participate in varied metabolic processes in many microorganisms. They consist of a proteinaceous shell that encapsulates enzymatic cargo that mediate connected chemical reactions. Being confined within shells, the overall efficiency of the process is thought to augment, and reactions that imply toxic intermediates, which are lethal to the host in free-diffusing context, become feasible. These natural nano-reactors are therefore appealing for biotechnology purposes. Understanding how such complex objects form is essential. Experimental studies demonstrated the existence of two possible pathways. Thus, shell components grew onto a preformed core of organized cargo in cyanobacterial carboxysomes, whereas in Pdu compartments, both cargo and shell formation seemed to occur randomly. With the aim to contribute to the understanding of the different biogenesis pathways, here we investigated the trend of the most abundant protein constituents of bacterial micro-compartment shells to form curved structures. We first discovered the occurrence of two major assembly modes in deposited BMC-H crystal structures that clustered proteins in two groups that correlate well to their experimental propensities to form bent or flat structures. Subsequently, molecular dynamic simulations supported that only one of the modes is ready to curve. Moreover, simulations on protein mutants pinpointed a residue that seems to be pivotal in triggering bending. Globally, our data permit to draw a scenario that explains BMC biogenesis differences as a result of the capture of some BMC-H, such as CcmK of carboxysomes, in local minima corresponding to flat states that would delay closure of BMC shells, something that might require the intervention of other molecular effectors. [ABSTRACT FROM AUTHOR]

We investigate the possibility of tailoring the electronic properties of isoreticular metal-organic materials by replacing the metal atom in the metal-organic cluster and by doping. The electronic structure of M-IRMOF1, where IRMOF1 stands for isoreticular metal-organic framework 1 and M=Be, Mg, Ca, Zn, and Cd, was examined using density-functional theory. The results show that these materials have similar band gaps (ca. 3.5 eV) and a conduction band that is split into two bands, the lower of which has a width that varies with metal substitution. This variation prompted us to investigate whether doping with Al or Li could be used to tailor the electronic properties of the Zn-IRMOF1 and Be-IRMOF1 materials. It is shown that replacing one metal atom with Al can effectively be used to create IRMOFs with different metallic properties. On the other hand, adding Li produces structural changes that render this approach less suitable. [ABSTRACT FROM AUTHOR]

The self-assembly properties of N(9)-(2,3-dihydroxypropyl adenine) (DHPA), a plausible prebiotic nucleoside analogue of adenosine, were investigated using density functional theory. Two different isomers were considered, and it is found that while both isomers can form a variety of structures, including chains, one of them is also able to form cages and helixes. When these results were put in the context of substrate supported molecular self-assembly, it is concluded that gas-phase self-assembly studies that consider isomer identity and composition not only can aid interpreting the experimental results, but also reveal structures that might be overlooked otherwise. In particular, this study suggest that a double-helical structure made of DHPA molecules which could have implications in prebiotic chemistry and nanotechnology, is stable even at room temperature. For example electrical properties (energy gap of 4.52eV) and a giant permanent electrical dipole moment (49.22 Debye) were found in our larger double-helical structure (3.7 nm) formed by 14 DHPA molecules. The former properties could be convenient for construction of organic dielectric-based devices. [ABSTRACT FROM AUTHOR]

Despite extensive investigation using hydrodynamic models and experiments over the past decades, there remain open questions regarding the origin of the initial rupture of thin liquid films. One of the reasons that makes it difficult to identify the rupture origin is the coexistence of two dewetting mechanisms, namely, thermal nucleation and spinodal instability, as observed in many experimental studies. Using a coarse-grained model and large-scale molecular dynamics simulations, we are able to characterize the very early stage of dewetting in nanometer-thick liquid-metal films wetting a solid substrate. We observe the features characteristic of both spinodal instability and thermal nucleation in the spontaneously dewetting films and show that these two macroscopic mechanisms share a common origin at molecular levels. [ABSTRACT FROM AUTHOR]

Thin-film dewetting can be exploited to self-assemble and organize nanoparticles. Crucial to this effort is the understanding of the nanoscale liquid phase dynamics, and molecular dynamics simulations (MD) provide a powerful tool in this respect. In this paper we demonstrate that MD simulations utilizing a Lennard-Jones (LJ) interface potential can be effectively used to study various wetting regimes of nanoscale Cu disks on graphite. It was found that both the dewetting velocity and the equilibrium contact angle increase with a decrease in the Cu-C potential, and that the retraction velocities obtained are characteristic of dewetting phenomena governed by inertial and capillary forces. This phenomena leads to a change in morphology, from disks to nanodroplets, which, in turn, when using the most accurate LJ potential, jump off the graphitic substrate with a velocity on the order of 140 m/s. This ejection velocity is consistent with the previous experimental observation that nanoscale Au triangles deposited on graphite or glass jump when exposed to a pulsed laser above the melting threshold. Interestingly, the Cu ejection velocity decreases when the liquid Cu disks are deposited on a suspended graphene membrane. Finally, a Rayleigh-Plateau-like instability, which leads to the breakup of a pseudo-one-dimensional liquid Cu nanowire in nanodroplets, is revealed when the MD simulations are performed using different LJ interface potentials. [ABSTRACT FROM AUTHOR]

Size-expanded DNA bases are analogues of natural bases that can be described as a synthesis between benzene and a natural base. Size-expanded bases have been combined with natural bases to form xDNA and yDNA, a new class of synthetic nucleic acids. We are interested in xDNA and yDNA because they might function as molecular wires. Recently, we also became intrigued by the possibility of altering the electronic conductivity of xDNA and yDNA by means of structural changes in the constituent bases. This possibility appeared after we noticed that the highest occupied molecular orbital–lowest unoccupied molecular orbital (HOMO–LUMO) gap of the base yG can be increased dramatically, ∼0.73 eV, by changing the aromaticity of its benzene ring. Therefore, if one is able to alter the HOMO–LUMO gap of size-expanded bases, it should be possible to change the electronic conductivity of xDNAs and yDNAs as well. In the present work, we extend our study on aromaticity-induced changes on the electronic properties of size-expanded bases by investigating the HOMO–LUMO gap of all possible tautomers of xC. We have found that, as for yG, the HOMO–LUMO gap of xC can be modified by ∼ 0.74 eV, and that this can be accomplished by changing the aromaticity of its benzene ring. © 2006 Wiley Periodicals, Inc. Int J Quantum Chem, 2006 [ABSTRACT FROM AUTHOR]

Self-assembly is a spontaneous process through which macroscopic structures are formed from basic microscopic constituents (e.g., molecules or colloids). By contrast, the formation of large biological molecules inside the cell (such as proteins or nucleic acids) is a process more akin to self-organization than to self-assembly, as it requires a constant supply of external energy. Recent studies have tried to merge self-assembly with self-organization by analyzing the assembly of self-propelled (or active) colloid-like particles whose motion is driven by a permanent source of energy. Here we present evidence that points to the fact that self-propulsion considerably enhances the assembly of polymers: self-propelled molecules are found to assemble faster into polymer-like structures than non self-propelled ones. The average polymer length increases towards a maximum as the self-propulsion force increases. Beyond this maximum, the average polymer length decreases due to the competition between bonding energy and disruptive forces that result from collisions. The assembly of active molecules might have promoted the formation of large pre-biotic polymers that could be the precursors of the informational polymers we observe nowadays. [ABSTRACT FROM AUTHOR]

Molecular dynamics simulations of the DNA duplex d(CCAACGTTGG)2 were used to study the relationship between DNA sequence and structure in a crystal environment. Three different force fields were used: a traditional description based on atomic point charges, a polarizable force field, and an “extra-point” force field (with additional charges on extranuclear sites). It is found that all the force fields reproduce fairly well the sequence-dependent features of the experimental structure. The polarizable force field, however, provides the most accurate representation of the crystal structure and the sequence-dependent effects observed in the experiment. These results point out to the need of the inclusion of polarization for accurate descriptions of DNA. © 2004 American Institute of Physics. [ABSTRACT FROM AUTHOR]

Microbial communities have vital roles in systems essential to human health and agriculture, such as gut and soil microbiomes, and there is growing interest in engineering designer consortia for applications in biotechnology (e.g., personalized probiotics, bioproduction of high-value products, biosensing). The capacity to monitor and model metabolite exchange in dynamic microbial consortia can provide foundational information important to understand the community level behaviors that emerge, a requirement for building novel consortia. Where experimental approaches for monitoring metabolic exchange are technologically challenging, computational tools can enable greater access to the fate of both chemicals and microbes within a consortium. In this study, we developed an in-silico model of a synthetic microbial consortia of sucrose-secreting Synechococcus elongatus PCC 7942 and Escherichia coli W. Our model was built on the NUFEB framework for Individual-based Modeling (IbM) and optimized for biological accuracy using experimental data. We showed that the relative level of sucrose secretion regulates not only the steady-state support for heterotrophic biomass, but also the temporal dynamics of consortia growth. In order to determine the importance of spatial organization within the consortium, we fit a regression model to spatial data and used it to accurately predict colony fitness. We found that some of the critical parameters for fitness prediction were inter-colony distance, initial biomass, induction level, and distance from the center of the simulation volume. We anticipate that the synergy between experimental and computational approaches will improve our ability to design consortia with novel function. Author summary: Microbial communities, play important, yet poorly understood roles in health and agriculture. As we develop a better understanding of how these communities interact together, as well as with their host organisms, there is growing interest in engineering communities with specific functions, such as for treating disease, personalized probiotics, or aiding plants with nutrient uptake. To better understand how these microbes interact with each other, we want to monitor the exchange of metabolites and the locations of the microbes, tasks which at present are technically challenging, if not impossible. Where experimental approaches for monitoring metabolites are limited, computational tools can enable greater access to the fate of both chemicals and microbes within a community. In this study, we developed a computerized model of a synthetic microbial community of two bacteria, one which performs photosynthesis and supplies sugar and another which consumes the sugar for growth. We showed that the relative level of sugar secretion regulates not only the steady-state support for the consumer partner's growth, but also how the community changes with time. To determine the importance of spatial organization within the community, we fit a model and used it to predict colony growth. We anticipate that the synergy between experimental and computational approaches will improve our ability to design microbial communities with new functions. [ABSTRACT FROM AUTHOR]

Serine has two enantiomers, D and L, which exhibit identical physical and chemical properties but have dramatically different physiological effects. For the pharmaceutical industry, it is very important to be able to separate both enantiomers. Here we study the enantioselectivity of the (531) surfaces of Cu, Ag, Au, and Pd using density functional theory with an accurate treatment of the van der Waals interactions. Among these surfaces, it is found that Cu(531) is the most efficient for energetically separating serine enantiomers. This greater efficiency is ultimately related to a conformational strain imposed in serine and most of all in the supporting substrate. Motivated by this, we decorated the step sites of Cu(531) with Ni atoms and showed that serine enantioselectivity increases by 36% as compared to that of pristine Cu(531). These results suggest that efficient enantiomeric separation of small chiral molecules could be achieved with bimetallic stepped surfaces for which strain, both in the surface and the molecule, increases significantly upon deposition. [ABSTRACT FROM AUTHOR]

Using density functional theory with an accurate treatment of van der Waals interactions, we investigate the enantioselective recognition and separation of chiral molecules on stepped metal surfaces. Our calculations demonstrate that the separation ability of metal substrates can be significantly enhanced by surface decoration and external strain. For example, applying 2% tensile strain to the Ag-alloyed Au(532) surface leads to a dramatic increase (by 89%) in cysteine enantioselectivity as compared to that of pristine Au(532). Analysis on the computed binding energies shows that the interaction energy is the predominant factor that affects the separation efficiency in strongly bound systems. Our study presents a new strategy to modify the enantioselectivity of stepped metal surfaces and paves the way for exploring high efficiency chiral separation technology in pharmaceutical industry. [ABSTRACT FROM AUTHOR]

Bacterial microcompartments (BMCs) encapsulate enzymes within a selectively permeable, proteinaceous shell. Carboxysomes are BMCs containing ribulose-1,5-bisphosphate carboxylase oxygenase and carbonic anhydrase that enhance carbon dioxide fixation. The carboxysome shell consists of three structurally characterized protein types, each named after the oligomer they form: BMC-H (hexamer), BMC-P (pentamer), and BMC-T (trimer). These three protein types form cyclic homooligomers with pores at the center of symmetry that enable metabolite transport across the shell. Carboxysome shells contain multiple BMC-H paralogs, each with distinctly conserved residues surrounding the pore, which are assumed to be associated with specific metabolites. We studied the regulation of ß-carboxysome shell composition by investigating the BMC-H genes ccmK3 and ccmK4 situated in a locus remote from other carboxysome genes. We made single and double deletion mutants of ccmK3 and ccmK4 in Synechococcus elongatus PCC7942 and show that, unlike CcmK3, CcmK4 is necessary for optimal growth. In contrast to other CcmK proteins, CcmK3 does not form homohexamers; instead CcmK3 forms heterohexamers with CcmK4 with a 1:2 stoichiometry. The CcmK3-CcmK4 heterohexamers form stacked dodecamers in a pH-dependent manner. Our results indicate that CcmK3-CcmK4 heterohexamers potentially expand the range of permeability properties of metabolite channels in carboxysome shells. Moreover, the observed facultative formation of dodecamers in solution suggests that carboxysome shell permeability may be dynamically attenuated by "capping" facet-embedded hexamers with a second hexamer. Because ß-carboxysomes are obligately expressed, heterohexamer formation and capping could provide a rapid and reversible means to alter metabolite flux across the shell in response to environmental/growth conditions. [ABSTRACT FROM AUTHOR]

Watersuspended on chilled superhydrophobic surfaces exhibits delayedfreezing; however, the interdrop growth of frost through subcooledcondensate forming on the surface seems unavoidable in humid environments.It is therefore of great practical importance to determine whetherfacile defrosting is possible on superhydrophobic surfaces. Here,we report that nanostructured superhydrophobic surfaces promote thegrowth of frost in a suspended Cassie state, enabling its dynamicremoval upon partial melting at low tilt angles (<15°). Thedynamic removal of the melting frost occurred in two stages: spontaneousdewetting followed by gravitational mobilization. This dynamic defrostingphenomenon is drivenby the low contact angle hysteresis of the defrosted meltwater relativeto frost on microstructured superhydrophobic surfaces, which formsin the impaled Wenzel state. Dynamic defrosting on nanostructuredsuperhydrophobic surfaces minimizes the time, heat, and gravitationalenergy required to remove frost from the surface, and is of interestfor a variety of systems in cold and humid environments. [ABSTRACT FROM AUTHOR]

We demonstrate a controllable surface-coordinated linear polymerization of long-chain poly(phenylacetylenyl)s that are self-organized into a "circuit-board" pattern on a Cu(100) surface. Scanning tunneling microscopy/spectroscopy (STM/S) corroborated by ab initio calculations, reveals the atomistic details of the molecular structure, and provides a clear signature of electronic and vibrational properties of the poly(phenylacetylene)s chains. Notably, the polymerization reaction is confined epitaxially to the copper lattice, despite a large strain along the polymerized chain that subsequently renders it metallic. Polymerization and depolymerization reactions can be controlled locally at the nanoscale by using a charged metal tip. This control demonstrates the possibility of precisely accessing and controlling conjugated chain-growth polymerization at low temperature. This finding may lead to the bottom-up design and realization of sophisticated architectures for molecular nano-devices. [ABSTRACT FROM AUTHOR]

The influence of different sorption sites of isoreticular metal-organic frameworks (IRMOFs) on interactions with explosive molecules is investigated. Different connector effects are taken into account by choosing IRMOF-1(Be) (IRMOF-1 with Zn replaced by Be), and two high explosive molecules: 1,3,5-trinitro-s-triazine (RDX) and triacetone triperoxide (TATP). The key interaction features (structural, electronic and energetic) of selected contaminants were analyzed by means of density functional calculations. The interaction of RDX and TATP with different IRMOF-1(Be) fragments is studied. The results show that physisorption is favored and occurs due to hydrogen bonding, which involves the C-H groups of both molecules and the carbonyl oxygen atoms of IRMOF-1(Be). Additional stabilization of RDX and TATP arises from weak electrostatic interactions. Interaction with IRMOF-1(Be) fragments leads to polarization of the target molecules. Of the molecular configurations we have studied, the Be-O-C cluster connected with six benzene linkers (1,4-benzenedicarboxylate, BDC), possesses the highest binding energy for the studied explosives (-16.4 kcal mol for RDX and -12.9 kcal mol for TATP). The main difference was discovered to be in the preferable adsorption site for adsorbates (RDX above the small and TATP placed above the big cage). Based on these results, IRMOF-1 can be suggested as an effective material for storage and also for separation of similar explosives. Hydration destabilizes most of the studied adsorption systems by 1-3 kcal mol but it leads to the same trend in the binding strength as found for the non-hydrated complexes. [Figure not available: see fulltext.] [ABSTRACT FROM AUTHOR]

Synthesis of nucleobases in nonaqueous environments is an alternative way for the emergence of terrestrial life, which could solve the fundamental problem connected to the hydrolytic instability of nucleic acid components in an aqueous environment. In this contribution, we present a plausible reaction route for the prebiotic synthesis of nucleobases in formamide, which does not require participation of the formamide trimer and aminoimidazole-carbonitrile intermediates. The computed activation energy of the proposed pathway is noticeably higher than that of the HCN-based synthetic route, but it is still feasible under the experimental conditions of the Saladino synthesis. We show that, albeit both the pyrimidine and purine ring formation utilizes the undissociated form of formamide, the dehydration product of formamide, HCN, may also play a key role in the mechanism. The rate-determining step of the entire reaction path is the cyclization of the diaza-pentanimine precursor. The subsequent formation of the imidazole ring proceeds with a moderate activation energy. Our calculations thus demonstrate that the experimentally suggested reaction path without the involvement of aminoimidazole-carbonitrile intermediates is also a viable alternative for the nonaqueous synthesis of nucleobases. [ABSTRACT FROM AUTHOR]

Among the distinct strategies proposed to expand the genetic alphabet, size-expanded nucleobases are promising for the development of modified DNA duplexes with improved biotechnological properties. In particular, duplexes built up by replacing canonical bases with the corresponding benzo-fused counterparts could be valuable as molecular nanowires. In this context, this study reports the results of classical molecular dynamics simulations carried out to examine the structural and dynamical features of size-expanded DNAs, including both hybrid duplexes containing mixed pairs of natural and benzo-fused bases (xDNA) and pure size-expanded (xxDNA) duplexes. Furthermore, the electronic structure of both natural and size-expanded duplexes is examined by means of density functional computations. The results confirm that the structural and flexibility properties of the canonical DNA are globally little affected by the presence of benzo-fused bases. The most relevant differences are found in the enhanced size of the grooves, and the reduction in the twist. However, the analysis also reveals subtle structural effects related to the nature and sequence of benzo-fused bases in the duplex. On the other hand, electronic structure calculations performed for xxDNAs confirm the reduction in the HOMO--LUMO gap predicted from the analysis of the natural bases and their size-expanded counterparts, which suggests that pure size-expanded DNAs can be good conductors. A more complex situation is found for xDNAs, where fluctuations in the electrostatic interaction between base pairs exerts a decisive influence on the modulation of the energy gap. [ABSTRACT FROM AUTHOR]

Abstract: Classical molecular dynamics (MD) and Grand Canonical Monte Carlo (GCMC) simulations were used to generate self-diffusivities, adsorption isotherms and density distributions for hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) in five isoreticular metal-organic frameworks (IRMOFs), which varied in the cage size and in the presence and location of amine groups. These simulations were performed at room temperature (300K) and low pressures (up to 1ppm RDX). The atomic charges required for MD and GCMC simulations were calculated from quantum mechanical (QM) calculations using two different charge generation methods—Löwdin Population Analysis and Natural Bond Orbital Analysis. Both charge sets show that the presence of amine groups increases the amount of RDX adsorbed. The cage size and the location of amine groups also affect the loading of RDX. The amount of RDX adsorbed is correlated with the energy of adsorption. The activation energy for diffusion of RDX is not positively correlated with the energy of adsorption. The density distributions identify the location of the adsorption sites of RDX-exclusively in the big cage around the metal complex vertices and between benzene rings. In the absence of amine groups on the framework, one of nitro groups on RDX interacts closely with the metal complex. In the IRMOFs functionalized with amine groups, a second nitro group of the RDX interacts with an amine group, enhancing adsorption. With regard to the application as a smart nanoporous preconcentrator, these IRMOFs are found to concentrate RDX up to 3000 times compared to the gas phase, on a volumetric basis. From a simple Langmuir estimation, the selectivity of RDX over butane is up to 5000. The diffusion of RDX is sufficiently high for real time sensor applications. These results indicate IRMOFs can be tailored with functional groups to be highly selective nanoporous preconcentrators. [Copyright &y& Elsevier]

In order to test the feasibility of using metal-organic frameworks (MOFs) to pre-concentrate explosive molecules for detection, molecular simulations of hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX) within IRMOF-1 were performed. Grand canonical Monte Carlo (GCMC) simulations were used to generate adsorption isotherms for pure RDX, RDX in dry air, and RDX in wet air. In addition to the isotherms, the GCMC simulations provide adsorption energies and density distributions of the adsorbates within the MOF. Molecular dynamics simulations calculate diffusivities and provide a detailed understanding of the change in conformation of the RDX molecule upon adsorption. The presence of dry air has little influence on the amount of RDX that adsorbs. The presence of wet air increases the amount of RDX that adsorbs due to favourable interactions between RDX and water. We found a Henry's law constant of 21.2 mol/kg/bar for both pure RDX and RDX in dry air. The RDX adsorption sites are located (i) in big cages, (ii) near a vertex, and (iii) between benzene rings. The energy of adsorption of RDX at infinite dilution was found to be - 9.2 kcal/mol. The distributions of bond lengths, bond angles and torsion angles in RDX are uniformly slightly broader in the gas phase than in the adsorbed phase, but not markedly so. The self-diffusivity of RDX in IRMOF-1 is a strong function of temperature, with an activation energy of 6.0 kcal/mol. [ABSTRACT FROM AUTHOR]

The behavior of a 50 nm Cu-Ni alloy film on Si in a process of reactive solid-state dewetting is presented. The films were annealed at a range of temperatures (300-700 °C) in 1% H2 99% N2 reducing atmosphere. The resulting alloy and silicide particles formed by film dewetting and film reaction with the substrate were distinguished by selective wet etching and examined by scanning electron microscopy and spectroscopy. After potassium hydroxide etch, regions that etch slower than silicon substrate have distribution statistics similar to the alloy and silicide particles prior to their removal, indicating strong coupling between mass transport across the interface and along the surface. [ABSTRACT FROM AUTHOR]

Classical molecular dynamics (MD) simulations were used to investigate how free surfaces, as well as supporting substrates, affect phase separation in a NiAg alloy. Bulk samples, droplets, and droplets deposited on a graphene substrate were investigated at temperatures that spanned regions of interest in the bulk NiAg phase diagram, i.e., miscible and immiscible liquid, liquid-crystal, and crystal-crystal regions. Using MD simulations to cool down a bulk sample from 3000 K to 800 K, it was found that phase separation below 2400 K takes place in agreement with the phase diagram. When free surface effects were introduced, phase separation was accompanied by a core-shell transformation: spherical droplets created from the bulk samples became core-shell nanoparticles with a shell made mostly of Ag atoms and a core made of Ni atoms. When such droplets were deposited on a graphene substrate, the phase separation was accompanied by Ni layering at the graphene interface and Ag at the vacuum interface. Thus, it should be possible to create NiAg core-shell and layer-like nanostructures by quenching liquid NiAg samples on tailored substrates. Furthermore, interesting bimetallic nanoparticle morphologies might be tuned via control of the surface and interface energies and chemical instabilities of the system. [ABSTRACT FROM AUTHOR]

A theoretical and experimental characterization of N(1)‐(2′,3′‐dihydroxypropil)thymine (DHPT), a potential prebiotic nucleoside analogue of 5‐methyluridine, is performed. A proposed methodology based on a solvation method was used to study conformational transformations of the different low‐energy conformers of DHPT according to time‐dependent IR spectroscopy. NMR and CD spectroscopy provides additional evidence of these transformations. The conformational transformations appear to be due to solvent and DHPT interactions. This highlights the importance of experimental conditions on conformer ratio equilibrium, in particular, the interpretation of experimental conditions used for determining the stereoisomers' absolute configuration. Nucleoside analogues are molecules that differ from the canonical ones in that they are comprised of a noncanonical DNA base, sugar, or both. Interactions between nucleoside analogues and solvent molecules are proposed as the main responsible for their conformational transformations, which were studied both experimentally and computationally. The evidence of these transformations is provided by time‐dependent infrared spectra and made apparent by the variation of intensity related to a specific stereoisomer. [ABSTRACT FROM AUTHOR]

In an effort to enhance our knowledge on how to control the movement of metallic nanodroplets, here we have used classical molecular dynamics simulations to investigate whether Cu nanostructures deposited on nanopillared substrates can be made to jump at desired angles. We find that such control is possible, especially for Cu nanostructures that are symmetric; for asymmetric nanostructures, however, control is more uncertain. The work presented here borrows ideas from two seemingly different fields, metallic droplets and water droplets in the dynamic Leidenfrost regime. Despite the differences in the respective systems, we find common ground in their behavior on nanostructured surfaces. Due to this, we suggest that the ongoing research in Leidenfrost droplets is a fertile area for scientists working on metallic nanodroplets. [ABSTRACT FROM AUTHOR]