Investigation of RNA-Ligand Interactions by (19) F NMR Spectroscopy Using Fluorinated Probes

Spy swap: The interaction between an unlabeled RNA and unlabeled ligands (red hexagon) can be monitored by (19) F?NMR spectroscopy using small fluorinated diamines (green star) as spy reporters. This technique also enables the visualization of the conformational capture of a riboswitch by its ligand.     

On generalized Leibniz triangles and q-Gaussians

Generalized Leibniz triangles have been used in nonextensive statistical mechanics as theoretical models that yield q  -Gaussians (q<1$q<1$) as attractors. We study such triangles from a probability point of view. Our results show that one can get any distribution on [0,1]$[0,1]$ (or any distribution that has a compact support, after a linear transform) from such triangles, including q  -Gaussians with q<1$q<1$. Next we propose conceptual models that are triangular arrays of row-wise exchangeable random variables and yield q  -Gaussians for q<1$q<1$ and q?1$q?1$ as attractors, via laws of large numbers and central limit theorems, respectively.     

Adsorption of bromobenzene on periodically stepped and nonstepped NiO(100)

Periodically stepped NiO(100) surfaces were prepared and characterized with low-energy electron diffraction (LEED), Auger electron spectroscopy (AES), X-ray photoelectron spectroscopy (XPS), and temperature-programmed desorption (TPD). Two vicinal NiO(100) single-crystal samples were cut, oriented, and polished with regular, repeating monatomic steps in six-atom or seven-atom terrace widths. LEED diffraction patterns showed characteristic spot-splitting that corresponded to the appropriate terrace and step height. The nonstepped and stepped NiO(100) surfaces were exposed to bromobenzene at 130 K first to produce a molecularly adsorbed monolayer species and then, with increased exposure, a multilayer adsorbate. An additional adsorbate species, observed only on the stepped surfaces, was found to desorb at 145 K by two competing pathways. One pathway, which saturates at low coverages, leaves bromine behind on the substrate and results in dehalogenation. The other pathway yields molecular desorption at 145 K, but is only observed in detectable amounts after the dehalogenation pathway is saturated. On both stepped and nonstepped NiO(100) substrates, adsorbed bromine resulting from dehalogenation processes appears as nickel bromide, determined by the Br 3p XPS data.     

Laser-induced breakdown spectroscopy for polymer identification

This study aims at differentiating several organic materials, particularly polymers, by laser induced breakdown spectroscopy. The goal is to apply this technique to the fields of polymer recycling and cultural heritage conservation. We worked with some usual polymers families: polyethylene (PE), polypropylene (PP), polyoxymethylene, (POM), poly(vinyl chloride), polytetrafluoroethylene, polyoxyethylene (POE), and polyamide for the aliphatic ones, and poly(butylene terephthalate), acrylonitrile–butadiene–styrene, polystyrene, and polycarbonate for the aromatic ones. The fourth harmonic of a Nd:YAG laser (266 nm) in ambient air at atmospheric pressure was used. A careful analysis of the C₂ Swan system (0,0) band in polymers containing no C–C (POM), few C–C (POE), or aromatic C–C linkages led us to the conclusion that the C₂ signal might be native, i.e., the result of direct ablation from the sample. With use of these results, aliphatic and aromatic polymers could be differentiated. Further data treatments, such as properly chosen line ratios, principal component analysis, and partial least squares regression, were evaluated. It was shown that many polymers could be separated, including PE and PP, despite their similar chemical structures.     

Correlating anomalous diffusion with lipid bilayer membrane structure using single molecule tracking and atomic force microscopy

Anomalous diffusion has been observed abundantly in the plasma membrane of biological cells, but the underlying mechanisms are still unclear. In general, it has not been possible to directly image the obstacles to diffusion in membranes, which are thought to be skeleton bound proteins, protein aggregates, and lipid domains, so the dynamics of diffusing particles is used to deduce the obstacle characteristics. We present a supported lipid bilayer system in which we characterized the anomalous diffusion of lipid molecules using single molecule tracking, while at the same time imaging the obstacles to diffusion with atomic force microscopy. To explain our experimental results, we performed lattice Monte Carlo simulations of tracer diffusion in the presence of the experimentally determined obstacle configurations. We correlate the observed anomalous diffusion with obstacle area fraction, fractal dimension, and correlation length. To accurately measure an anomalous diffusion exponent, we derived an expression to account for the time-averaging inherent to all single molecule tracking experiments. We show that the length of the single molecule trajectories is critical to the determination of the anomalous diffusion exponent. We further discuss our results in the context of confinement models and the generating stochastic process.     

A diverted total synthesis of mycolactone analogues: an insight into Buruli ulcer toxins

Mycolactones are complex macrolides responsible for a severe necrotizing skin disease called Buruli ulcer. Deciphering their functional interactions is of fundamental importance for the understanding, and ultimately, the control of this devastating mycobacterial infection. We report herein a diverted total synthesis approach of mycolactones analogues and provide the first insights into their structure-activity relationship based on cytopathic assays on L929 fibroblasts. The lowest concentration inducing a cytopathic effect was determined for selected analogues, allowing a clear picture to emerge by comparison with the natural toxins.     

Synthesis of Polycyclic Ether-Benzopyrans and In Vitro Inhibitory Activity against Leishmania tarentolae

Construction of a focused library of polycyclic ether-benzopyrans was undertaken in order to discover new therapeutic compounds that affect Leishmania growth and infectivity. This is especially of interest since there are few drug therapies for leishmaniasis that do not have serious drawbacks such high cost, side effects, and emerging drug resistance. The construction of these polycyclic ether-benzopyrans utilized an acetoxypyranone-alkene [5+2] cycloaddition and the Suzuki-Miyaura cross-coupling. The multi-gram quantity of the requisite aryl bromide was obtained followed by effective Pd-catalyzed coupling with boronic acid derivatives. Compounds were tested in vitro using the parasitic protozoan, Leishmania tarentolae. Effects of concentration, time, and exposure to light were evaluated. In addition, the effects on secreted acid phosphatase activity and nitric oxide production were investigated, since both have been implicated in parasite infectivity. The data presented herein are indicative of disruption of the Leishmania tarentolae and thus provide impetus for the development and testing of a more extensive library.     

Fast field cycling NMR relaxometry studies of molten and cooled cocoa butter

ABSTRACT

Due to its relevance in the confectionery industry, cocoa butter (CB) has been extensively studied. However, most studies focus on its crystallisation properties, whilst studies of its liquid state are lacking. Here, and for the first time, a study of the self-diffusion of CB at different temperatures is presented, using fast field cycling (FFC) nuclear magnetic resonance (NMR) further validated using pulsed field gradient stimulated echo (PGSTE) NMR. Measurements were performed upon heating CB to either 50°C or 100°C and cooling it to 22°C. No hysteresis was found between the different thermal treatments. However, the activation energy (28.7 kJ/mol) estimated from the cooling protocol of the 100°C treatment, was the closest to that reported in the literature for similar systems. This suggests that measurements using a wider range of temperatures, and starting with a liquid material are advisable. Additionally, samples were measured during isothermal crystallisation at 22°C, showing that the region below 1 MHz is the most sensitive to phase changes.