Probing the nature of three-centered hydrogen bonds in minor-groove ligand-DNA interactions: the contribution of fluorine hydrogen bonds to complex stability

Double-stranded DNA sequences have been prepared in which single atoms (the O2-carbonyls of selected thymines) have been replaced by fluorine or methyl. To maintain normal Watson-Crick hydrogen bonding with the complementary purines, these analogue derivatives have been prepared as C-nucleosides. The O2-carbonyls of interest for this study are those involved in a bifurcated (or three-centered) hydrogen bond with the minor groove binding ligand 4',6-diamidino-2-phenylindole (DAPI). TM studies of the duplexes illustrate that the DNA duplexes are destabilized when fluorine or methyl replaces one or both of the minor groove O2-carbonyls, which can in part be explained by changes in minor groove hydration. In the presence of DAPI, most of the duplexes exhibit an increased TM due to the presence of DAPI bound in the minor groove. The extent of helix overstabilization negatively correlates with the presence of one or both methyl groups in the minor groove, suggesting that ligand binding is weakened in the presence of the non-carbonyl functional groups. The presence of single fluorine appears to promote helix stabilization, and native-like stabilization occurs when both fluorines are present. KD values quantitate binding effects between DAPI and the native and analogue sequences. Sequences with one or both methyl groups exhibit very poor binding with DAPI, while those containing a single fluorine behave essentially like native carbonyl-containing sequences. With both fluorines present, KD values were observed to increase by a moderate 3-fold at 100 mM NaCl and somewhat more at 200 mM NaCl. Binding affinities with both methyl groups present were 500-1000-fold weaker than native. The results suggest that organofluorines can function as hydrogen-bond acceptors, at least in the bifurcated interaction that contributes to minor groove binding by DAPI.     

Thin film platinum cuff electrodes for neurostimulation: in vitro approach of safe neurostimulation parameters

Thin film technology takes more and more importance in the development of biomedical devices dedicated to functional neurostimulation. Our research about the design of implant neurostimulating electrode is oriented toward thin film cuff electrodes based on a polyimide substrate covered by a chromium/gold/Pt film. The chromium/gold sputtered film serves as adhesion layer and current collector whereas platinum acts as an electrochemical actuator. The electrode surface has been designed to obey safe stimulation criteria (i.e. chemically inert noble metal, low electrode-electrolyte impedance, high electrochemical reversibility, high corrosion stability). The electrochemical behaviour of such platinum electrodes has been assessed and compared to a foil of platinum. Extensive in vitro characterisations of the both electrode types were carried out using AFM, SEM and electrochemical techniques. The role of enhanced surface roughness enabling high double layer capacitances to be achieved was clearly highlighted. The obtained results are discussed, with particular reference to thin film electrodes stability under in vitro electrical stimulation in NaCl 0.9% (physiological serum). Therefore, these thin film devices showed reversible PtOH formation and decomposition making them potentially attractive for the fabrication of implant stimulation cuff electrodes.     

Design and synthesis of DNA-tethered ruthenium complexes that self-assemble into linear arrays

Ruthenium(II) bis(terpyridine) complexes have been prepared with two triethylene glycol linkers to which DNA sequences have been attached; hybridization at various complex ratios results in linear arrays of varying lengths.     

Mild and practical method for the alpha-arylation of nitriles with heteroaryl halides

[reaction: see text] A mild and transition-metal-free method for the alpha-arylation of aliphatic nitriles with activated heteroaryl halides was developed using NaHMDS or KHMDS as base at ambient temperature. The key to the success of this method is generation of the nitrile anion in the presence of the heteroaryl halide. The method is applicable to both primary and secondary carbonitriles and a wide range of heteroaryl halides. Selective monoarylation was observed with primary carbonitriles. The operational simplicity and the mild reaction conditions add to the value of this method as a practical alternative to the preparation of alpha-heteroaryl carbonitriles.     

Carbon nanostructures grown with electron and ion beam methods

We present a comparative study where carbon nanostructures were prepared by electron and ion beam methods. Thin films of 10×10 μm² area were prepared and analysed by Raman analysis, nanoindentation, energy dispersive X-ray analysis (EDX) and atomic force microscopy (AFM). The material formed is not soft and graphitic, but of intermediate hardness (6–13 GPa) and with Raman spectral features similar to those of hydrogenated amorphous carbon, although it contains a significant Ga content (up to 25 at. %). This study was used to form sharp AFM supertip structures which were used to image sintered ceramic samples and films of aligned carbon nanotubes. Compared to traditional Si tips, this gave an improved rendering of the sample’s aspect ratio although the resolution is limited by the diameter of the C supertips. PACS 81.05.Uw; 81.07.-b; 78.30.-j     

Rational Functions with a General Distribution of Poles on the Real Line Orthogonal with Respect to Varying Exponential Weights: I

Orthogonal rational functions are characterized in terms of a family of matrix Riemann–Hilbert problems on ?, and a related family of energy minimisation problems is presented. Existence, uniqueness, and regularity properties of the equilibrium measures which solve the energy minimisation problems are established. These measures are used to derive a family of ‘model’ matrix Riemann–Hilbert problems which are amenable to asymptotic analysis via the Deift–Zhou non-linear steepest-descent method.     

Tunable atomic line molecular (TALM) spectrometer

A highly specific technique for real time monitoring of simple and complex molecules is described. This technique depends on using the Zeeman effect to tune an atomic emission line to coincide with a sharp molecular absorption feature and has been named TALMS (Tunable Atomic Line Molecular Spectroscopy). Results are presented on the determination of di-atomic (NO), tri-atomic (NO₂, SO₂), tetra-atomic (H₂CO) and more complex molecules. An explanation is offered for the ability of this technique to determine complex molecules, which suggests that the method should be highly specific. It is concluded that work in this area will lead to instrumentation that will be valuable for process control or environmental monitoring.     

Frequency-coded quantum key distribution

We report an intrinsically stable quantum key distribution scheme based on genuine frequency-coded quantum states. The qubits are efficiently processed without fiber interferometers by fully exploiting the nonlinear interaction occurring in electro-optic phase modulators. The system requires only integrated off-the-shelf devices and could be used with a true single-photon source. Preliminary experiments have been performed with weak laser pulses and have demonstrated the feasibility of this new setup.     

Experiments on the motion of drops on a horizontal solid surface due to a wettability gradient

Results from experiments performed on the motion of drops of tetraethylene glycol in a wettability gradient present on a silicon surface are reported and compared with predictions from a recently developed theoretical model. The gradient in wettability was formed by exposing strips cut from a silicon wafer to dodecyltrichlorosilane vapors. Video images of the drops captured during the experiments were subsequently analyzed for drop size and velocity as functions of position along the gradient. In separate experiments on the same strips, the static contact angle formed by small drops was measured and used to obtain the local wettability gradient to which a drop is subjected. The velocity of the drops was found to be a strong function of position along the gradient. A quasi-steady theoretical model that balances the local hydrodynamic resistance with the local driving force generally describes the observations; possible reasons for the remaining discrepancies are discussed. It is shown that a model in which the driving force is reduced to accommodate the hysteresis effect inferred from the data is able to remove most of the discrepancy between the observed and predicted velocities.