Ultrafast dynamics in DNA: "fraying" at the end of the helix

The dynamics of the electric fields in the interior of DNA are measured by using oligonucleotides in which a native base pair is replaced by a dye molecule (coumarin 102) whose emission spectrum is sensitive to the local electric field. Time-resolved measurements of the emission spectrum have been extended to a six decade time range (40 fs to 40 ns) by combining results from time-correlated photon counting, fluorescence up-conversion, and transient absorption. Recent results showed that when the reporter is placed in the center of the oligonucleotide, the dynamics are very broadly distributed over this entire time range and do not show specific time constants associated with individual processes (Andreatta, D.; et al. J. Am. Chem. Soc. 2005, 127, 7270). This paper examines an oligonucleotide with the reporter near its end. The broadly distributed relaxation seen before remains with little attenuation. In addition, a new relaxation with a well-defined relaxation time of 5 ps appears. This process is assigned to the rapid component of "fraying" at the end of the helix.     

Self-organized ureido substituted diacetylenic organogel. Photopolymerization of one-dimensional supramolecular assemblies to give conjugated nanofibers

The introduction of the urea function as structure directing agent of diacetylene organogels (DA-OGs) has been achieved. Despite the urea function being one of the most frequently used structure directing agents for the formation of organogels, it has never been exploited in the fabrication and photopolymerization of DA-OGs. The self-association of ureas involving two hydrogen bonds is much stronger than that of urethanes or amides, and the resulting supramolecular assemblies are completely insoluble. In this context, 1,1'-(hexa-2,4-diyne-1,6-diyl)bis(3-(10-(triethoxysilyl)decyl)urea) 2 was synthesized. Compound 2 was soluble owing to the triethoxysilane function that we recently used in the fabrication of a silylated bis-urea-stilbene organogel. It formed an organogel, and its photopolymerization was studied in cyclohexane. The loss of the gel state and the formation of a red solution resulting from the polymerization were found to be the result of the constraints introduced by the urea function in close vicinity to the polymerizable function. To obtain an ureido substituted diacetylenic organogelator affording a blue highly conjugated polydiacetylene (PDA) without a sol-gel transition, a propylene spacer was introduced to move the urea function away from the polymerizable function (derivative 3). The thermochromism exhibited by the latter in the solid state was studied. Using the same setup and the same sample, UV-vis and FTIR spectra were simultaneously recorded as a function of the temperature to highlight a relation between color changes and urea association mode changes. The data showed that the reversible thermochromic transition must be associated with a reversible supramolecular modification and, conversely, that irreversible chromic transitions are the result of irreversible structural modifications. The chromic effects of the acidic hydrolysis-polycondensation of the trialkoxysilyl groups to form a siloxane network were studied on a thin film of 3. In the same way, solvent effects on the color of the organogels of 3 were also investigated. Correlations could be established between the different stimuli. These results provide a deeper understanding of the precise molecular mechanism of the blue to red transition and of the reversibility of the purple to red transition generally encountered in PDA thermochromism.     

Kinase-catalyzed modification of gold nanoparticles: a new approach to colorimetric kinase activity screening

Peptide-stabilized gold nanoparticles have been enzymatically biotinylated by a kinase-catalyzed reaction using biotin-ATP as a cosubstrate. Upon mixing with avidin-modified particles, solutions of biotinylated particles change color from red to blue, indicating aggregation of particles. On the basis of this reaction, we have developed a simple colorimetric test to monitor kinase inhibitor activity.     

Asymmetric total synthesis of (-)-panacene and correction of its relative configuration

[reaction: see text] The first synthesis of (-)-panacene has been accomplished in concise, highly stereoselective fashion from commercially available 2-methoxy-6-methylbenzoic acid (15 steps, 8.3% overall yield). The synthesis unambiguously establishes the correct relative and absolute configuration of panacene, and demonstrates the serviceability of Pd(II)-mediated tandem intramolecular alkoxycarbonylation-lactonization for the expedient assembly of its tricyclic core, and the dual role of asymmetric alkynylation as an initial source of chirality and as a powerful tool for manipulating diastereoselectivity.     

Photodimerizable ditopic ligand

[reaction: see text] The synthesis, photophysical properties, and structural characterization of a photodimerizable ditopic ligand are described. Upon irradiation at 366 nm, ligand 1 dimerizes to the head-to-tail tetra-bpy ligand 2. This thermally stable photodimer can be dissociated back to 1 using higher energy irradiation (254 nm).     

The development of a reagentless lactate biosensor based on a novel conducting polymer

A reagentless lactate biosensor is described, based on an electropolymerized copolymer film poly(5-hydroxy-1,4-naphthoquinone-co-5-hydroxy-3-acetic acid-1,4-naphthoquinone). The quinone group, as part of the polymer backbone, is electroactive and very stable in neutral aqueous medium. It can therefore act as an immobilized mediator for the enzyme recycling, at a working potential much lower than those commonly reported in the literature for other mediators. Experimental conditions for amperometric measurements (temperature, pH) are studied, especially the interference between quinone and molecular oxygen to investigate the enzyme/quinone recycling kinetic. Some well-known interferents are shown to have no measurable effect on the amperometric curves.     

Self-Processing,Diffusion-Based Photopolymers for Holographic Applications

The new photopolymers for holographic applications described herein are based on a cross-linked matrix in which the holographic grating is formed by photo-polymerization of guest monomers in an interference pattern of the recording light. Diffusion of monomer, triggered by this photo-polymerization, from the dark to the bright fringes of the interference pattern is the key parameter for creating high modulation in refractive index Δn during hologram recording. This leads to bright visual volume holograms with high diffraction efficiency. The holographic photopolymers are self-processing. After recording the hologram only (incoherent) light exposure is necessary to bleach the final product and fix the hologram. Unlike earlier photopolymers used in holography, these new materials offer the advantages of no chemical or thermal processing combined with low shrinkage and detuning. Additionally, due to good light sensitivity the formation of the holograms is fast and the film obtained after curing is highly transparent, which makes the material suitable for both, reflection and transmission holography.     

Hochschild cohomology and Atiyah classes

In this paper we prove that on a smooth algebraic variety the HKR-morphism twisted by the square root of the Todd genus gives an isomorphism between the sheaf of poly-vector fields and the sheaf of poly-differential operators, both considered as derived Gerstenhaber algebras. In particular we obtain an isomorphism between Hochschild cohomology and the cohomology of poly-vector fields which is compatible with the Lie bracket and the cupproduct. The latter compatibility is an unpublished result by Kontsevich.Our proof is set in the framework of Lie algebroids and so applies without modification in much more general settings as well.     

Delineation of the factors governing reactivity and selectivity in epoxide formation from ammonium ylides and aldehydes

Diastereoselectivity in reactions of aryl-stabilised ammonium ylides are highly sensitive to the nature of the amine and the ylide substituent. DFT calculations are consistent with a mechanism in which reversibility in betaine formation [despite the high energy (and therefore instability) of ammonium ylides] is finely balanced due to the high barrier to ring closure.