Local vibrations in real crystals with combined defects

The conditions of formation and the main characteristics of local vibrations due to the presence of light impurities Al, Mg, and Mn in the bulk and on the close-packed [111] surface of the fcc crystal lattice of silver are investigated. The influence of surface roughness is analyzed. Analytical approximations are obtained which describe the frequency and intensity of the local vibrations at the impurity atom and its nearest neighborhood to high accuracy. The proposed analytical approximations provide a practical way of determining the parameters of the defect structure and the interatomic interactions from the experimentally determined characteristics of the local vibrations

Long-lived fluorescence of homopolymeric guanine–cytosine DNA duplexes

International audienceThe fluorescence spectrum of the homopolymeric double helix poly(dG)·poly(dC) is dominated by emission decaying on the nanosecond time-scale, as previously reported for the alternating homologue poly(dGdC)·poly(dGdC). Thus, energy trapping over long periods of time is a common feature of GC duplexes which contrast with AT duplexes. The impact of such behaviour on DNA photodamage needs to be evaluated

Loffe-Regel' crossover and boson peaks in disordered solid solutions and similar anomalies in heterogeneous crystalline structures

Low-frequency features of the phonon spectra of disordered solid solutions and heterogeneous crystalline structures are analyzed at the microscopic level. It is shown that boson-peak type excitations can arise in disordered solid solutions whose sites have only translational degrees of freedom. Thus it is established that such excitations appear mainly because of the additional positional dispersion of sound waves which is due to the disordering. The influence of boson-peak excitations on the low-temperature specific heat is investigated. It is found that in a number of cases the specific heat is more sensitive to excitations of this kind than the low-frequency density of states is. It is shown that anomalies similar to Ioffe-Regel' crossover and boson peaks can also arise in disordered heterogeneous crystalline structures with a complicated lattice

Optical Properties of Guanine Nanowires: Experimental and Theoretical Study

International audienceLong nanowires formed by ca. 800 guanine tetrads (G4-wires) are studied in phosphate buffer containing sodium cations. Their room temperature optical properties are compared to those of the monomeric chromophore 2-deoxyguanine monophosphate (dGMP). When going from dGMP to G4-wires, both the absorption and the fluorescence spectra change. Moreover, the fluorescence quantum yield increases by a factor of 7.3 whereas the average fluorescence lifetime increases by more than 2 orders of magnitude, indicating emission associated with weakly allowed transitions. The behavior of G4-wires is interpreted in the light of a theoretical study performed in the frame of the exciton theory combining data from molecular dynamics and quantum chemistry. These calculations, carried out for a quadruplex composed of three tetrads, reveal the existence of various exciton states having different energies and oscillator strengths. The degree of delocalization of the quadruplex Franck−Condon excited states is larger than those found for longer duplexes following the same methodology. The slower excited-state relaxation in G4-wires compared to dGMP is explained by emission from exciton states, possibly limited on individual tetrads, whose coherence is reserved by the reduced mobility of guanines due to multiple Hoogsteen hydrogen bonds

Low-frequency properties of the phonon spectra, and low-temperature thermodynamics of disordered solid solutions

This is an analysis of the properties of quasi-local vibrations, and the conditions of the formation thereof, in a realistic model of the crystal lattice on a microscopic scale. The evolution of quasi-local vibrations with an increase in the concentration of impurity atoms, is examined. It is shown that the formation of boson peaks occurs mainly due to the additional dispersion of high-velocity acoustic phonons (connected to the atomic vibrations of the main lattice), caused by the scattering of these phonons by the quasi-local vibrations localized at the impurities. We demonstrate a connection between the boson peaks in disordered systems, and the first van Hove singularity, in regular crystal structures. We analyze the manifestation of quasi-local vibrations and boson peaks, as it relates to the behavior of low-temperature heat capacity, and how it changes with an increasing impurity concentration

Delocalizing effect of the Hubbard repulsion for electrons on a two-dimensional disordered lattice

We study numerically the ground-state properties of the repulsive Hubbard model for spin-1/2 electrons on two-dimensional lattices with disordered on-site energies. The projector quantum Monte Carlo method is used to obtain very accurate values of the ground-state charge density distributions with $N_p$ and $N_p+1$ particles. The difference in these charge densities allows us to study the localization properties of an added particle. The results obtained at quarter-filling on finite clusters show that the Hubbard repulsion has a strong delocalizing effect on the electrons in disordered 2D lattices. However, numerical restrictions do not allow us to reach a definite conclusion about the existence of a metal-insulator transition in the thermodynamic limit in two-dimensions.Comment: revtex, 7 pages, 7 figure

Synthesis of novel poly(dG)-poly(dG)-poly(dC) triplex structure by Klenow exo(-) fragment of DNA polymerase I

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Assembling of G-strands into novel tetra-molecular parallel G4-DNA nanostructures using avidin–biotin recognition

We describe a method for the preparation of novel long (hundreds of nanometers), uniform, inter-molecular G4-DNA molecules composed of four parallel G-strands. The only long continuous G4-DNA reported so far are intra-molecular structures made of a single G-strand. To enable a tetra-molecular assembly of the G-strands we developed a novel approach based on avidin–biotin biological recognition. The steps of the G4-DNA production include: (i) Enzymatic synthesis of long poly(dG)-poly(dC) molecules with biotinylated poly(dG)-strand; (ii) Formation of a complex between avidin-tetramer and four biotinylated poly(dG)-poly(dC) molecules; (iii) Separation of the poly(dC) strands from the poly(dG)-strands, which are connected to the avidin; (iv) Assembly of the four G-strands attached to the avidin into tetra-molecular G4-DNA. The average contour length of the formed structures, as measured by AFM, is equal to that of the initial poly(dG)-poly(dC) molecules, suggesting a tetra-molecular mechanism of the G-strands assembly. The height of tetra-molecular G4-nanostructures is larger than that of mono-molecular G4-DNA molecules having similar contour length. The CD spectra of the tetra- and mono-molecular G4-DNA are markedly different, suggesting different structural organization of these two types of molecules. The tetra-molecular G4-DNA nanostructures showed clear electrical polarizability. This suggests that they may be useful for molecular electronics

Preparation, characterization and manipulation of conjugates between gold nanoparticles and DNA

Here we described the preparation and characterization by atomic force microscopy of dumbbell-shaped conjugates between 450 bp double-stranded DNA polymer, poly(dG)-poly(dC), and 5 nm gold nanoparticles (GNPs). We have demonstrated that the size of the nanoparticles in the conjugates can be increased in a controlled fashion. Application of the conjugates for measuring the electrical conductivity of DNA is discussed

Photon momentum enabled light absorption in bulk silicon

Photons do not carry sufficient momentum to induce indirect optical transitions in semiconducting materials such as silicon, necessitating the assistance of lattice phonons to conserve momentum. Compared to direct bandgap semiconductors, this renders silicon a less attractive material for a wide variety of optoelectronic applications. In this work, we introduce an alternative strategy to fulfill the momentum-matching requirement in indirect optical transitions. We demonstrate that when confined to scales below ~3 nm, photons acquire sufficient momentum to allow electronic transitions at the band edge of Si without the assistance of a phonon. Confined photons allow simultaneous energy and momentum conservation in two-body photon-electron scattering; in effect, converting silicon into a direct bandgap semiconductor. We show that this less-explored concept of light-matter interaction leads to a marked increase in the absorptivity of Si from the UV to the near-IR. The strategy provides opportunities for more efficient use of indirect semiconductors in photovoltaics, energy conversion, light detection and emission