The elastic theory of a single DNA molecule

We study the elastic responses of double-(ds) and single-stranded (ss) DNA at external force fields. A double-strand-polymer elastic model is constructed and solved by path integral methods and Monte Carlo simulations to understand the entropic elasticity, cooperative extensibility, and supercoiling property of dsDNA. The good agreement with experiments indicates that short-ranged base-pair stacking interaction is crucial for the stability and the high deformability of dsDNA. Hairpin-coil transition in ssDNA is studied with generating function method. A threshold force is needed to pull the ssDNA hairpin patterns, stabilized by base pairing and base-pair stacking, into random coils. This phase transition is predicted to be of first order for stacking potential higher than some critical level, in accordance with experimental observations.     

Millimeter and submillimeter wave spectroscopic investigations into the rotation-tunneling spectrum of gGg ethylene glycol, HOCH2CH2OH

The rotation-tunneling spectrum of the second most stable gGg^′ conformer of ethylene glycol (1,2-ethanediol) in its ground vibrational state has been studied in selected regions between 77 and 579 GHz. Compared to the study of the more stable aGg^′ conformer, a much larger frequency range was studied, resulting in a much extended frequency list covering similar quantum numbers, J?55 and K_a?19. While the input data were reproduced within experimental uncertainties up to moderately high values of J and K_a larger residuals remain at higher quantum numbers. The severe mixing of the states caused by the Coriolis interaction between the two tunneling substates is suggested to provide a considerable part of the explanation. In addition, a Coriolis interaction of the gGg^′ ground vibrational state with an excited state of the aGg^′ conformer may also contribute. Relative intensities of closely spaced lines have been investigated to determine the signs of the Coriolis constants between the two tunneling substates relative to the dipole moment components and to estimate the magnitudes of the dipole moment components and the energy difference between the gGg^′ and the aGg^′ conformers. Results of ab initio calculations on the total dipole moment and the vibrational spectrum were needed for these estimates. The current analysis is limited to transitions with quantum numbers J?40 and K_a?6 plus those having J?22 and K_a?17 which could be reproduced within experimental uncertainties. The results are aimed at aiding radioastronomers to search for gGg^′ ethylene glycol in comets and in interstellar space.     

Formation of Supersonic Zones and Local Separation Zones in Transonic Steady-State Flow Past Surface Roughness in the Free Interaction Regime

Within the framework of free interaction theory numerical methods are used to investigate the occurrence of supersonic zones with shocks in the outer inviscid region for flow past roughness in the lower viscous sublayer, with and without the formation of local separation zones.     

Dynamic fractal unifying interaction confirmed with magnetospheric behavior and orbital data

The solar wind makes the magnetosphere to expand and contract as indicated by the expansions and contractions of the auroral oval due to balancing of the dynamic pressure of the ambient space plasma at inner and outer magnetic lines. This self‐similar magnetospheric behavior elucidates the controversial magnetic storm‐substorm relationship and reveals the 3D‐spiral structure of magnetic interaction. The found self‐similarly evolving structure of one seen as fundamental interaction suggests dynamic fractal unifying interaction that builds a firework universe having 3D‐spiral code. The unifying interaction is described with equation drawn in new fundamental dynamic fractal framework. The equation of unifying interaction converges to the inverse square laws and the principle of uncertainty at laboratory scales. The dynamic fractal fundamental framework is made of one 3D‐spirally‐faster‐inward contracting and expanding, oscillating, basic matter. It simply accounts for observed constant speed of light and for the creation of bright and dark bands on a screen behind a tiny slit. The dynamic fractal framework is quantitatively confirmed with the orbital data for the Milky Way Galaxy, the Sun, the Earth, and the triple asteroid system 87 Sylvia. Many testable predictions are also made. The presented new fundamental dynamic fractal framework allows qualitative and quantitative modeling and simplification. © 2007 Wiley Periodicals, Inc. Complexity 12: 61–76, 2007     

Melting of heterogeneous vortex matter: The vortex ‘nanoliquid’

Disorder and porosity are parameters that strongly influence the physical behavior of materials, including their mechanical, electrical, magnetic and optical properties. Vortices in superconductors can provide important insight into the effects of disorder because their size is comparable to characteristic sizes of nanofabricated structures. Here we present experimental evidence for a novel form of vortex matter that consists of inter-connected nanodroplets of vortex liquid caged in the pores of a solid vortex structure, like a liquid permeated into a nanoporous solid skeleton. Our nanoporous skeleton is formed by vortices pinned by correlated disorder created by high-energy heavy ion irradiation. By sweeping the applied magnetic field, the number of vortices in the nanodroplets is varied continuously from a few to several hundred. Upon cooling, the caged nanodroplets freeze into ordered nanocrystals through either a first-order or a continuous transition, whereas at high temperatures a uniform liquid phase is formed upon delocalization-induced melting of the solid skeleton. This new vortex nanoliquid displays unique properties and symmetries that are distinct from both solid and liquid phases.     

Bending-torsion vibration of a partially submerged cylinder with an arbitrary cross-section

An analytical method is presented to investigate the bending-torsion vibration characteristics of a cylinder with an arbitrary cross-section and partially submerged in water. The compressibility and the free surface waves of the water are considered simultaneously in the analysis. The exact solution of structure–water interaction is obtained mathematically. Firstly, the analytical expression of the velocity potential of the water is derived by using the method of separation of variables. The unknown coefficients in the velocity potential are determined by the longitudinal and circumferential Fourier expansions along the outer surface of the cylinder and are expressed in the form of integral equations including the unknown dynamic bending deflection and torsional angle of the cylinder. Secondly, the force and torque acting on the cylinder per unit length, provided by the water, are obtained by integrating the water dynamic pressure along the circumference of the cylinder. The general solution of bending-torsion vibration of the cylinder under the water dynamic pressure is derived analytically. The integral equations included in the velocity potential of the water can be solved exactly. Finally, the eigenfrequency equation of cylinder–water interaction is obtained by means of the boundary conditions of the cylinder. Some numerical examples for elliptical columns partially submerged in water are provided to show the application of the present method.     

Interaction of metals with an organic semiconductor: Ag and In on PTCDA

The interaction of Ag and In with a thin film of 3,4,9,10-perylenetetracarboxylic dianhydride (PTCDA) was studied by near-edge X-ray absorption fine structure (NEXAFS). Upon Ag deposition on a PTCDA film of 20 nm thickness the relative intensities and lineshapes, as well as the angular dependence of the spectra remains unchanged, illustrating the formation of a chemically unreactive Ag/PTCDA interface. On the other hand, the adsorption of 0.3 nm In strongly decreases the intensity of the π^* resonances in C and O K-edge NEXAFS spectra. This is attributed to a strong charge transfer between In and PTCDA, leading to a redistribution of the charge in the molecule. However, the absence of a strong shift or new features and negligible dependence of peak intensities corresponding to π^* resonances on the In thickness indicate that the interaction between In and PTCDA is not accompanied by a covalent bond formation.     

Bipyridinophane‐containing conjugated polymers modulated with an intramolecular aromatic C?H/π interaction

Bipyridinophane–fluorene conjugated copolymers have been synthesized via Suzuki and Heck coupling reactions from 5,8‐dibromo‐2,11‐dithia[3]paracyclo[3](4,4′)‐2,2′‐bipyridinophane and suitable fluorene precursors. Poly[2,7‐(9,9‐dihexylfluorene)‐co‐alt‐5,8‐(2,11‐dithia[3]paracyclo[3](4,4′)‐2,2′‐bipyridinophane)] ( P7 ) exhibits large absorption and emission redshifts of 20 and 34 nm, respectively, with respect to its planar reference polymer Poly[2,7‐(9,9‐dihexylfluorene)‐co‐alt‐1,4‐(2,5‐dimethylbenzene)] ( P11 ), which bears the same polymer backbone as P7 . These spectral shifts originate from intramolecular aromatic C? H/π interactions, which are evidenced by ultraviolet–visible and ¹H NMR spectra as well as X‐ray single‐crystal structural analysis. However, the effect of the intramolecular aromatic C? H/π interactions on the spectral shift in poly[9,9‐dihexylfluorene‐2,7‐yleneethynylene‐co‐alt‐5,8‐(2,11‐dithia[3]paracyclo[3](4,4′)‐2,2′‐bipyridinophane)] ( P10 ) is much weaker. Most interestingly, the quenching behaviors of these two conjugated polymers are largely dependent on the polymer backbone. For example, the fluorescence of P7 is efficiently quenched by Cu²⁺, Co²⁺, Ni²⁺, Zn²⁺, Mn²⁺, and Ag⁺ ions. In contrast, only Cu²⁺, Co²⁺, and Ni²⁺ ions can partially quench the fluorescence of P10 , but much less efficiently than the fluorescence of P7 . The static Stern–Volmer quenching constants of Cu²⁺, Co²⁺, and Ni²⁺ ions toward P7 are of the order of 10⁶ M^?1, being 1300, 2500, and 37,300 times larger than those of P10 , respectively. © 2006 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 44: 4154–4164, 2006     

Synthesis and Properties of a Heteronuclear Ag（Ⅰ）/Ni（Ⅱ） Complex

Introduction Itiswell knownthatcyanogroupsincyanometa latessuchas[Ag(CN)2]-unitscanbeusedasbridg ingligandsandapolymericstructurecanbeformed throughsilver silver(argentophilic)interactions.This propertyhasbeenexploredintheconstructionofmany oligomericandp…     

Multi-cracks problem for piezoelectric materials strip subjected to dynamic loading

This paper analyses and models the dynamic interaction among permeable multi-cracks in a piezoelectric strip under anti-plane shear waves by the Schmidt method. The Fourier transform is applied and then two pairs of triple integral equations can be solved using the Schmidt method. The results show that the stress and the electric displacement intensity factors of cracks depend on not only the crack length and the piezoelectric coefficient, but also the thickness of the piezoelectric strip, the distance between multi-cracks and the frequency of incident wave.