The mechanism of the self-assembly of associating DNA molecules under shear flow: Brownian dynamics simulation

A shear flow induces the assembly of DNAs with the sticky spots. In order to strictly interpret the mechanism of shear-induced DNA assembly, Brownian dynamics simulations with the bead-spring model were carried out for these molecules at various ranges of the Weissenberg numbers (We). We calculate a formation time and analyze the radial distribution function of end beads and the probability distribution of fractional extension at the formation time to understand the mechanism of shear-induced assembly. At low Weissenberg number the formation time, which is defined as an elapsed time until a multimer forms for the first time, decreases rapidly, reaching a plateau at We = 1000. A shear flow changes the radial distribution of end beads, which is almost the same regardless of the Weissenberg number. A shear flow deforms and stretches the molecules and generates different distributions between end beads with a stickly spot. The fractional extension progresses rapidly in shear flow from a Gaussian-like distribution to a uniform distribution. The progress of the distribution of fractional extension increases the possibility of meeting of end beads. In shear flow, the inducement of the assembly mainly results from the progress of the probability distribution of fractional extension. We also calculate properties such as the radius of gyration, stretch, and so on. As the Weissenberg number increases, the radius of gyration at the formation time also increases rapidly, reaching a plateau at We = 1000.     

Adsorbate-induced pinning of a charge-density wave in a quasi-1D metallic chains: Na on the In/Si(111)-(4x1) surface

We find that foreign adsorbates acting as local impurities can induce a metal-insulator transition by pinning a charge-density wave (CDW) on the quasi-1D metallic In/Si(111)-(4x1) chain system. Our scanning tunneling microscopy image clearly reveals the presence of a new local 4x2 structure nucleated by Na adatoms at room temperature, which turns out to be insulating with a doubled periodicity along the chains. We directly determine a CDW gap energy Delta = 105+/-8 meV by identifying a characteristic loss peak in our high-resolution electron-energy-loss spectra. We thus report the first observation of a local impurity-derived Peierls-like reconstruction of a quasi-1D system.     

Direct evidence of the charge ordered phase transition of indium nanowires on Si111

A controversial issue of the driving force for the phase transition of the one-dimensional (1D) metallic In wires on Si(111) is studied by low-temperature scanning tunneling microscopy and spectroscopy. The energy gap opening and the longitudinal charge ordering through charge transfer at the Fermi level are unambiguously observed. The vacancy defects induce a local charge ordering decoupled from a lattice distortion above T(c), and pin the phase of charge order below T(c). All these results below and above T(c) including the detailed features such as local fluctuations strongly support the 1D charge-density-wave mechanism for the phase transition.     

Frequency-stabilized high-power violet laser diode with an ytterbium hollow-cathode lamp

We have demonstrated in an ytterbium laser cooling and trapping experiment a high-power violet extendedcavity diode laser (ECDL) stabilized to the Yb resonant transition at 398.9 nm in an Yb hollow-cathode lamp. A frequency-dispersion signal, which we obtained by applying a modulation-free dichroic-atomic-vapor laser lock technique, allowed us to stabilize the violet ECDL at a frequency stability below 1 MHz at 1-s average time and a useful output power of 15 mW.     

Identification of molecular markers for the oncogenic differentiation of hepatocellular carcinoma

The aim of this study was to identify molecular markers associated with oncogenic differentiation in hepatocellular carcinoma (HCC). Using an unsupervised clustering method with a cDNA microarray, HCC (T) gene expression profiles and corresponding non-tumor tissues (NT) from 40 patients were analyzed. Of total 217 genes, 72 were expressed preferentially in HCC tissues. Among 186 differentially regulated genes, there were molecular chaperone and tumor suppressor gene clusters in the Edmondson grades I and II (GI/II) subclass compared with the liver cirrhosis (LC) subclass. The Edmondson grades III and IV (GIII/IV) subclass with a poor survival (P=0.0133) contained 122 differentially regulated genes with a cluster containing various metastasis- and invasion-related genes compared with the GI/II subclass. Immunohistochemical analysis revealed that ANXA2, one of the 72 genes preferentially expressed in HCC, was over-expressed in the sinusoidal endothelium and in malignant hepatocytes in HCC. The genes identified in the HCC subclasses will be useful molecular markers for the genesis and progression of HCC. In addition, ANXA2 might be a novel marker for tumor angiogenesis in HCC.     

Radial band structure of electrons in liquid metals

The electronic band structure of a liquid metal was investigated by measuring precisely the evolution of angle-resolved photoelectron spectra during the melting of a Pb monolayer on a Si(111) surface. We found that the liquid monolayer exhibits a free-electron-like band and it undergoes a coherent radial scattering, imposed by the radial correlation of constituent atoms, to form a characteristic secondary hole band. These unique double-radial bands and their gradual evolution during melting can be quantitatively reproduced, including detailed spectral intensity profiles, with our radial scattering model based on a theoretical prediction of 1962. Our result establishes the radial band structure as a key concept for describing the nature of electrons in strongly disordered states of matter.     

Experimental verification of pressure drop models in hollow fiber membrane

A new experimental method to obtain internal pressure profiles in a hollow fiber membrane was demonstrated. The experimentally obtained internal pressure profiles were compared with the theoretically calculated ones based on Hagen–Poiseuille equations. The experimental and theoretical results agreed very well in clean water conditions only when accurate membrane permeabilities and effective internal diameters were available. New experimental methods to obtain the two parameters were demonstrated. The same experimental technique was also applied for the submerged hollow fiber membranes filtering activated sludge to find out how internal pressure profiles were changing with time. Based on the pressure profiles, evidences that indicated the local flux near membrane exit was lower than those in adjacent area were found. This observation contradicted to the filtration models based on critical flux concept. It was considered that the cake layer collapse near the membrane exit was the cause. Though there was some degree of delay in pressures detection, the method demonstrated in this study provided a great accuracy when pressure profiles did not change rapidly.     

Gold-catalyzed intermolecular reactions of propiolic acids with alkenes: [4 + 2] annulation and enyne cross metathesis

A gold-catalyzed intermolecular reaction of propiolic acids with alkenes led to a [4 + 2] annulation or enyne cross metathesis. The [4 + 2] annulation proceeds with net cis-addition with respect to alkenes and provides an expedient route to α,β-unsaturated δ-lactones, for which preliminary asymmetric reactions were also demonstrated. For 1,2-disubstituted alkenes, unprecedented enyne cross metathesis occurred to give 1,3-dienes in a completely stereospecific fashion. DFT calculations and experiments indicated that the cyclobutene derivatives are not viable intermediates and that the steric interactions during concerted σ-bond rearrangements are responsible for the observed unique stereospecificity.