Characteristics of biogenic calcite in the prismatic layer of a pearl oyster,Pinctada fucata

The fine structure of the calcite prism in the outer layer of a pearl oyster, Pinctada fucata, has been investigated using various electron beam techniques, in order to understand its characteristics and growth mechanism including the role of intracrystalline organic substances. As the calcite prismatic layer grows thicker, sinuous boundaries develop to divide the prism into a number of domains. The crystal misorientation between the adjacent domains is several to more than ten degrees. The component of the misorientation is mainly the rotation about the c-axis. There is no continuous organic membrane at the boundaries. Furthermore, the crystal orientation inside the domains changes gradually, as indicated by the electron back-scattered diffraction (EBSD) in a scanning electron microscope (SEM). Transmission electron microscopy (TEM) examination revealed that the domain consists of sub-grains of a few hundred nanometers divided by small-angle grain boundaries, which are probably the origin of the gradual change of the crystal orientation inside the domains. Spherular Fresnel contrasts were often observed at the small-angle grain boundaries, in defocused TEM images. Electron energy-loss spectroscopy (EELS) indicated the spherules are organic macromolecules, suggesting that incorporation of organic macromolecules during the crystal growth forms the sub-grain structure of the calcite prism.     

A new method to evaluate the unfolding activity of chaperone unit ClpA based on Fe-S cluster disruption

ATP-dependent proteases unfold their substrates and then refold (via chaperone activity) or degrade (via protease activity) them. The proteases choose between these two activities by selecting their substrates; however, little is known about their substrate selection mechanism. The present study attempts to clarify this mechanism by investigating the role of the Escherichia coli (E. coli) ATP-dependent protease ClpAP. To address this, a reaction system that can measure both chaperone and protease activities simultaneously must be constructed. However, the chaperone activities cannot be evaluated in the presence of protease units. Green fluorescent protein (GFP) is usually used as a model substrate of ClpAP; the fluorescence decrease reflects the degradation of substrates. However, it is difficult to evaluate the chaperone activity of ClpAP using this system, because it cannot distinguish between intact and refolded substrates. Therefore, it is necessary to evaluate the exact unfolding activity while avoiding restoration of substrate spectroscopic characteristics due to chaperone activity. In this study, E. coli Ferredoxin (Fd) was used as a new model substrate for ClpAP to evaluate its unfolding activity. Intact and refolded substrates may be distinguished by the existence of an Fd Fe-S cluster. To verify this hypothesis, the absorption spectrum of Fd complexed with ClpA, the chaperone unit of ClpAP, was measured. A decrease in two peaks derived from the Fe-S cluster was observed, indicating that the Fe-S cluster of Fd was disrupted by the ClpA chaperone. This reaction system should prove useful to evaluate the exact unfolding activity of ATP-dependent proteases.     

Spectroscopic analyses and chemical transformation for structure elucidation of two novel indole alkaloids from Gelsemium elegans

Two new monoterpenoid oxindole alkaloids, gelsevanillidine (1) having an additional vanillin residue on gelsenicine-type alkaloid and gelseoxazolidinine (2) possessing an unusual oxazolidine ring, were isolated from Gelsemium elegans. To confirm their structures, the chemical transformation of a humantenine-type alkaloid into gelsevanillidine (1) and the deacetoxy derivative of gelseoxazolidinine was performed.     

Gelation dynamics and gel structure of fibrinogen

Gelation dynamics and gel structure of fibrinogen induced by serine protease, thrombin, was investigated by light scattering, real space observation using confocal laser scanning microscopy (CLSM), and turbidity. Effects of additives, such as (linear) saccharides, glucose to dextran, and cyclodextrin, were studied focusing on the interaction with fibrin(ogen) and thrombin. Light scattering measurement was ascertained to be able to characterize the gelation process and growth kinetics. Stepwise (two-step) gelation process, formation of fibrin monomers and protofibrils followed by the lateral aggregation to form fibrin fibers and gel network, was clearly ascertained. Gelation point could be characterized quantitatively. At the gelation point, dynamic light scattering exhibited a self-similar nature of the fibrin gel network, and the fractal dimension was evaluated in good accordance with the reconstructed 3D image of gel network by CLSM. The interaction between the additives and fibrin(ogen) and thrombin were studied by the inhibition test using synthesized substrate. Temporal variation of microstructure of fibrin gel network (lateral fiber growth) was investigated by turbidity in detail. Addition of saccharides affects significantly the network formation as revealed by turbidity. The interaction of dextran with fibrin fibers was examined by fluorescence microscopy, too, and the characteristic spatial distribution was observed.     

Mechanism for negative poisson ratios over the alpha- beta transition of cristobalite, SiO2: A molecular-dynamics study

The adiabatic elastic constants ( C(ij)) of cristobalite have been evaluated successfully over the temperature range of 300-1800 K using the molecular-dynamics method with a fluctuation formula. Cristobalite shows a negative Poisson ratio over this temperature range. However, the mechanisms differ between the alpha and beta phases. In the cubic beta phase, C44 exhibits a value extremely close to C11 rather than C12, in contrast to the Cauchy relation. This predicts a remarkable property that the longitudinal and transverse velocities coincide for the acoustic waves propagating along the [100] direction.     

Shearing properties of sand under a repeated loading representing the ground pressure distribution of a tracked vehicle

This paper deals with experiments concerning the shearing properties of sand under repeated loading simulating the ground pressure distribution of a tracked vehicle. Shearing tests were carried out in sand by using a direct shear apparatus. It was confirmed that the shear strength of sand under repeated loading decreases with an increase in the number of loadings. This influences the soil thrust exerted by a highspeed tracked vehicle.