Occurrence,horizontal transfer and degeneration of VDE intein family in Saccharomycete yeasts

VDE is a homing endonuclease gene originally discovered as an intervening element in VMA1s of Saccharomyces cerevisiae. There have been two independent subfamilies of VDE, one from S. cerevisiae strain X2180-1A and the other from Saccharomyces sp. DH1-1A in the host VMA1 gene, and they share the identity of 96.3%. In order to search the occurrence, intra/interspecies transfer and molecular degeneration of VDE, complete sequences of VMA1 in 10 strains of S. cerevisiae, eight species of saccharomycete yeasts, Candida glabrata and Kluyveromyces lactis were determined. We found that six of 10 S. cerevisiae strains contain VDEs 99.7-100% identical to that of the strain X2180-1A, one has no VDE, whereas the other three harbour VDEs 100% identical to that of the strain DH1-1A. S. carlsbergensis has two VMA1s, one being 99.8% identical to that of the strain X2180-1A with VDE 100% identical to that of the strain DH1-1A and the other containing the same VMA1 in S. pastorianus with no VDE. This and other evidence indicates that intra/interspecies transmissions of VDEs have occurred among saccharomycete yeasts. Phylogenetic analyses of VMA1 and VDE suggest that the S. cerevisiae VDEs had branched earlier than other VDEs from an ancestral VDE and had invaded into the host loci as relatively late events. The two VDEs seemed to degenerate in individual host loci, retaining their splicing capacity intact. The degeneration of the endonuclease domains was distinct and, if compared, its apparent rate was much faster than that of the protein-splicing domains.     

Near-infrared spectroscopic monitoring of the diffusion process of deuterium-labeled molecules in wood. Part I: softwood

The diffusion process of several molecules (D2O, n-butanol (OD) and t-butanol (OD)) in softwood (Sitka spruce) was investigated by means of a deuterium exchange method and Fourier transform near-infrared (FT-NIR) polarization spectroscopy. The location of OH groups in different states of order of cellulose in wood was clarified by analyzing the FT-NIR transmission spectra ranging from 7200 to 6000 cm(-1). Four absorption bands were assigned to 2 x v(OH) absorptions of the amorphous regions, OH groups in semi-crystalline regions, and two types of intramolecular hydrogen-bonded OH groups in the crystalline regions, respectively. The saturation level of accessibility was very different for these absorption bands (i.e., 70-80, 60, and 40-50% for the amorphous, semi-crystalline, and crystalline regions, respectively). However, the saturation accessibilities for each absorption band varied little with molecular structure and geometry of the diffusants. The diffusion rate of D2O was much faster than that of n-butanol (OD) and t-butanol (OD) for all states of orders. The size effect of the butanols led to slight differences in the diffusive transport in the crystalline regions.     

Structural change of water with solutes and temperature up to 100 degrees C in aqueous solutions as revealed by attenuated total reflectance infrared spectroscopy

The attenuated total reflectance infrared (ATR-IR) spectra of several aqueous solutions have been measured by using a newly developed heatable rod-type ATR cell. The OH stretching bands showed systematic change with increasing solute concentrations and these changes can be explained by four different OH components based on curve-fitting results. NaCl solutions show longer H-bond distance character, while carbonate solutions present shorter ones. The Na2CO3 1 M solution conserves this shorter H-bond nature up to 100 degrees C. On the other hand, the loose nature of NaCl solutions becomes less pronounced at higher temperatures because of the dissociation of pure water clusters. These in situ observations of water structures are generally in agreement with the expected nature of fluids within the earth.     

Cytochemistry of gastric parietal cells with high-pressure freezing followed by freeze-substitution

Gastric parietal cells were examined for changes in their ultrastructure and distribution of the proton pump during feeding and fasting states in rats. The fundic glands from rats fed ad libitum or fasted with free access to water were cryofixed using high-pressure freezing followed by freeze-substitution in acetone containing osmium or acrolein and then embedded in Epon 812 or Lowicryl K4M resin, respectively. Excellent ultrastructural preservation was achieved. During the feeding state, intracellular canaliculi and numerous microvilli were well developed, while tubulovesicles were poorly developed. In contrast, during the fasting state, the microvilli in the narrowed space of the intracellular canaliculi were tightly packed and the tubulovesicles were enlarged. Ultrathin sections were immunostained with antibodies against the alpha- and beta-subunits of the proton pump, H+ x K(+)-ATPase, using the immunogold method. The labelling was strong and clearly localized in comparison with that obtained using the conventional chemical-fixation method. Each subunit was localized on the membrane of the microvilli, intracellular canaliculi and tubulovesicles. The distribution of subunit proteins varied between the two states. During ad libitum feeding, the immunolabelling was localized strongly on the membranes of the microvilli and intracellular canaliculi. In contrast, the labelling was strong on the tubulovesicle membrane in the fasting state. The results obtained with each anti-subunit antibody by H+ x K(+)-ATPase immunostaining revealed differences in distribution and labelling density between the feeding and fasting states.     

Ultraviolet bonding of perfluoropolyethers to carbon surfaces investigated using quantum chemical methods

For improving the tribological performance of hard disk drives, nanometer-thick perfluoropolyether (PFPE) lubricant films are generally treated with ultraviolet (UV) irradiation to bond them to the carbon overcoats of the disks. By modeling UV irradiation as an electron emission and attachment process, we investigate the UV bonding of nonfunctional PFPE Z and functional PFPE Zdol to hydrogenated and nitrogenated carbon surfaces with quantum chemical methods. Our calculation results show that, upon electron attachment, Z dissociates at its main chain to two fragments terminated by CF₂CF₂ and CF₂O groups, whereas Zdol dissociates to a hydrogen fluoride and a fragment. The perfluoromethoxy oxygen in one of the Z fragments and the carbon radical and the hydrogen-truncated end group in the Zdol fragment interact strongly with sp² and oxidized sites on carbon surfaces. Imine moieties on the CNx surface also contribute considerably to the UV bonding of Zdol.     

A formalization for the specification and systematic generation of computer graphics systems

A formalization of graphical processes in computer graphics systems is presented in terms of functions and their system of axioms. The concept of the viewing pipeline is formalized as operation sequence which is a sequential composition of graphical elementary operations. The formalization includes two kinds of operation sequences which are used as the formal specifications of graphics systems and display devices. In order to generate a graphics system using a display device, we introduced the concept of functionality-preserving transformation of operation sequences in terms of various types of commutations among primitive operations. A type of transformation, which is called extraction, plays a central role in the generation algorithm.     

Group behavior of agents with an emotional model

Recently, there has been much interest in the study of the formation of groups of agents that cause interactions between agents and invent new functions. We gave some agents an action rule based on the interactions of human feelings by using a circumplex model. It had been decided that the parameters of feelings in this model should have only two axes. In this report, eight basic action dimensions and pure feelings on four corresponding axes were given to agents as a model of feelings and actions based on the multiple factor analysis theory of R. Plutchik, and the behavioral characteristics of the group of agents were examined.     

DC interruption characteristic of vacuum circuit breaker

A high‐speed vacuum circuit breaker (HSVCB) has been investigated. HSVCB makes high‐frequency current superimposed on a fault current so that the current is forced to be zero and is interrupted. Its interruption performance is considered to be dependent on the rate of change of the current (di/dt). As a fundamental research, we investigated the di/dt– dv/dt characteristics and the insulation recovery characteristic after interrupting the counter‐pulse current for various contact materials of AgWC, CuW, and CuCr. The results revealed that the case where the gap length is larger is better in a current interruption performance. Moreover, it was found that di/dt is not dependent on the insulation recovery characteristics, but the magnitude of interruption current is of great influence. © 2007 Wiley Periodicals, Inc. Electr Eng Jpn, 161(1): 17– 25, 2007; Published online in Wiley InterScience ( www.interscience.wiley.com ). DOI 10.1002/eej.20362     

New bleeding model of additives in a polypropylene film under atmospheric pressure II

Many additives are commercially used to add more favorable qualities to films. The bleeding process by which the additive in a film comes to the surface is considered. A new bleeding model of additives in a polypropylene film under atmospheric pressure was investigated. Solubility and diffusion are found to be important for explaining this bleeding process. It was found that the experimental results were explained more precisely by assuming a two‐step transport process between the crystalline regions and the amorphous ones. The solubilities and diffusion coefficients of UV‐stabilizers such as 2‐(2H‐benzotriazol‐2‐yl)‐4‐(1,1,3,3‐tetramethylbutyl)phenol and 2‐(2H‐benzotriazol‐2‐yl)‐4‐methylphenol were determined at 40°C. The difference between the saturation solubilities and the diffusion coefficients of UV‐stabilizers was discussed by comparing with the results of molecular dynamics (MD) simulation. © 2007 Wiley Periodicals, Inc. J Appl Polym Sci 2007