High Resolution Structure of the Mature Capsid of Ralstonia solanacearum Bacteriophage ϕRSA1 by Cryo-Electron Microscopy

The ϕRSA1 bacteriophage has been isolated from Ralstonia solanacearum, a gram negative bacteria having a significant economic impact on many important crops. We solved the three-dimensional structure of the ϕRSA1 mature capsid to 3.9 Å resolution by cryo-electron microscopy. The capsid shell, that contains the 39 kbp of dsDNA genome, has an icosahedral symmetry characterized by an unusual triangulation number of T = 7, dextro. The ϕRSA1 capsid is composed solely of the polymerization of the major capsid protein, gp8, which exhibits the typical “Johnson” fold first characterized in E. coli bacteriophage HK97. As opposed to the latter, the ϕRSA1 mature capsid is not stabilized by covalent crosslinking between its subunits, nor by the addition of a decoration protein. We further describe the molecular interactions occurring between the subunits of the ϕRSA1 capsid and their relationships with the other known bacteriophages.     

Intracellular retention and degradation of tissue-nonspecific alkaline phosphatase with a Gly317-->Asp substitution associated with lethal hypophosphatasia

One point mutation which converts glycine-317 to aspartate of tissue-nonspecific alkaline phosphatase (TNSALP) was reported to be associated with lethal hypophosphatasia (Greenberg, C. R., et al. Genomics 17, 215-217, 1993). In order to define the molecular defect of TNSALP underlying the pathogenesis of hypophosphatasia, we have examined the biosynthesis of TNSALP with a Gly317-->Asp substitution. When expressed in COS-1 cells, the mutant did not exhibit alkaline phosphatase activity at all, indicating that the replacement of glycine-317 with aspartate abolishes the catalytic activity of TNSALP. Pulse-chase experiments showed that the newly synthesized mutant failed to acquire Endo H-resistance and to reach the cell surface. Interestingly, this TNSALP mutant was found to form a disulfide-bonded high-molecular-mass aggregate and was rapidly degraded within the cell, though the mutant protein was modified by glycosylphosphatidylinositol (GPI). Lactacystin, an inhibitor of the proteasome, obstructed the degradation of the mutant protein, suggesting the involvement of proteasome as a part of quality control of TNSALP.     

Highly unsaturated fatty acid might act as an antioxidant in emulsion system oxidized by azo compound

Now it is recognized that DHA is oxidatively stable fatty acid compared with linoleic acid (LA) in emulsified system, although DHA is oxidatively unstable in a bulk system. In fact, an emulsified mixture of DHA and LA behaves as in a bulk system, namely the oxidative stability of DHA becomes lower than that of LA. Therefore, in this study, tridocosahexaenoate (DDD) and glycerol trilinoleate (LLL) were separately emulsified using TritonX-100 as an emulsifier and DDD emulsion was mixed with the oxidizing LLL emulsion using a water-soluble radical initiator, 2,2'-azobis(2-aminopropane) dihydrochloride. As a result, DHA suppressed the oxidation of LA, while DHA was not significantly oxidized. This suppression ability was examined using glycerol trieicosapentaenoate, glycerol trilinolenate, or glycerol trioleate instead of DDD and it was found that this activity was increased with the increasing number of double bonds in the structure. Furthermore, the same type of experiment was carried out using a lipid-soluble radical initiator, 2,2'-azobisisobutyronitrile and the similar result was obtained. These results indicated that a highly polyunsaturated fatty acid might act as an antioxidant in an emulsion system oxidized by an azo compound.     

Structure Analysis of Molten Ba–Ge Alloys Using Electrostatic Levitation Technique Combined With High-Energy X-Ray Diffraction

High-energy synchrotron X-ray diffraction experiments were performed for clathrate-forming barium–germanium (Ba–Ge) alloys in the liquid state near the eutectic composition. The accurate structure information of highly reactive melts has been obtained by applying electrostatic levitation technique as a containerless method. The structure information obtained from the reverse Monte Carlo simulation suggests that the short-range ordering between the Ge atoms occurs with the addition of Ba atoms in the liquid Ba–Ge alloys. This can be associated with the formation of the cage-like structure composed of the Ge atoms in the liquid alloys near the eutectic composition.     

Isolation and structure determination of cassumunarins A,B, and C: New anti-inflammatory antioxidants from a tropical ginger,Zingiber cassumunar

New antioxidants, cassumunarins A, B, and C, were isolated from the rhizomes ofZingiber cassumunar, and the structures were determined by spectroscopic methods to be complex curcuminoids. The antixidant efficiency of cassumunarins was determined by inhibitory activity of autoxidation of linoleic acid in a buffer-ethanol system. The anti-inflammatory effect was measured by inhibition of edema formation on mouse ear induced by 12-O-tetradecanoylphorbol-13-acetate. Both types of activities were stronger for the cassumunarins than for the curcumin. Visiting scholar at University of Texas (October 1992–September 1993).     

Antibiotic contamination and occurrence of antibiotic-resistant bacteria in aquatic environments of northern Vietnam

The ubiquitous application and release of antibiotics to the environment can result in bacterial antibiotic resistance, which in turn can be a serious risk to humans and other animals. Southeast Asian countries commonly apply an integrated recycling farm system called VAC (Vegetable, Aquaculture and Caged animal). In the VAC environment, antibiotics are released from animal and human origins, which would cause antibiotic-resistant bacteria (ARB). This study evaluated occurrence of ARB in the VAC environment in northern Vietnam, with quantitative analysis of antibiotic pollution. We found that sulfonamides were commonly detected at all sites. In dry season, while sulfamethazine was a major contaminant in pig farm pond (475-6662 ng/l) and less common in city canal and aquaculture sites, sulfamethoxazole was a major one in city canal (612-4330 ng/l). Erythromycin (154-2246 ng/l) and clarithromycin (2.8-778 ng/ml) were the common macrolides in city canal, but very low concentrations in pig farm pond and aquaculture sites. High frequencies of sulfamethoxazole-resistant bacteria (2.14-94.44%) were found whereas the occurrence rates of erythromycin-resistant bacteria were lower (< 0.01-38.8%). A positive correlation was found between sulfamethoxazole concentration and occurrence of sulfamethoxazole-resistant bacteria in dry season. The sulfamethoxazole-resistant isolates were found to belong to 25 genera. Acinetobacter and Aeromonas were the major genera. Twenty three of 25 genera contained sul genes. This study showed specific contamination patterns in city and VAC environments and concluded that ARB occurred not only within contaminated sites but also those less contaminated. Various species can obtain resistance in VAC environment, which would be reservoir of drug resistance genes. Occurrence of ARB is suggested to relate with rainfall condition and horizontal gene transfer in diverse microbial community.     

Measurement of group refractive index wavelength dependence using a low-coherence tandem interferometer

A technique for the measurement of the group refractive index wavelength dependence of optical materials using a low-coherence tandem interferometer and a spectrometer is proposed. Four channeled spectra resulting from interferences of light beams from different pairs of optical paths are used for the calculation of optical path differences. The group refractive index wavelength dependence is calculated from these optical path differences generated from the sample under measurement. No a priori information of the geometric thickness of a sample is required. The wavelength dependence of the group refractive index of the samples BK7 parallel plate of 5.200 and 10.025 mm from 675 to 850 nm is experimentally measured with an accuracy of the order of 10(-5) and a repeatability of the order of 10(-9).     

Estimation of beta-ray skin dose from exposure to fission fallout from the Hiroshima atomic bomb

Beta-ray skin dose due to the fission fallout from the Hiroshima atomic bomb is potentially related to the epilation in the black rain area. The absorbed dose to the skin from beta-rays emitted by fission fallout has been estimated for an initial 13?Cs deposition of 1 kBq m?2 on the ground at 0.5 h after the explosion. The estimated skin dose takes into account both external exposure from fission fallout radionuclides uniformly distributed in 1 mm of soil on the surface of the ground and from a 26 μm thickness of contaminated soil on the skin, using the Monte Carlo radiation transport code MCNP-4C. The cumulative skin dose for 1 month after the explosion is taken as the representative value. The estimated skin dose for an initial 13?Cs deposition of 1 kBq m?2 was determined to be about 500 mSv.     

Simultaneous enhanced photon capture and carrier generation in Si solar cells using Ge quantum dot photonic nanocrystals

We propose a novel solar cell structure with photonic nanocrystals coupled to quantum dots (QDs) for advanced management of photons and carriers. The photonic nanocrystals at the surface create an extra interaction between the photons and the QDs, which promotes light trapping. Photo-generated carriers can be efficiently transported by preparing vertically aligned QDs with electronic coupling. Implementation of the proposed structure was realized in crystalline Si solar cells with Ge QDs by development of a simple and practical formation method based on a wet chemical process without any lithography techniques. The wet process utilizes a periodically modulated etching rate induced by self-organized Ge QDs. The effectiveness of the proposed solar cell was demonstrated by the marked increase of the absolute conversion efficiency when compared with the control crystalline Si solar cells. It is found that light trapping by the photonic nanocrystals has a larger contribution to the efficiency improvement than the contributions from the carrier transport of the vertically aligned QDs.     

Effect of Yb concentration on optical properties of Yb:CaF2 transparent ceramics

In Yb:CaF₂, the coordination of Yb³⁺ in the CaF₂ lattice determines the spectroscopic properties that make Yb:CaF₂ a good candidate for high power laser applications. In this work, we measure the optical absorption, emission, and fluorescence lifetime of 0.1, 1, 5, and 10 at% Yb:CaF₂ ceramics to determine whether Yb³⁺ substitutes as hexamer clusters giving rise to the tenability and long fluorescent lifetime observed in Yb:CaF₂ single crystals. Absorption and emission spectra show that the concentration of Yb³⁺ present in hexamer clusters, as opposed to isolated ions, increases with increasing Yb³⁺ content. Fluorescence lifetime also increases with increasing Yb³⁺ content. Laser testing on a 1 at% Yb:CaF₂ transparent ceramic demonstrates that these materials are viable laser gain media.