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.     

Saccharomyces sensu stricto: systematics, genetic diversity and evolution

Saccharomyces sensu stricto is a species complex that includes most of the yeast strains relevant in the fermentation industry as well as in basic science. The taxonomy of these yeasts has always been controversial, particularly at species level. Over the years, the grouping of Saccharomyces sensu stricto yeasts has undergone changes in accordance with the system employed in classifying yeast cultures. Names of species and single isolates have also undergone changes that have caused confusion for yeast scientists and fermentation technologists. Recent findings have demonstrated that Saccharomyces hayanus and S. pastorianus are not homogeneous and do not seem to be natural groups. The present work examines the current trends in systematics studies, evidences the importance and mechanism of genetic variation and explores the most recent evolutionary theories as a way to elucidate the mechanism of speciation and achieve a more natural grouping of Saccharomyces sensu stricto species.     

Large-scale genome reorganization in Saccharomyces cerevisiae through combinatorial loss of mini-chromosomes

A highly efficient technique, termed PCR-mediated chromosome splitting (PCS), was used to create cells containing a variety of genomic constitutions in a haploid strain of Saccharomyces cerevisiae. Using PCS, we constructed two haploid strains, ZN92 and SH6484, that carry multiple mini-chromosomes. In strain ZN92, chromosomes IV and XI were split into 16 derivative chromosomes, seven of which had no known essential genes. Strain SH6484 was constructed to have 14 mini-chromosomes carrying only non-essential genes by splitting chromosomes I, II, III, VIII, XI, XIII, XIV, XV, and XVI. Both strains were cultured under defined nutrient conditions and analyzed for combinatorial loss of mini-chromosomes. During culture, cells with various combinations of mini-chromosomes arose, indicating that genomic reorganization could be achieved by splitting chromosomes to generate mini-chromosomes followed by their combinatorial loss. We found that although non-essential mini-chromosomes were lost in various combinations in ZN92, one mini-chromosome (18kb) that harbored 12 genes was not lost. This finding suggests that the loss of some combination of these 12 non-essential genes might result in synthetic lethality. We also found examples of genome-wide amplifications induced by mini-chromosome loss. In SH6484, the mitochondrial genome, as well as the copy number of genomic regions not contained in the mini-chromosomes, was specifically amplified. We conclude that PCS allows for genomic reorganization, in terms of both combinations of mini-chromosomes and gene dosage, and we suggest that PCS could be useful for the efficient production of desired compounds by generating yeast strains with optimized genomic constitutions.     

A spreadsheet-based fuzzy retrieval system

Under the downsizing boom and cost decrease in computer-related industries, both business and individual computer users have been greatly influenced. For instance, the users will come up against the chance to handle imprecise data in real life with their computers more than ever. Therefore, solutions for easily developing fuzzy systems are strongly needed. In response to this need, many studies have been done in the fuzzy database area because fuzzy retrieval is one of the suitable ways to deal with those kind of data. In this article, the development of a fuzzy retrieval system which can be used on a personal computer is described, especially from an industrial point of view. Additionally, the effects of fuzzy retrieval are proposed and its thinkable applications are introduced. © 1996 John Wiley & Sons, Inc.     

C57BL/KsJ-db/db-Apc Mice Exhibit an Increased Incidence of Intestinal Neoplasms

The numbers of obese people and diabetic patients are ever increasing. Obesity and diabetes are high-risk conditions for chronic diseases, including certain types of cancer, such as colorectal cancer (CRC). The aim of this study was to develop a novel animal model in order to clarify the pathobiology of CRC development in obese and diabetic patients. We developed an animal model of obesity and colorectal cancer by breeding the C57BL/KsJ-db/db (db/db) mouse, an animal model of obesity and type II diabetes, and the C57BL/6J-Apc(Min/+) (Min/+) mouse, a model of familial adenomatous polyposis. At 15 weeks of age, the N9 backcross generation of C57BL/KsJ-db/db-Apc(Min/+) (db/db-Min/+) mice developed an increased incidence and multiplicity of adenomas in the intestinal tract when compared to the db/m-Min/+ and m/m-Min/+ mice. Blood biochemical profile showed significant increases in insulin (8.3-fold to 11.7-fold), cholesterol (1.2-fold to 1.7-fold), and triglyceride (1.2-fold to 1.3-fold) in the db/db-Min/+ mice, when compared to those of the db/m-Min/+ and m/m-Min/+ mice. Increases (1.4-fold to 2.6-fold) in RNA levels of insulin-like growth factor (IGF)-1, IRF-1R, and IGF-2 were also observed in the db/db- Min/+ mice. These results suggested that the IGFs, as well as hyperlipidemia and hyperinsulinemia, promoted adenoma formation in the db/db-Min/+ mice. Our results thus suggested that the db/db-Min/+ mice should be invaluable for studies on the pathogenesis of CRC in obese and diabetes patients and the therapy and prevention of CRC in these patients.     

Predictions of Munsell values with the same perceived lightness at any specified chroma irrespective of hues—Determination of any tonal colors

Simple formulas are proposed for predicting the Munsell value of colors with the same tone (the same values for whiteness‐blackness, perceived lightness, and chroma irrespective of hue). The formulas can be used for any tone. In other words, the method can determine the Munsell value with the same perceived lightness at any specified chroma irrespective of hue. The chromatic strength (CS) function is only used for the derivations. The formulas are very simple, and can be used not only in the colorimetry but also in the color design field. The concept described in this study is that a common CS function can be used for transforming each of the three color attributes (hue, lightness, and chroma) from their uniform color space metric to their corresponding color appearance space attribute. © 2010 Wiley Periodicals, Inc. Col Res Appl, 2011     

Additive Sintering,Postannealing, and Dielectric Properties of SrTaO2N

The maintaining of the chemical composition and electrical insulativity of SrTaO₂N ceramics was investigated during sintering and annealing, using powders prepared by the nitridation of Sr₂Ta₂O₇. Due to the low thermal stability of SrTaO₂N, the partial loss of SrO and nitrogen induced the formation of a TaO_0.9 impurity after heat‐treating at above 1100°C. The sintering additive SrCO₃ and postannealing in NH₃ were employed to compensate for the loss of SrO and nitrogen to obtain ceramics with the original chemical composition. The as‐sintered SrTaO₂N ceramics with various relative density (RD) were annealed in NH₃ to observe the recovery of color and electrical insulativity. It was found that the inner part of the well‐sintered samples with RD = 95.1% could not be recovered by annealing, and continued to exhibit semiconducting behavior and a black color. On the other hand, for the as‐sintered SrTaO₂N ceramics with RD < 84%, both the nitrogen content and electrically insulating behavior were completely recovered after annealing. The postannealed SrTaO₂N ceramics (RD = 83.3%) possessed a relatively large dielectric constant of 450 with a low dielectric loss of less than 0.1 at 100 Hz, almost independent of frequency and temperature.     

Wide Color Variation in SiNO Thin Films Dispersed with Precipitated TiN Nano Particles

Amorphous thin films of Ti_1?ySi_y(N,O) with y ≥ 0.38 were prepared by reactive sputter deposition in a nitrogen atmosphere. Thermal annealing of the films in an ammonia flow above 800°C yielded Si(N,O) amorphous thin films dispersed with precipitated TiN nanosized particles. The film color changed with Si content y and the annealing conditions, from carrot orange to cream yellow in the as‐deposited films due to their oxynitride nature, and from dark green to canary yellow and from iron blue to horizon blue at respective annealing temperatures of 800°C and 900°C due to metallic nature of the TiN nanosized particles precipitated in the annealing.     

Electrochemical investigation of uranium β-diketonates for all-uranium redox flow battery

The redox flow battery using uranium as the negative and the positive active materials in polar aprotic solvents was proposed. In order to establish the guiding principle for the uranium compounds as the active materials, the investigation of uranium β-diketonate complexes was conducted on (i) the solubility of active materials, (ii) the electrode reaction of U(VI) and U(IV) β-diketonate complexes and (iii) the estimation of the open circuit voltage of the battery. The solubilities of higher than 0.8 mol dm⁻³ of U(VI) complexes and higher than 0.4 mol dm⁻³ of a U(IV) complex were obtained in the solvents. The electrode reactions of U(pta)₄, UO₂(dpm)₂, UO₂(fod)₂ and UO₂(pta)₂ were first studied and the redox potentials of uranium β-diketonates were thermodynamically discussed. The open circuit voltage is estimated more than 1 V by using Hacac or Hdpm. The larger open circuit voltage is expected when a ligand with the larger basicity is used.     

Effect of Microstructural Control on Thermoelectric Properties of Hot-Pressed Aluminum-Doped Zinc Oxide

The thermal conductivity of polycrystalline Al-doped ZnO was controlled through the fabrication of nanostructured polycrystalline materials, by hot-pressing nanosized Zn_{1– x} Al _x O ( x = 0.01, 0.02) particles, which were synthesized by a coprecipitation and spray-drying method. This process resulted in an improved thermoelectric power factor because of the nanosized Zn_0.99Al_0.01O particles of the polycrystalline products. The thermal conductivity also was decreased as a result of the formation of nanocrystalline Zn_0.99Al_0.01O.