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  • 1
    Publication Date: 2015-11-26
    Description: Dihydrouridine (D) is formed by tRNA dihydrouridine synthases (Dus). In mesophiles, multiple Dus enzymes bring about D modifications at several positions in tRNA. The extreme-thermophilic eubacterium Thermus thermophilus , in contrast, has only one dus gene in its genome and only two D modifications (D20 and D20a) in tRNA have been identified. Until now, an in vitro assay system for eubacterial Dus has not been reported. In this study, therefore, we constructed an in vitro assay system using purified Dus. Recombinant T. thermophilus Dus lacking bound tRNA was successfully purified. The in vitro assay revealed that no other factors in living cells were required for D formation. A dus gene disruptant ( dus ) strain of T. thermophilus verified that the two D20 and D20a modifications in tRNA were derived from one Dus protein. The dus strain did not show growth retardation at any temperature. The assay system showed that Dus modified tRNA Phe transcript at 60°C, demonstrating that other modifications in tRNA are not essential for Dus activity. However, a comparison of the formation of D in native tRNA Phe purified from the dus strain and tRNA Phe transcript revealed that other tRNA modifications are required for D formation at high temperatures.
    Print ISSN: 0021-924X
    Electronic ISSN: 1756-2651
    Topics: Biology , Chemistry and Pharmacology
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  • 2
    Publication Date: 2015-12-25
    Description: Energetics of nuclear reaction is fundamentally important to understand the mechanism of pair instability supernovae (PISNe). Based on the hydrodynamic equations and thermodynamic relations, we derive exact expressions for energy conservation suitable to be solved in simulation. We also show that some formulae commonly used in the literature are obtained as approximations of the exact expressions. We simulate the evolution of very massive stars of ~100–320 M with zero- and 1/10 Z , and calculate further explosions as PISNe, applying each of the exact and approximate formulae. The calculations demonstrate that the explosion properties of PISN, such as the mass range, the 56 Ni yield, and the explosion energy, are significantly affected by applying the different energy generation rates. We discuss how these results affect the estimate of the PISN detection rate, which depends on the theoretical predictions of such explosion properties.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 3
    Publication Date: 2015-08-30
    Description: A 40-kDa lectin with N -acetyl- d -glucosamine-binding ability was purified from the sera of fugu ( Takifugu rubripes ) by affinity chromatography and subsequent gel filtration. N-terminal amino acid sequencing, in silico cloning using the fugu genome database and cDNA cloning demonstrated that this lectin is a homologue of kalliklectin, a novel lectin that was previously found in the flathead teleost Platycephalus indicus and has structural similarity to mammalian plasma kallikreins and coagulation factor XI. This is the second report of a kalliklectin, but the fugu kalliklectin differs in its sugar-binding spectra, intersubunit association and tissue distribution from the previously identified flathead kalliklectin. These findings indicate that kalliklectins vary in properties among fish species.
    Print ISSN: 0021-924X
    Electronic ISSN: 1756-2651
    Topics: Biology , Chemistry and Pharmacology
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  • 4
    Publication Date: 2015-10-19
    Description: We study explosion characteristics of ultra-stripped supernovae (SNe), which are candidates of SNe generating binary neutron stars (NSs). As a first step, we perform stellar evolutionary simulations of bare carbon–oxygen cores of mass from 1.45 to 2.0 M until the iron cores become unstable and start collapsing. We then perform axisymmetric hydrodynamics simulations with spectral neutrino transport using these stellar evolution outcomes as initial conditions. All models exhibit successful explosions driven by neutrino heating. The diagnostic explosion energy, ejecta mass, Ni mass, and NS mass are typically ~10 50  erg, ~0.1 M , ~0.01 M , and 1.3 M , which are compatible with observations of rapidly evolving and luminous transient such as SN 2005ek. We also find that the ultra-stripped SN is a candidate for producing the secondary low-mass NS in the observed compact binary NSs like PSR J0737–3039.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 5
    Publication Date: 2016-06-01
    Description: Pxt peptides (Pxt-1 through Pxt-12) have been isolated from amphibian, Xenopus tropicalis . Pxt-related peptides (Pxt-2, Pxt-5, Pxt-12, reverse Pxt-2, reverse Pxt-5 and reverse Pxt-12) with significant foaming properties were further characterized. In the physicochemical experiments, all Pxt-related peptides formed significant amphiphilic α-helices in 50% 2,2,2-trifluoroethanol by circular dichroism measurements. Among Pxt-related peptides, both Pxt-5 and reverse Pxt-5 were the most effective in reducing their surface tensions. Moreover, Pxt-2, Pxt-5 and reverse Pxt-5 produced constant surface tensions above their critical association concentrations, suggesting the micelle-like assemblies. In the biological experiments, Pxt-5 possessed the most potent hemolytic activity, while reverse Pxt-5 exhibited the most remarkable gene expression of interleukin 8 and heme oxygenase 1 and the most potent cytotoxicity in HaCaT cells. In contrast, Pxt-12 and reverse Pxt-12 were much weaker in antimicrobial assays for Gram-negative bacteria, Gram-positive bacteria and yeasts, as well as in hemolytic, cell viability and cytotoxicity assays in HaCaT cells. All Pxt-related peptides exhibited about 20–50% of the total cellular histamine release at 10 –5 M, as well as mastoparan and melittin in mast cells. Real-time polymerase chain reaction analysis confirmed the gene expressions of Pxt-5 in testis and Pxt-12 in muscle, in addition to skin, while Pxt-2 was only in skin.
    Print ISSN: 0021-924X
    Electronic ISSN: 1756-2651
    Topics: Biology , Chemistry and Pharmacology
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  • 6
    Publication Date: 2016-01-22
    Description: Massive stars having a CO core of ~40–60 M experience pulsational pair-instability (PPI) after carbon-burning. This instability induces strong pulsations of the whole star and a part of outer envelope is ejected. We investigate the evolution and mass ejection of metal-poor very massive stars which experience PPI. We use stellar models with initial masses of 140, 200, and 250 M and the metallicity Z = 0.004. Their masses decrease to 54.09, 58.65, and 61.03 M before the neon-burning owing to mass-loss and He mass fraction at the surface becomes about 20 per cent. During the PPI period of ~1–2000 yr, they experience six, four, and three pulsations, respectively. The larger CO-core model has the longer PPI period and ejects the larger amount of mass. Since almost all surface He has been lost by the pulsations, these stars become Type Ic supernovae if they explode. Light curves during the PPI stage and supernovae are investigated and are implicated in luminous supernovae. The luminosity created by the interaction of different PPI ejecta becomes M bol ~ –16 to –20. The interaction between the circumstellar shell ejected by PPI and the supernova ejecta can be more luminous. These luminous transients could be an origin of Type I superluminous supernovae and supernovae with precursor.
    Print ISSN: 0035-8711
    Electronic ISSN: 1365-2966
    Topics: Physics
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  • 7
    Publication Date: 2015-03-11
    Description: We describe the bifurcation diagrams of plane-to-plane map-germs of corank 2 up to A e -codimension 4, and draw some new pictures. Two applications are presented: First, we study the affine differential geometry of crosscaps in 3-space by means of analyzing singularities of projections of the singular surface to the plane. Secondly, we give some new examples of generic two-dimensional bifurcations of D 4 + -type planar caustics.
    Print ISSN: 0033-5606
    Electronic ISSN: 1464-3847
    Topics: Mathematics
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