A eubacterial origin for the human tRNA nucleotidyltransferase?

tRNA CCA-termini are generated and maintained by tRNA nucleotidyltransferases. Together with poly(A) polymerases and other enzymes they belong to the nucleotidyltransferase superfamily. However, sequence alignments within this family do not allow to distinguish between CCA-adding enzymes and poly(A) polymerases. Furthermore, due to the lack of sequence information about animal CCA-adding enzymes, identification of corresponding animal genes was not possible so far. Therefore, we looked for the human homolog using the baker's yeast tRNA nucleotidyltransferase as a query sequence in a BLAST search. This revealed that the human gene transcript CGI-47, (\#AF151805) deposited in GenBank is likely to encode such an enzyme. To identify the nature of this protein, the cDNA of the transcript was cloned and the recombinant protein biochemically characterized, indicating that CGI-47 encodes a bona fide CCA-adding enzyme and not a poly(A) polymerase. This confirmed animal CCA-adding enzyme allowed us to identify putative homologs from other animals. Calculation of a neighbor-joining tree, using an alignment of several CCA-adding enzymes, revealed that the animal enzymes resemble more eubacterial ones than eukaryotic plant and fungal tRNA nucleotidyltransferases, suggesting that the animal nuclear cca genes might have been derived from the endosymbiotic progenitor of mitochondria and are therefore of eubacterial origin

Scaling of global input–output networks

Examining scaling patterns of networks can help understand how structural features relate to the behavior of the networks. Input–output networks consist of industries as nodes and inter-industrial exchanges of products as links. Previous studies consider limited measures for node strengths and link weights, and also ignore the impact of dataset choice. We consider a comprehensive set of indicators in this study that are important in economic analysis, and also examine the impact of dataset choice, by studying input–output networks in individual countries and the entire world. Results show that Burr, Log-Logistic, Log-normal, and Weibull distributions can better describe scaling patterns of global input–output networks. We also find that dataset choice has limited impacts on the observed scaling patterns. Our findings can help examine the quality of economic statistics, estimate missing data in economic statistics, and identify key nodes and links in input–output networks to support economic policymaking

Analysis of Harvesting Energy from Mistuned Multiple Harvesters with and without Coupling

AbstractEnergy harvesting has received a lot of attention in the recent past. At present a single device does not harvested energy enough to power up an electronic sensors. In order to increase the power output multiple identical harvesters are used. When multiple harvesters are used, they bring in non-uniformity in their physical parameters due to variability during manufacturing or even during deployment. Therefore, ‘n’ numbers of harvesters do not necessary produce ‘n’ times the harvested power of a single device. The variability in parameters is less enough to be coined as mistuning. In this paper, an analysis of multiple energy harvesters is studied. The harvesters are assumed to show mistuning. The study is further extended to understand the effect of mechanical coupling between the harvesters. For simplification, pendulums are considered as the harvesters, with magnetic tip masses for the electromagnetic energy harvesting. Mistuning is achieved by varying the length of the pendulums. A generalized mathematical model for n coupled harvesters with mistuning is developed. Simulations are performed with the number of harvesters varying from 2 to 6 with ±1% non-repetitive mistuning in the lengths of the harvesters, and a comparison of the power harvested between mechanically coupled and uncoupled harvesters is presented

Quantum trajectory approach to stochastically-induced quantum interference effects in coherently-driven two-level atoms

Stochastic perturbation of two-level atoms strongly driven by a coherent light field is analyzed by the quantum trajectory method. A new method is developed for calculating the resonance fluorescence spectra from numerical simulations. It is shown that in the case of dominant incoherent perturbation, the stochastic noise can unexpectedly create phase correlation between the neighboring atomic dressed states. This phase correlation is responsible for quantum interference between the related transitions resulting in anomalous modifications of the resonance fluorescence spectra.Comment: paper accepted for publicatio

SiMon: Simulation Monitor for Computational Astrophysics

Scientific discovery via numerical simulations is important in modern astrophysics. This relatively new branch of astrophysics has become possible due to the development of reliable numerical algorithms and the high performance of modern computing technologies. These enable the analysis of large collections of observational data and the acquisition of new data via simulations at unprecedented accuracy and resolution. Ideally, simulations run until they reach some pre-determined termination condition, but often other factors cause extensive numerical approaches to break down at an earlier stage. In those cases, processes tend to be interrupted due to unexpected events in the software or the hardware. In those cases, the scientist handles the interrupt manually, which is time-consuming and prone to errors. We present the Simulation Monitor (SiMon) to automatize the farming of large and extensive simulation processes. Our method is light-weight, it fully automates the entire workflow management, operates concurrently across multiple platforms and can be installed in user space. Inspired by the process of crop farming, we perceive each simulation as a crop in the field and running simulation becomes analogous to growing crops. With the development of SiMon we relax the technical aspects of simulation management. The initial package was developed for extensive parameter searchers in numerical simulations, but it turns out to work equally well for automating the computational processing and reduction of observational data reduction.Computational astrophysic

Calculations on the Size Effects of Raman Intensities of Silicon Quantum Dots

Raman intensities of Si quantum dots (QDs) with up to 11,489 atoms (about 7.6 nm in diameter) for different scattering configurations are calculated. First, phonon modes in these QDs, including all vibration frequencies and vibration amplitudes, are calculated directly from the lattice dynamic matrix by using a microscopic valence force field model combined with the group theory. Then the Raman intensities of these quantum dots are calculated by using a bond-polarizability approximation. The size effects of the Raman intensity in these QDs are discussed in detail based on these calculations. The calculations are compared with the available experimental observation. We are expecting that our calculations can further stimulate more experimental measurements.Comment: 21 pages, 7 figure

First study of radiation hardness of lead tungstate crystals at low temperatures

The electromagnetic calorimeter of PANDA at the FAIR facility will rely on an operation of lead tungstate (PWO) scintillation crystals at temperatures near -25 deg.C to provide sufficient resolution for photons in the energy range from 8 GeV down to 10 MeV. Radiation hardness of PWO crystals was studied at the IHEP (Protvino) irradiation facility in the temperature range from room temperature down to -25 deg.C. These studies have indicated a significantly different behaviour in the time evolution of the damaging processes well below room temperature. Different signal loss levels at the same dose rate, but at different temperatures were observed. The effect of a deep suppression of the crystal recovery process at temperatures below 0 deg.C has been seen.Comment: 10 pages 7 figure

Collective atomic scattering and motional effects in a dense coherent medium

We investigate collective emission from coherently driven ultracold 88Sr atoms. We perform two sets of experiments using a strong and weak transition that are insensitive and sensitive, respectively, to atomic motion at 1 μK. We observe highly directional forward emission with a peak intensity that is enhanced, for the strong transition, by >103 compared with that in the transverse direction. This is accompanied by substantial broadening of spectral lines. For the weak transition, the forward enhancement is substantially reduced due to motion. Meanwhile, a density-dependent frequency shift of the weak transition (∼10% of the natural linewidth) is observed. In contrast, this shift is suppressed to <1% of the natural linewidth for the strong transition. Along the transverse direction, we observe strong polarization dependences of the fluorescence intensity and line broadening for both transitions. The measurements are reproduced with a theoretical model treating the atoms as coherent, interacting radiating dipoles

Don't Forget to Measure Δs\Delta s

This talk explores our lack of knowledge of the strange quark contribution to the nucleon spin, $\Delta s$. Data on $\Delta s$ from inclusive and semi-inclusive polarized deep-inelastic scattering will be reviewed, followed by a discussion of how the ongoing program of parity-violating elastic electron-nucleon scattering experiments, that seek out the strange electromagnetic form factors of the nucleon, need to have an estimate for the strange axial form factor to carry out that program, and how the value of $\Delta s$ extracted from the DIS experiments has filled that role. It is shown that elastic $\nu p$, $\bar{\nu} p$, and parity-violating $\vec{e}p$ data can be combined to extract the strange electric, magnetic $and$ axial form factors simultaneously. A proposed experiment that could address this important issue if briefly previewed.Comment: 4 pages, to appear in proceedings in PAVI04, Eur. Jour. Phy

Searching for fast extragalactic X-ray transients in Chandra surveys

High Energy Astrophysic