The importance of Poly(ADP-Ribose) Polymerase as a sensor of unligated Okazaki fragments during DNA replication

Poly(ADP-ribose) is synthesized by PARP enzymes during the repair of stochastic DNA breaks. Surprisingly, however, we show that most if not all endogenous poly(ADP-ribose) is detected in normal S phase cells at sites of DNA replication. This S phase poly(ADP-ribose) does not result from damaged or misincorporated nucleotides or from DNA replication stress. Rather, perturbation of the DNA replication proteins LIG1 or FEN1 increases S phase poly(ADP-ribose) more than 10-fold, implicating unligated Okazaki fragments as the source of S phase PARP activity. Indeed, S phase PARP activity is ablated by suppressing Okazaki fragment formation with emetine, a DNA replication inhibitor that selectively inhibits lagging strand synthesis. Importantly, PARP activation during DNA replication recruits the single-strand break repair protein XRCC1, and human cells lacking PARP activity and/or XRCC1 are hypersensitive to FEN1 perturbation. Collectively, our data indicate that PARP1 is a sensor of unligated Okazaki fragments during DNA replication and facilitates their repair

Differential cross sections for muonic atom scattering in solid hydrogenic targets

The differential cross sections for low-energy muonic hydrogen atom scattering in solid molecular H$_2$, D$_2$ and T$_2$ targets under low pressure have been calculated for various temperatures. The polycrystalline fcc and hcp structure of the solid hydrogenic targets are considered. The Bragg and phonon scattering processes are described using the Debye model of a solid. The calculated cross sections are used for Monte Carlo simulations of the muonic atom slowing down in these targets. They have been successfully applied for a description of the production of the muonic atom beams in the multilayer hydrogenic crystals.Comment: 23 pages, 19 figures, 2 table

The explanation of unexpected temperature dependence of the muon catalysis in solid deuterium

It is shown that due to the smallness of the inelastic cross-section of the $d\mu$-atoms scattering in the crystal lattice at sufficiently low temperatures the $dd\mu$-mesomolecules formation from the upper state of the hyperfine structure $d\mu (F=3/2)$ starts earlier than the mesoatoms thermolization. It explains an approximate constancy of the $dd\mu$-mesomolecule formation rate in solid deuterium.Comment: 6 pages, 2 jpeg-figure

Merging Galaxies in the SDSS EDR

We present a new catalog of merging galaxies obtained through an automated systematic search routine. The 1479 new pairs of merging galaxies were found in approximately 462 sq deg of the Sloan Digital Sky Survey Early Data Release (SDSS EDR; Stoughton et al. 2002) photometric data, and the pair catalog is complete for galaxies in the magnitude range 16.0 <= g* <= 20. The selection algorithm, implementing a variation on the original Karachentsev (1972) criteria, proved to be very efficient and fast. Merging galaxies were selected such that the inter-galaxy separations were less than the sum of the component galaxies' radii. We discuss the characteristics of the sample in terms of completeness, pair separation, and the Holmberg effect. We also present an online atlas of images for the SDSS EDR pairs obtained using the corrected frames from the SDSS EDR database. The atlas images also include the relevant data for each pair member. This catalog will be useful for conducting studies of the general characteristics of merging galaxies, their environments, and their component galaxies. The redshifts for a subset of the interacting and merging galaxies and the distribution of angular sizes for these systems indicate the SDSS provides a much deeper sample than almost any other wide-area catalog to date.Comment: 58 pages, which includes 15 figures and 6 tables. Figures 2, 8, 9, 10, 11, 13, and 14 are provided as JPEG files. For online atlas, see http://home.fnal.gov/~sallam/MergePair/ . Accepted for publication in A

MadGraph/MadEvent v4: The New Web Generation

We present the latest developments of the MadGraph/MadEvent Monte Carlo event generator and several applications to hadron collider physics. In the current version events at the parton, hadron and detector level can be generated directly from a web interface, for arbitrary processes in the Standard Model and in several physics scenarios beyond it (HEFT, MSSM, 2HDM). The most important additions are: a new framework for implementing user-defined new physics models; a standalone running mode for creating and testing matrix elements; generation of events corresponding to different processes, such as signal(s) and backgrounds, in the same run; two platforms for data analysis, where events are accessible at the parton, hadron and detector level; and the generation of inclusive multi-jet samples by combining parton-level events with parton showers. To illustrate the new capabilities of the package some applications to hadron collider physics are presented: 1) Higgs search in pp \to H \to W^+W^-: signal and backgrounds. 2) Higgs CP properties: pp \to H jj$in the HEFT. 3) Spin of a new resonance from lepton angular distributions. 4) Single-top and Higgs associated production in a generic 2HDM. 5) Comparison of strong SUSY pair production at the SPS points. 6) Inclusive W+jets matched samples: comparison with the Tevatron data.Comment: 38 pages, 15 figure

Search for the Radiative Capture d+d->^4He+\gamma Reaction from the dd\mu Muonic Molecule State

A search for the muon catalyzed fusion reaction dd --> ^4He +\gamma in the dd\mu muonic molecule was performed using the experimental \mu CF installation TRITON and NaI(Tl) detectors for \gamma-quanta. The high pressure target filled with deuterium at temperatures from 85 K to 800 K was exposed to the negative muon beam of the JINR phasotron to detect \gamma-quanta with energy 23.8 MeV. The first experimental estimation for the yield of the radiative deuteron capture from the dd\mu state J=1 was obtained at the level n_{\gamma}\leq 2\times 10^{-5} per one fusion.Comment: 9 pages, 3 Postscript figures, submitted to Phys. At. Nuc

Resonant Andreev reflections in superconductor-carbon-nanotube devices

Resonant Andreev reflection through superconductor-carbon-nanotube devices was investigated theoretically with a focus on the superconducting proximity effect. Consistent with a recent experiment, we find that for high transparency devices on-resonance, the Andreev current is characterized by a large value and a resistance dip; low-transparency off-resonance devices give the opposite result. We also give evidence that the observed low-temperature transport anomaly may be a natural result of Andreev reflection process

Mixed Morphology Pairs as a Breeding Ground for Active Nuclei

Mixed morphology pairs offer a simplification of the interaction equation that involves a gas-rich fast rotator paired with a gas-poor slow rotator. In past low resolution IRAS studies it was assumed that the bulk of the far infrared emission originated in the spiral component. However our ISO studies revealed a surprising number of early-type components with significant IR emission some of which turned out to show active nuclei. This motivated us to look at the current statistics of active nuclei in mixed pairs using the FIR-radio continuum correlation as a diagnostic. We find a clear excess of early-type components with radio continuum emission and an active nucleus. We suggest that they arise more often in mixed pairs via cross fueling of gas from the spiral companion. This fuel is more efficiently channeled into the nucleus of the slow rotating receptor. In a sample of 112 mixed-morphology pairs from the Karachentsev catalog we find that about 25-30% of detected mixed pairs show a displacement from the radio-FIR relation defined by normal star forming galaxies. The latter objects show excess radio continuum emission while others extend the relation to unusually high radio and FIR flux levels. Many of the outliers/extreme emitters involve an early-type component with an active nucleus. The paired E/S0 galaxies in the sample exhibit a significant excess detection fraction and a marginal excess luminosity distribution compared to isolated unpaired E/S0 galaxies.Comment: 3 figure

Control of glycolytic dynamics by hexose transport in Saccharomyces cerevisiae

AbstractIt is becoming accepted that steady-state fluxes are not necessarily controlled by single rate-limiting steps. This leaves open the issue whether cellular dynamics are controlled by single pacemaker enzymes, as has often been proposed. This paper shows that yeast sugar transport has substantial but not complete control of the frequency of glycolytic oscillations. Addition of maltose, a competitive inhibitor of glucose transport, reduced both average glucose consumption flux and frequency of glycolytic oscillations. Assuming a single kinetic component and a symmetrical carrier, a frequency control coefficient of between 0.4 and 0.6 and an average-flux control coefficient of between 0.6 and 0.9 were calculated for hexose transport activity. In a second approach, mannose was used as the carbon and free-energy source, and the dependencies on the extracellular mannose concentration of the transport activity, of the frequency of oscillations, and of the average flux were compared. In this case the frequency control coefficient and the average-flux control coefficient of hexose transport activity amounted to 0.7 and 0.9, respectively. From these results, we conclude that 1) transport is highly important for the dynamics of glycolysis, 2) most but not all control resides in glucose transport, and 3) there should at least be one step other than transport with substantial control

X-ray emission from the Sombrero galaxy: discrete sources

We present a study of discrete X-ray sources in and around the bulge-dominated, massive Sa galaxy, Sombrero (M104), based on new and archival Chandra observations with a total exposure of ~200 ks. With a detection limit of L_X = 1E37 erg/s and a field of view covering a galactocentric radius of ~30 kpc (11.5 arcminute), 383 sources are detected. Cross-correlation with Spitler et al.'s catalogue of Sombrero globular clusters (GCs) identified from HST/ACS observations reveals 41 X-rays sources in GCs, presumably low-mass X-ray binaries (LMXBs). We quantify the differential luminosity functions (LFs) for both the detected GC and field LMXBs, whose power-low indices (~1.1 for the GC-LF and ~1.6 for field-LF) are consistent with previous studies for elliptical galaxies. With precise sky positions of the GCs without a detected X-ray source, we further quantify, through a fluctuation analysis, the GC LF at fainter luminosities down to 1E35 erg/s. The derived index rules out a faint-end slope flatter than 1.1 at a 2 sigma significance, contrary to recent findings in several elliptical galaxies and the bulge of M31. On the other hand, the 2-6 keV unresolved emission places a tight constraint on the field LF, implying a flattened index of ~1.0 below 1E37 erg/s. We also detect 101 sources in the halo of Sombrero. The presence of these sources cannot be interpreted as galactic LMXBs whose spatial distribution empirically follows the starlight. Their number is also higher than the expected number of cosmic AGNs (52+/-11 [1 sigma]) whose surface density is constrained by deep X-ray surveys. We suggest that either the cosmic X-ray background is unusually high in the direction of Sombrero, or a distinct population of X-ray sources is present in the halo of Sombrero.Comment: 11 figures, 5 tables, ApJ in pres