Identification of distinct SET/TAF-Iβ domains required for core histone binding and quantitative characterisation of the interaction

<p>Abstract</p> <p>Background</p> <p>The assembly of nucleosomes to higher-order chromatin structures is finely tuned by the relative affinities of histones for chaperones and nucleosomal binding sites. The myeloid leukaemia protein SET/TAF-Iβ belongs to the NAP1 family of histone chaperones and participates in several chromatin-based mechanisms, such as chromatin assembly, nucleosome reorganisation and transcriptional activation. To better understand the histone chaperone function of SET/TAF-Iβ, we designed several SET/TAF-Iβ truncations, examined their structural integrity by circular Dichroism and assessed qualitatively and quantitatively the histone binding properties of wild-type protein and mutant forms using GST-pull down experiments and fluorescence spectroscopy-based binding assays.</p> <p>Results</p> <p>Wild type SET/TAF-Iβ binds to histones H2B and H3 with K_dvalues of 2.87 and 0.15 μM, respectively. The preferential binding of SET/TAF-Iβ to histone H3 is mediated by its central region and the globular part of H3. On the contrary, the acidic C-terminal tail and the amino-terminal dimerisation domain of SET/TAF-Iβ, as well as the H3 amino-terminal tail, are dispensable for this interaction.</p> <p>Conclusion</p> <p>This type of analysis allowed us to assess the relative affinities of SET/TAF-Iβ for different histones and identify the domains of the protein required for effective histone recognition. Our findings are consistent with recent structural studies of SET/TAF-Iβ and can be valuable to understand the role of SET/TAF-Iβ in chromatin function.</p

The beamformer and correlator for the Large European Array for Pulsars

The Large European Array for Pulsars combines Europe's largest radio telescopes to form a tied-array telescope that provides high signal-to-noise observations of millisecond pulsars (MSPs) with the objective to increase the sensitivity of detecting low-frequency gravitational waves. As part of this endeavor we have developed a software correlator and beamformer which enables the formation of a tied-array beam from the raw voltages from each of telescopes. We explain the concepts and techniques involved in the process of adding the raw voltages coherently. We further present the software processing pipeline that is specifically designed to deal with data from widely spaced, inhomogeneous radio telescopes and describe the steps involved in preparing, correlating and creating the tied-array beam. This includes polarization calibration, bandpass correction, frequency dependent phase correction, interference mitigation and pulsar gating. A link is provided where the software can be obtained.Comment: 10 pages, 6 figures, accepted for publication in Astronomy and Computin

LOFAR discovery of the fastest-spinning millisecond pulsar in the Galactic field

We report the discovery of PSR J0952$-$0607, a 707-Hz binary millisecond pulsar which is now the fastest-spinning neutron star known in the Galactic field (i.e., outside of a globular cluster). PSR J0952$-$0607 was found using LOFAR at a central observing frequency of 135 MHz, well below the 300 MHz to 3 GHz frequencies typically used in pulsar searches. The discovery is part of an ongoing LOFAR survey targeting unassociated Fermi Large Area Telescope $\gamma$-ray sources. PSR J0952$-$0607 is in a 6.42-hr orbit around a very low-mass companion ($M_\mathrm{c}\gtrsim0.02$ M$_\odot$) and we identify a strongly variable optical source, modulated at the orbital period of the pulsar, as the binary companion. The light curve of the companion varies by 1.6 mag from $r^\prime=22.2$ at maximum to $r^\prime>23.8$, indicating that it is irradiated by the pulsar wind. Swift observations place a 3-$\sigma$ upper limit on the $0.3-10$ keV X-ray luminosity of $L_X < 1.1 \times 10^{31}$ erg s$^{-1}$ (using the 0.97 kpc distance inferred from the dispersion measure). Though no eclipses of the radio pulsar are observed, the properties of the system classify it as a black widow binary. The radio pulsed spectrum of PSR J0952$-$0607, as determined through flux density measurements at 150 and 350 MHz, is extremely steep with $\alpha\sim-3$ (where $S \propto \nu^{\alpha}$). We discuss the growing evidence that the fastest-spinning radio pulsars have exceptionally steep radio spectra, as well as the prospects for finding more sources like PSR J0952$-$0607.Comment: 9 pages, 3 figures, 1 table, published in ApJ letter

Gravitational wave astronomy with the SKA

On a time scale of years to decades, gravitational wave (GW) astronomy will become a reality. Low frequency (nanoHz) GWs are detectable through long-term timing observations of the most stable pulsars. Radio observatories worldwide are currently carrying out observing programmes to detect GWs, with data sets being shared through the International Pulsar Timing Array project. One of the most likely sources of low frequency GWs are supermassive black hole binaries (SMBHBs), detectable as a background due to a large number of binaries, or as continuous or burst emission from individual sources. No GW signal has yet been detected, but stringent constraints are already being placed on galaxy evolution models. The SKA will bring this research to fruition. In this chapter, we describe how timing observations using SKA1 will contribute to detecting GWs, or can confirm a detection if a first signal already has been identified when SKA1 commences observations. We describe how SKA observations will identify the source(s) of a GW signal, search for anisotropies in the background, improve models of galaxy evolution, test theories of gravity, and characterise the early inspiral phase of a SMBHB system. We describe the impact of the large number of millisecond pulsars to be discovered by the SKA; and the observing cadence, observation durations, and instrumentation required to reach the necessary sensitivity. We describe the noise processes that will influence the achievable precision with the SKA. We assume a long-term timing programme using the SKA1-MID array and consider the implications of modifications to the current design. We describe the possible benefits from observations using SKA1-LOW. Finally, we describe GW detection prospects with SKA1 and SKA2, and end with a description of the expectations of GW astronomy.Comment: 19 pages, 3 figures, to be published in: "Advancing Astrophysics with the Square Kilometre Array", Proceedings of Science, PoS(AASKA14)03

Quasi-simultaneous Radio/X-Ray Observations of the Candidate Transitional Millisecond Pulsar 3FGL J1544.6-1125 during its Low-luminosity Accretion-disk State

3FGL J1544.6-1125 is a candidate transitional millisecond pulsar (tMSP). Similar to the well-established tMSPs - PSR J1023+0038, IGR J18245-2452, and XSS J12270-4859 -- 3FGL J1544.6-1125 shows $\gamma$-ray emission and discrete X-ray "low" and "high" modes during its low-luminosity accretion-disk state. Coordinated radio/X-ray observations of PSR J1023+0038 in its current low-luminosity accretion-disk state showed rapidly variable radio continuum emission-possibly originating from a compact, self-absorbed jet, the "propellering" of accretion material, and/or pulsar moding. 3FGL J1544.6-1125 is currently the only other (candidate) tMSP system in this state, and can be studied to see whether tMSPs are typically radio-loud compared to other neutron star binaries. In this work, we present a quasi-simultaneous Very Large Array and Swift radio/X-ray campaign on 3FGL J1544.6-1125. We detect 10 GHz radio emission varying in flux density from $47.7 \pm 6.0$ $\mu$Jy down to $\sim$15 $\mu$Jy (3$\sigma$ upper limit) at four epochs spanning three weeks. At the brightest epoch, the radio luminosity is $L_{5 GHz}$ $= (2.17 \pm 0.17) \times 10^{27}$ erg s$^{-1}$ for a quasi-simultaneous X-ray luminosity $L_{2-10 keV}$ $= (4.32 \pm 0.23) \times 10^{33}$ erg s$^{-1}$ (for an assumed distance of 3.8 kpc). These luminosities are close to those of PSR J1023+0038, and the results strengthen the case that 3FGL J1544.6-1125 is a tMSP showing similar phenomenology to PSR J1023+0038.Comment: Accepted for publication in the Astrophysical Journa

The noise properties of 42 millisecond pulsars from the European Pulsar Timing Array and their impact on gravitational wave searches

The sensitivity of Pulsar Timing Arrays to gravitational waves depends on the noise present in the individual pulsar timing data. Noise may be either intrinsic or extrinsic to the pulsar. Intrinsic sources of noise will include rotational instabilities, for example. Extrinsic sources of noise include contributions from physical processes which are not sufficiently well modelled, for example, dispersion and scattering effects, analysis errors and instrumental instabilities. We present the results from a noise analysis for 42 millisecond pulsars (MSPs) observed with the European Pulsar Timing Array. For characterising the low-frequency, stochastic and achromatic noise component, or "timing noise", we employ two methods, based on Bayesian and frequentist statistics. For 25 MSPs, we achieve statistically significant measurements of their timing noise parameters and find that the two methods give consistent results. For the remaining 17 MSPs, we place upper limits on the timing noise amplitude at the 95% confidence level. We additionally place an upper limit on the contribution to the pulsar noise budget from errors in the reference terrestrial time standards (below 1%), and we find evidence for a noise component which is present only in the data of one of the four used telescopes. Finally, we estimate that the timing noise of individual pulsars reduces the sensitivity of this data set to an isotropic, stochastic GW background by a factor of >9.1 and by a factor of >2.3 for continuous GWs from resolvable, inspiralling supermassive black-hole binaries with circular orbits.Comment: Accepted for publication by the Monthly Notices of the Royal Astronomical Societ

The international pulsar timing array project: using pulsars as a gravitational wave detector

The International Pulsar Timing Array project combines observations of pulsars from both Northern and Southern hemisphere observatories with the main aim of detecting ultra-low frequency (~10^-9 to 10^-8 Hz) gravitational waves. Here we introduce the project, review the methods used to search for gravitational waves emitted from coalescing supermassive binary black-hole systems in the centres of merging galaxies and discuss the status of the project.Comment: accepted by Classical and Quantum Gravity. Review talk for the Amaldi8 conference serie