NIR and optical observations of the failed outbursts of black hole binary XTE J1550-564

A number of low mass X-ray binaries (LMXBs) undergo "failed outbursts" in which, instead of evolving through the canonical states, they remain in a hard state throughout the outburst. While the sources of X-ray and radio emission in the hard state are relatively well understood, the origin of the near infrared (NIR) and optical emission is more complex though it likely stems from an amalgam of different emission processes, occurring as it does, at the intersecting wavelengths of those processes. We aim to identify the NIR/optical emission region(s) during a number of failed outbursts of one such low mass X-ray binary and black hole candidate, XTE J1550-564, in order to confirm or refute their classification as hard-state, failed outbursts. We present unique NIR/optical images and spectra, obtained with the ESO-New Technology Telescope, during the failed outbursts of 2001 and 2000. We compare the NIR/optical photometric, timing, and spectral properties with those expected for the different emission mechanisms in the various LMXB states. The NIR/optical data are consistent with having come from reprocessing of X-rays in the accretion disk, with no evidence of direct thermal emission from the disk itself. However, the observed variability in high-cadence NIR light curves suggest that the radio jet extends and contributes to the NIR wavelengths. We find that these failed outbursts did not transition to an intermediate state but remained in a true, hard state where there was no sign of jet quenching or deviation from the observed hard state correlations.Comment: Accepted to Astronomy & Astrophysics (8 pages

A third HI 21-cm absorption system in the sight-line of MG J0414+0534: A redshift for Object X?

We report the detection of a third HI 21-cm absorber in the sight-line towards the z=2.64 quasar MG J0414+0534 (4C +05.19). In addition to the absorption at the host redshift and in the z=0.96 gravitational lens, we find, through a decimetre-wave spectral scan towards this source, strong absorption at z=0.38. We believe this may be associated with "Object X", an additional feature apparent in the field of the lensing galaxy and lensed images, on the basis of its close proximity to the quasar images and the possible detection of the [OIII] doublet in a published optical spectrum. If real, the strength of the [OIII] emission would suggest the presence of an active galactic nucleus, or a gas-rich galaxy undergoing rapid star formation, either of which is consistent with the strong outflows apparent in the 21-cm spectrum. Although this is the strongest intervening 21-cm absorber yet found, simultaneous observations failed to detect any of the 18-cm OH lines at the 21-cm redshift. This suggests that, as for the lensing galaxy, this is not the primary location of the intervening material responsible for the very red colour of MG J0414+0534.Comment: 5 pages, accepted by MNRAS Letter

CN and HNC Line Emission in IR Luminous Galaxies

We have observed HNC 1-0, CN 1-0 and 2-1 line emission in a sample of 13 IR luminous (LIRGs, L_IR > 10E11 Lo) starburst and Seyfert galaxies. HNC 1-0 is detected in 9, CN 1-0 is detected in 10 and CN 2-1 in 7 of the galaxies. We also report the first detection of HC3N (10-9) emission in Arp220. The excitation of HNC and CN emission requires densities n > 10E4 cm-3. We compare their intensities to that of the usual high density tracer HCN. The I(HCN)/I(HNC}) and I(HCN)/I(CN) 1-0 line intensity ratios vary significantly, from 0.5 to >6, among the galaxies. This implies that the actual properties of the dense gas is varying among galaxies who otherwise have similar I(CO)/I(HCN) line intensity ratios. We suggest that the HNC emission is not a reliable tracer of cold (10 K) gas at the center of LIRGs, as it often is in the disk of the Milky Way. Instead, the HNC abundance may remain substantial, despite high gas temperatures, because the emission is emerging from regions where the HCN and HNC formation and destruction processes are dominated by ion-neutral reactions which are not strongly dependent on kinetic temperature. We find five galaxies (four AGNs and one starburst) where the I(HCN)/I(HNC) intensity ratio is close to unity. In other AGNs, however, I(HCN)/I(HNC}) is >4. The CN emission is on average a factor of two fainter than HCN, but the variation is large and there seems to be a trend of reduced relative CN luminosity with increasing IR luminosity. One galaxy, NGC3690, has a CN luminosity twice that of HCN and its ISM is thus strongly affected by UV radiation. We discuss the I(HCN)/I(HNC) and I(HCN)/I(CN) line ratios as indicators of starburst evolution.Comment: 12 pages, 4 figures. Accepted for publication in Astronomy and Astrophysic

A search for near infrared counterparts of 3 pulsar wind nebulae

While pulsar wind nebulae (PWNe) and their associated isolated pulsars are commonly detected at X-ray energies, they are much rarer at near infrared (nIR) and optical wavelengths. Here we examine three PWN systems in the Galactic plane - IGR J14003-6326, HESS J1632-478 and IGR J18490-0000 - in a bid to identify optical/nIR emission associated with either the extended PWNe or their previously detected X-ray point sources. We obtain optical/nIR images of the three fields with the ESO - New Technology Telescope and apply standard photometric and astrometric calibrations. We find no evidence of any extended emission associated with the PWNe in any of the fields; neither do we find any new counterparts to the X-ray point sources, except to confirm the magnitude of the previously identified counterpart candidate of IGR J18490-0000. Further observations are required to confirm the association of the nIR source to IGR J18490-0000 and to detect counterparts to IGR J14003-6326 and HESS J1632-478, while a more accurate X-ray position is required to reduce the probability of a chance superposition in the field of the latter.Comment: Accepted to A&A (4 pages, 1 figure

Using 21-cm absorption surveys to measure the average HI spin temperature in distant galaxies

We present a statistical method for measuring the average HI spin temperature in distant galaxies using the expected detection yields from future wide-field 21cm absorption surveys. As a demonstrative case study we consider a simulated all-southern-sky survey of 2-h per pointing with the Australian Square Kilometre Array Pathfinder for intervening HI absorbers at intermediate cosmological redshifts between $z = 0.4$ and $1$. For example, if such a survey yielded $1000$ absorbers we would infer a harmonic-mean spin temperature of $\overline{T}_\mathrm{spin} \sim 100$K for the population of damped Lyman $\alpha$ (DLAs) absorbers at these redshifts, indicating that more than $50$ per cent of the neutral gas in these systems is in a cold neutral medium (CNM). Conversely, a lower yield of only 100 detections would imply $\overline{T}_\mathrm{spin} \sim 1000$K and a CNM fraction less than $10$ per cent. We propose that this method can be used to provide independent verification of the spin temperature evolution reported in recent 21cm surveys of known DLAs at high redshift and for measuring the spin temperature at intermediate redshifts below $z \approx 1.7$, where the Lyman-$\alpha$ line is inaccessible using ground-based observatories. Increasingly more sensitive and larger surveys with the Square Kilometre Array should provide stronger statistical constraints on the average spin temperature. However, these will ultimately be limited by the accuracy to which we can determine the HI column density frequency distribution, the covering factor and the redshift distribution of the background radio source population.Comment: 11 pages, 9 figures, 1 table. Proof corrected versio

A condition-specific codon optimization approach for improved heterologous gene expression in Saccharomyces cerevisiae

All authors are with the Department of Chemical Engineering, The University of Texas at Austin, 200 E Dean Keeton St. Stop C0400, Austin, TX 78712, USA -- Hal S. Alper is with the Institute for Cellular and Molecular Biology, The University of Texas at Austin, 2500 Speedway Avenue, Austin, TX 78712, USA -- Amanda M. Lanza Current Address: Bristol-Myers Squibb, Biologics Development, 35 South Street, Hopkinton, MA 01748, USABackground: Heterologous gene expression is an important tool for synthetic biology that enables metabolic engineering and the production of non-natural biologics in a variety of host organisms. The translational efficiency of heterologous genes can often be improved by optimizing synonymous codon usage to better match the host organism. However, traditional approaches for optimization neglect to take into account many factors known to influence synonymous codon distributions. Results: Here we define an alternative approach for codon optimization that utilizes systems level information and codon context for the condition under which heterologous genes are being expressed. Furthermore, we utilize a probabilistic algorithm to generate multiple variants of a given gene. We demonstrate improved translational efficiency using this condition-specific codon optimization approach with two heterologous genes, the fluorescent protein-encoding eGFP and the catechol 1,2-dioxygenase gene CatA, expressed in S. cerevisiae. For the latter case, optimization for stationary phase production resulted in nearly 2.9-fold improvements over commercial gene optimization algorithms. Conclusions: Codon optimization is now often a standard tool for protein expression, and while a variety of tools and approaches have been developed, they do not guarantee improved performance for all hosts of applications. Here, we suggest an alternative method for condition-specific codon optimization and demonstrate its utility in Saccharomyces cerevisiae as a proof of concept. However, this technique should be applicable to any organism for which gene expression data can be generated and is thus of potential interest for a variety of applications in metabolic and cellular engineering.Chemical EngineeringInstitute for Cellular and Molecular [email protected]

A fourth HI 21-cm absorption system in the sight-line of MG J0414+0534: a record for intervening absorbers

We report the detection of a strong HI 21-cm absorption system at z=0.5344, as well as a candidate system at z=0.3389, in the sight-line towards the z=2.64 quasar MG J0414+0534. This, in addition to the absorption at the host redshift and the other two intervening absorbers, takes the total to four (possibly five). The previous maximum number of 21-cm absorbers detected along a single sight-line is two and so we suspect that this number of gas-rich absorbers is in some way related to the very red colour of the background source. Despite this, no molecular gas (through OH absorption) has yet been detected at any of the 21-cm redshifts, although, from the population of 21-cm absorbers as a whole, there is evidence for a weak correlation between the atomic line strength and the optical--near-infrared colour. In either case, the fact that so many gas-rich galaxies (likely to be damped Lyman-alpha absorption systems) have been found along a single sight-line towards a highly obscured source may have far reaching implications for the population of faint galaxies not detected in optical surveys, a possibility which could be addressed through future wide-field absorption line surveys with the Square Kilometre Array.Comment: Accepted by ApJ Letter

Muon-spin rotation measurements of the vortex state in Sr2_2RuO4_4: type-1.5 superconductivity, vortex clustering and a crossover from a triangular to a square vortex lattice

Muon-spin rotation has been used to probe vortex state in Sr$_2$RuO$_4$. At moderate fields and temperatures a lattice of triangular symmetry is observed, crossing over to a lattice of square symmetry with increasing field and temperature. At lower fields it is found that there are large regions of the sample that are completely free from vortices which grow in volume as the temperature falls. Importantly this is accompanied by {\it increasing} vortex density and increasing disorder within the vortex-cluster containing regions. Both effects are expected to result from the strongly temperature-dependent long-range vortex attractive forces arising from the multi-band chiral-order superconductivity.Comment: 13 pages, 4 figure