Treatment of overlapping gaseous absorption with the correlated-k method in hot Jupiter and brown dwarf atmosphere models

This is the author accepted manuscript. The final version is available from EDP Sciences via the DOI in this record.The correlated-k method is frequently used to speed up radiation calculations in both one-dimensional and three-dimensional atmosphere models. An inherent difficulty with this method is how to treat overlapping absorption, i.e. absorption by more than one gas in a given spectral region. We have evaluated the applicability of three different methods in hot Jupiter and brown dwarf atmosphere models, all of which have been previously applied within models in the literature: (i) Random overlap, both with and without resorting and rebinning, (ii) equivalent extinction and (iii) pre-mixing of opacities, where (i) and (ii) combine k-coefficients for different gases to obtain k-coefficients for a mixture of gases, while (iii) calculates k-coefficients for a given mixture from the corresponding mixed line-by-line opacities. We find that the random overlap method is the most accurate and flexible of these treatments, and is fast enough to be used in one-dimensional models with resorting and rebinning. In three-dimensional models such as GCMs it is too slow, however, and equivalent extinction can provide a speed-up of at least a factor of three with only a minor loss of accuracy while at the same time retaining the flexibility gained by combining k-coefficients computed for each gas individually. Pre-mixed opacities are significantly less flexible, and we also find that particular care must be taken when using this method in order to to adequately resolve steep variations in composition at important chemical equilibrium boundaries. We use the random overlap method with resorting and rebinning in our one-dimensional atmosphere model and equivalent extinction in our GCM, which allows us to e.g. consistently treat the feedback of non-equilibrium chemistry on the total opacity and therefore the calculated P–T profiles in our modelsWe thank the referee, Mark Marley, for comments that significantly improved the paper. This work is partly supported by the European Research Council under the European Community’s Seventh Framework Programme (FP7/2007-2013 Grant Agreement No. 247060-PEPS and grant No. 320478-TOFU). D.S.A. acknowledges support from the NASA Astrobiology Program through the Nexus for Exoplanet System Science. J.M. acknowledges the support of a Met Office Academic Partnership secondment. The calculations for this paper were performed on the DiRAC Complexity machine, jointly funded by STFC and the Large Facilities Capital Fund of BIS, and the University of Exeter Super-computer, a DiRAC Facility jointly funded by STFC, the Large Facilities Capital Fund of BIS and the University of Exeter

Using the UM dynamical cores to reproduce idealised 3-D flows

This is the final version of the article. Available from the publisher via the DOI in this record.Published by Copernicus Publications on behalf of the European Geosciences UnionWe demonstrate that both the current (New Dynamics), and next generation (ENDGame) dynamical cores of the UK Met Office global circulation model, the UM, reproduce consistently, the long-term, large-scale flows found in several published idealised tests. The cases presented are the Held-Suarez test, a simplified model of Earth (including a stratosphere), and a hypothetical tidally locked Earth. Furthermore, we show that using simplifications to the dynamical equations, which are expected to be justified for the physical domains and flow regimes we have studied, and which are supported by the ENDGame dynamical core, also produces matching long-term, large-scale flows. Finally, we present evidence for differences in the detail of the planetary flows and circulations resulting from improvements in the ENDGame formulation over New Dynamics.We would like to thank Paul Ullrich and Kevin Heng for their valuable comments, when reviewing this manuscript. We would also like to thank Tom Melvin for his expert advice, and both Charline Marzin and Douglas Boyd for technical help. This work is supported by the European Research Council under the European Community’s Seventh Framework Programme (FP7/2007-2013 Grant Agreement no. 247060) and by the Consolidated STFC grant ST/J001627/1. This work is also partly supported by the Royal Society award WM090065. The calculations for this paper were performed on the DiRAC Facility jointly funded by STFC, the Large Facilities Capital Fund of BIS, and the University of Exeter

Near-Infrared Spectroscopy of the Y0 WISEP J173835.52+273258.9 and the Y1 WISE J035000.32-565830.2: the Importance of Non-Equilibrium Chemistry

This is the author accepted manuscript. The final version is available from American Astronomical Society / IOP Publishing via the DOI in this record.We present new near-infrared spectra, obtained at Gemini Observatory, for two Y dwarfs: WISE J035000.32-565830.2 (W0350) and WISEP J173835.52+273258.9 (W1738). A FLAMINGOS-2 R=540 spectrum was obtained for W0350, covering 1.0 < lambda um < 1.7, and a cross-dispersed GNIRS R=2800 spectrum was obtained for W1738, covering 0.993-1.087 um, 1.191-1.305 um, 1.589-1.631 um, and 1.985-2.175 um, in four orders. We also present revised YJH photometry for W1738, using new NIRI Y and J imaging, and a re-analysis of the previously published NIRI H band images. We compare these data, together with previously published data for late-T and Y dwarfs, to cloud-free models of solar metallicity, calculated both in chemical equilibrium and with disequilibrium driven by vertical transport. We find that for the Y dwarfs the non-equilibrium models reproduce the near-infrared data better than the equilibrium models. The remaining discrepancies suggest that fine-tuning the CH_4/CO and NH_3/N_2 balance is needed. Improved trigonometric parallaxes would improve the analysis. Despite the uncertainties and discrepancies, the models reproduce the observed near-infrared spectra well. We find that for the Y0, W1738, T_eff = 425 +/- 25 K and log g = 4.0 +/- 0.25, and for the Y1, W0350, T_eff = 350 +/- 25 K and log g = 4.0 +/- 0.25. W1738 may be metal-rich. Based on evolutionary models, these temperatures and gravities correspond to a mass range for both Y dwarfs of 3-9 Jupiter masses, with W0350 being a cooler, slightly older, version of W1738; the age of W0350 is 0.3-3 Gyr, and the age of W1738 is 0.15-1 Gyr.Based on observations obtained at the Gemini Observatory, which is operated by the Association of Universities for Research in Astronomy, Inc., under a cooperative agreement with the NSF on behalf of the Gemini partnership: the National Science Foundation (United States), the Science and Technology Facilities Council (United Kingdom), the National Research Council (Canada), CONICYT (Chile), the Australian Research Council (Australia), Minist´erio da Ciˆencia, Tecnologia e Inova¸c˜ao (Brazil) and Ministerio de Ciencia, Tecnolog´ıa e Innovaci´on Productiva (Argentina). S. L.’s research is supported by Gemini Observatory. D.S.’ work was supported in part by NASA grant NNH12AT89I from Astrophysics Theory. I. B.’s work is supported by the European Research Council through grant ERC-AdG No.– 17 – 320478-TOFU.This publication makes use of data products from the Wide-field Infrared Survey Explorer, which is a joint project of the University of California, Los Angeles, and the Jet Propulsion Laboratory/California Institute of Technology, funded by the National Aeronautics and Space Administration. This research has made use of the NASA/ IPAC Infrared Science Archive, which is operated by the Jet Propulsion Laboratory, California Institute of Technology, under contract with the National Aeronautics and Space Administration

Erratum: A library of ATMO forward model transmission spectra for hot Jupiter exoplanets

This is the final version. Available from OUP via the DOI in this recordThe article to which this is the erratum is in ORE at http://hdl.handle.net/10871/30324The paper ‘A library of ATMO forward model transmission spectra for hot Jupiter exoplanets’ was published in MNRAS 474, 4, 5158–5185. In the original manuscript (Goyal et al. 2018), we presented a grid of forward model transmission spectra for hot Jupiter exoplanets. However, we recently identified an error in the treatment of rainout in our 1D atmosphere model ATMO. The correction of this error led to changes in the equilibrium chemical abundances using rainout condensation and thereby the transmission spectra. We note that this error only affects the online library2,3 that includes rainout condensation, the library with local condensation (without rainout) is unaffected. We further note that the gas phase equilibrium scheme used in ATMO has been compared by Drummond et al. (2016) with the analytical schemes of Burrows & Sharp (1999) and Heng & Tsai (2016). The gas phase chemistry with and without local condensation has also been verified in Baudino et al. (2017) against the petitCODE (Mollière et al. 2015, 2017) and Exo-REM (Baudino et al. 2015) models. Therefore, issues with the previous version of the grid were confined to the implementation of rainout

DNA Damage Triggers Genetic Exchange in Helicobacter pylori

Many organisms respond to DNA damage by inducing expression of DNA repair genes. We find that the human stomach pathogen Helicobacter pylori instead induces transcription and translation of natural competence genes, thus increasing transformation frequency. Transcription of a lysozyme-like protein that promotes DNA donation from intact cells is also induced. Exogenous DNA modulates the DNA damage response, as both recA and the ability to take up DNA are required for full induction of the response. This feedback loop is active during stomach colonization, indicating a role in the pathogenesis of the bacterium. As patients can be infected with multiple genetically distinct clones of H. pylori, DNA damage induced genetic exchange may facilitate spread of antibiotic resistance and selection of fitter variants through re-assortment of preexisting alleles in this important human pathogen

Measurement of the cross-section of high transverse momentum vector bosons reconstructed as single jets and studies of jet substructure in pp collisions at √s = 7 TeV with the ATLAS detector

This paper presents a measurement of the cross-section for high transverse momentum W and Z bosons produced in pp collisions and decaying to all-hadronic final states. The data used in the analysis were recorded by the ATLAS detector at the CERN Large Hadron Collider at a centre-of-mass energy of √s = 7 TeV;{\rm Te}{\rm V}$and correspond to an integrated luminosity of$4.6\;{\rm f}{{{\rm b}}^{-1}}$. The measurement is performed by reconstructing the boosted W or Z bosons in single jets. The reconstructed jet mass is used to identify the W and Z bosons, and a jet substructure method based on energy cluster information in the jet centre-of-mass frame is used to suppress the large multi-jet background. The cross-section for events with a hadronically decaying W or Z boson, with transverse momentum${{p}_{{\rm T}}}\gt 320\;{\rm Ge}{\rm V}$and pseudorapidity$|\eta |\lt 1.9$, is measured to be${{\sigma }_{W+Z}}=8.5\pm 1.7$ pb and is compared to next-to-leading-order calculations. The selected events are further used to study jet grooming techniques

Search for pair-produced long-lived neutral particles decaying to jets in the ATLAS hadronic calorimeter in ppcollisions at √s=8TeV

The ATLAS detector at the Large Hadron Collider at CERN is used to search for the decay of a scalar boson to a pair of long-lived particles, neutral under the Standard Model gauge group, in 20.3fb−1of data collected in proton–proton collisions at √s=8TeV. This search is sensitive to long-lived particles that decay to Standard Model particles producing jets at the outer edge of the ATLAS electromagnetic calorimeter or inside the hadronic calorimeter. No significant excess of events is observed. Limits are reported on the product of the scalar boson production cross section times branching ratio into long-lived neutral particles as a function of the proper lifetime of the particles. Limits are reported for boson masses from 100 GeVto 900 GeV, and a long-lived neutral particle mass from 10 GeVto 150 GeV

Search for direct pair production of the top squark in all-hadronic final states in proton-proton collisions at s√=8 TeV with the ATLAS detector

The results of a search for direct pair production of the scalar partner to the top quark using an integrated luminosity of 20.1fb−1 of proton–proton collision data at √s = 8 TeV recorded with the ATLAS detector at the LHC are reported. The top squark is assumed to decay via t˜→tχ˜01 or t˜→ bχ˜±1 →bW(∗)χ˜01 , where χ˜01 (χ˜±1 ) denotes the lightest neutralino (chargino) in supersymmetric models. The search targets a fully-hadronic final state in events with four or more jets and large missing transverse momentum. No significant excess over the Standard Model background prediction is observed, and exclusion limits are reported in terms of the top squark and neutralino masses and as a function of the branching fraction of t˜ → tχ˜01 . For a branching fraction of 100%, top squark masses in the range 270–645 GeV are excluded for χ˜01 masses below 30 GeV. For a branching fraction of 50% to either t˜ → tχ˜01 or t˜ → bχ˜±1 , and assuming the χ˜±1 mass to be twice the χ˜01 mass, top squark masses in the range 250–550 GeV are excluded for χ˜01 masses below 60 GeV

Evaluation of Greenbug and Yellow Sugarcane Aphid Feeding Behavior on Resistant and Susceptible Switchgrass Cultivars

Switchgrass (Panicum virgatum L.) is an emerging biofuel crop that serves as host for aphids. To discern the effects of plant age and possible resistance mechanisms, the feeding behavior of greenbugs (Schizaphis graminum Rondani.) and the yellow sugarcane aphid (Sipha flava Forbes.) was monitored on three diverse switchgrasses by the electrical penetration graph (EPG) technique. Callose deposition and genes associated with callose metabolism were also analyzed to discern their association with plant resistance. There was a strong host effect on greenbugs feeding on lowland cultivar Kanlow at the V3 stage of development, as compared to the greenbug-susceptible upland cultivar Summer and plants derived from Kanlow (♂) × Summer (♀) (K×S) crosses. These data confirmed that Kanlow at the V3 stage had antibiosis to greenbugs, which was absent in the Summer and K×S plants. In contrast, similar effects were not observed for yellow sugarcane aphids, excluding significant differences in the time to first probe on Kanlow plants at the V1 stage and reduction in time spent on pathway processes on Kanlow plants at the V3 stage. These data demonstrated that Kanlow plants may have multiple sources of resistance to the two aphids, and possibly some were phloem based. Microscopy of leaf sections stained with aniline blue for callose was suggestive of increased callose deposition in the sieve elements in Kanlow plants relative to Summer and K×S plants. RT-qPCR analysis of several genes associated with callose metabolism in infested plants was equivocal. Overall, these studies suggest the presence of multiple defense mechanisms against aphids in Kanlow plants, relative to Summer and K×S plants

Search for new phenomena in final states with an energetic jet and large missing transverse momentum in pp collisions at root s = 8 TeV with the ATLAS detector (vol 75, 299, 2015)

Results of a search for new phenomena in final states with an energetic jet and large missing transverse momentum are reported. The search uses 20.3 fb−1 of √s=8 TeV data collected in 2012 with the ATLAS detector at the LHC. Events are required to have at least one jet with pT&gt;120 GeV and no leptons. Nine signal regions are considered with increasing missing transverse momentum requirements between EmissT&gt;150 GeV and EmissT&gt;700 GeV. Good agreement is observed between the number of events in data and Standard Model expectations. The results are translated into exclusion limits on models with either large extra spatial dimensions, pair production of weakly interacting dark matter candidates, or production of very light gravitinos in a gauge-mediated supersymmetric model. In addition, limits on the production of an invisibly decaying Higgs-like boson leading to similar topologies in the final state are presented