CWRML: representing crop wild relative conservation and use data in XML

Background Crop wild relatives are wild species that are closely related to crops. They are valuable as potential gene donors for crop improvement and may help to ensure food security for the future. However, they are becoming increasingly threatened in the wild and are inadequately conserved, both in situ and ex situ. Information about the conservation status and utilisation potential of crop wild relatives is diverse and dispersed, and no single agreed standard exists for representing such information; yet, this information is vital to ensure these species are effectively conserved and utilised. The European Community-funded project, European Crop Wild Relative Diversity Assessment and Conservation Forum, determined the minimum information requirements for the conservation and utilisation of crop wild relatives and created the Crop Wild Relative Information System, incorporating an eXtensible Markup Language (XML) schema to aid data sharing and exchange. Results Crop Wild Relative Markup Language (CWRML) was developed to represent the data necessary for crop wild relative conservation and ensure that they can be effectively utilised for crop improvement. The schema partitions data into taxon-, site-, and population-specific elements, to allow for integration with other more general conservation biology schemata which may emerge as accepted standards in the future. These elements are composed of sub-elements, which are structured in order to facilitate the use of the schema in a variety of crop wild relative conservation and use contexts. Pre-existing standards for data representation in conservation biology were reviewed and incorporated into the schema as restrictions on element data contents, where appropriate. Conclusion CWRML provides a flexible data communication format for representing in situ and ex situ conservation status of individual taxa as well as their utilisation potential. The development of the schema highlights a number of instances where additional standards-development may be valuable, particularly with regard to the representation of population-specific data and utilisation potential. As crop wild relatives are intrinsically no different to other wild plant species there is potential for the inclusion of CWRML data elements in the emerging standards for representation of biodiversity data

Discovery of two L & T binaries with wide separations and peculiar photometric properties

We present spatially resolved photometric and spectroscopic observations of two wide brown dwarf binaries uncovered by the SIMP near-infrared proper motion survey. The first pair (SIMP J1619275+031350AB) has a separation of 0.691" (15.2 AU) and components T2.5+T4.0, at the cooler end of the ill-understood J-band brightening. The system is unusual in that the earlier-type primary is bluer in J-Ks than the later-type secondary, whereas the reverse is expected for binaries in the late-L to T dwarf range. This remarkable color reversal can possibly be explained by very different cloud properties between the two components. The second pair (SIMP J1501530-013506AB) consists of an L4.5+L5.5 (separation 0.96", 30-47 AU) with a surprisingly large flux ratio (Delta J =1.79 mag) considering the similar spectral types of its components. The large flux ratio could be explained if the primary is itself an equal-luminosity binary, which would make it one of the first known triple brown dwarf systems. Adaptive optics observations could not confirm this hypothesis, but it remains a likely one, which may be verified by high-resolution near-infrared spectroscopy. These two systems add to the handful of known brown dwarf binaries amenable to resolved spectroscopy without the aid of adaptive optics and constitute prime targets to test brown dwarf atmosphere models.Comment: accepted for publication in Ap

The thermal emission of the exoplanets WASP-1b and WASP-2b

We present a comparative study of the thermal emission of the transiting exoplanets WASP-1b and WASP-2b using the Spitzer Space Telescope. The two planets have very similar masses but suffer different levels of irradiation and are predicted to fall either side of a sharp transition between planets with and without hot stratospheres. WASP-1b is one of the most highly irradiated planets studied to date. We measure planet/star contrast ratios in all four of the IRAC bands for both planets (3.6-8.0um), and our results indicate the presence of a strong temperature inversion in the atmosphere of WASP-1b, particularly apparent at 8um, and no inversion in WASP-2b. In both cases the measured eclipse depths favor models in which incident energy is not redistributed efficiently from the day side to the night side of the planet. We fit the Spitzer light curves simultaneously with the best available radial velocity curves and transit photometry in order to provide updated measurements of system parameters. We do not find significant eccentricity in the orbit of either planet, suggesting that the inflated radius of WASP-1b is unlikely to be the result of tidal heating. Finally, by plotting ratios of secondary eclipse depths at 8um and 4.5um against irradiation for all available planets, we find evidence for a sharp transition in the emission spectra of hot Jupiters at an irradiation level of 2 x 10^9 erg/s/cm^2. We suggest this transition may be due to the presence of TiO in the upper atmospheres of the most strongly irradiated hot Jupiters.Comment: 10 pages, submitted to Ap

ALMA CO Observations of a Giant Molecular Cloud in M33: Evidence for High-Mass Star Formation Triggered by Cloud-Cloud Collisions

We report the first evidence for high-mass star formation triggered by collisions of molecular clouds in M33. Using the Atacama Large Millimeter/submillimeter Array, we spatially resolved filamentary structures of giant molecular cloud 37 in M33 using $^{12}$CO($J$ = 2-1), $^{13}$CO($J$ = 2-1), and C$^{18}$O($J$ = 2-1) line emission at a spatial resolution of $\sim$2 pc. There are two individual molecular clouds with a systematic velocity difference of $\sim$6 km s$^{-1}$. Three continuum sources representing up to $\sim$10 high-mass stars with the spectral types of B0V-O7.5V are embedded within the densest parts of molecular clouds bright in the C$^{18}$O($J$ = 2-1) line emission. The two molecular clouds show a complementary spatial distribution with a spatial displacement of $\sim$6.2 pc, and show a V-shaped structure in the position-velocity diagram. These observational features traced by CO and its isotopes are consistent with those in high-mass star-forming regions created by cloud-cloud collisions in the Galactic and Magellanic Cloud HII regions. Our new finding in M33 indicates that the cloud-cloud collision is a promising process to trigger high-mass star formation in the Local Group.Comment: 13 pages, 10 figures, 1 table, accepted for publication in PAS

Epidemiology of Streptococcus dysgalactiae subsp. equisimilis in Tropical Communities, Northern Australia

This subspecies is common in communities with high rates of streptococcal disease, and its epidemiology differs from that of Streptococcus pyogenes

Tobacco smoking and disability progression in multiple sclerosis: United Kingdom cohort study

Tobacco smoking has been linked to an increased risk of multiple sclerosis. However, to date, results from the few studies on the impact of smoking on the progression of disability are conflicting. The aim of this study was to investigate the effects of smoking on disability progression and disease severity in a cohort of patients with clinically definite multiple sclerosis. We analysed data from 895 patients (270 male, 625 female), mean age 49 years with mean disease duration 17 years. Forty-nine per cent of the patients were regular smokers at the time of disease onset or at diagnosis (ever-smokers). Average disease severity as measured by multiple sclerosis severity score was greater in ever-smokers, by 0.68 (95% confidence interval: 0.36–1.01). The risk of reaching Expanded Disability Status Scale score milestones of 4 and 6 in ever-smokers compared to never-smokers was 1.34 (95% confidence interval: 1.12–1.60) and 1.25 (95% confidence interval: 1.02–1.51) respectively. Current smokers showed 1.64 (95% confidence interval: 1.33–2.02) and 1.49 (95% confidence interval: 1.18–1.86) times higher risk of reaching Expanded Disability Status Scale scores 4 and 6 compared with non-smokers. Ex-smokers who stopped smoking either before or after the onset of the disease had a significantly lower risk of reaching Expanded Disability Status Scale scores 4 (hazard ratio: 0.65, confidence interval: 0.50–0.83) and 6 (hazard ratio: 0.69, confidence interval: 0.53–0.90) than current smokers, and there was no significant difference between ex-smokers and non-smokers in terms of time to Expanded Disability Status Scale scores 4 or 6. Our data suggest that regular smoking is associated with more severe disease and faster disability progression. In addition, smoking cessation, whether before or after onset of the disease, is associated with a slower progression of disability

A Ground-based Optical Transmission Spectrum of WASP-6b

We present a ground-based optical transmission spectrum of the inflated sub-Jupiter-mass planet WASP-6b. The spectrum was measured in 20 spectral channels from 480 nm to 860 nm using a series of 91 spectra over a complete transit event. The observations were carried out using multi-object differential spectrophotometry with the Inamori-Magellan Areal Camera and Spectrograph on the Baade Telescope at Las Campanas Observatory. We model systematic effects on the observed light curves using principal component analysis on the comparison stars and allow for the presence of short and long memory correlation structure in our Monte Carlo Markov Chain analysis of the transit light curves for WASP-6. The measured transmission spectrum presents a general trend of decreasing apparent planetary size with wavelength and lacks evidence for broad spectral features of Na and K predicted by clear atmosphere models. The spectrum is consistent with that expected for scattering that is more efficient in the blue, as could be caused by hazes or condensates in the atmosphere of WASP-6b. WASP-6b therefore appears to be yet another massive exoplanet with evidence for a mostly featureless transmission spectrum, underscoring the importance that hazes and condensates can have in determining the transmission spectra of exoplanets

A chemical survey of exoplanets with ARIEL

Thousands of exoplanets have now been discovered with a huge range of masses, sizes and orbits: from rocky Earth-like planets to large gas giants grazing the surface of their host star. However, the essential nature of these exoplanets remains largely mysterious: there is no known, discernible pattern linking the presence, size, or orbital parameters of a planet to the nature of its parent star. We have little idea whether the chemistry of a planet is linked to its formation environment, or whether the type of host star drives the physics and chemistry of the planet’s birth, and evolution. ARIEL was conceived to observe a large number (~1000) of transiting planets for statistical understanding, including gas giants, Neptunes, super-Earths and Earth-size planets around a range of host star types using transit spectroscopy in the 1.25–7.8 μm spectral range and multiple narrow-band photometry in the optical. ARIEL will focus on warm and hot planets to take advantage of their well-mixed atmospheres which should show minimal condensation and sequestration of high-Z materials compared to their colder Solar System siblings. Said warm and hot atmospheres are expected to be more representative of the planetary bulk composition. Observations of these warm/hot exoplanets, and in particular of their elemental composition (especially C, O, N, S, Si), will allow the understanding of the early stages of planetary and atmospheric formation during the nebular phase and the following few million years. ARIEL will thus provide a representative picture of the chemical nature of the exoplanets and relate this directly to the type and chemical environment of the host star. ARIEL is designed as a dedicated survey mission for combined-light spectroscopy, capable of observing a large and well-defined planet sample within its 4-year mission lifetime. Transit, eclipse and phase-curve spectroscopy methods, whereby the signal from the star and planet are differentiated using knowledge of the planetary ephemerides, allow us to measure atmospheric signals from the planet at levels of 10–100 part per million (ppm) relative to the star and, given the bright nature of targets, also allows more sophisticated techniques, such as eclipse mapping, to give a deeper insight into the nature of the atmosphere. These types of observations require a stable payload and satellite platform with broad, instantaneous wavelength coverage to detect many molecular species, probe the thermal structure, identify clouds and monitor the stellar activity. The wavelength range proposed covers all the expected major atmospheric gases from e.g. H2O, CO2, CH4 NH3, HCN, H2S through to the more exotic metallic compounds, such as TiO, VO, and condensed species. Simulations of ARIEL performance in conducting exoplanet surveys have been performed – using conservative estimates of mission performance and a full model of all significant noise sources in the measurement – using a list of potential ARIEL targets that incorporates the latest available exoplanet statistics. The conclusion at the end of the Phase A study, is that ARIEL – in line with the stated mission objectives – will be able to observe about 1000 exoplanets depending on the details of the adopted survey strategy, thus confirming the feasibility of the main science objectives.Peer reviewedFinal Published versio

The Mass of KOI-94d and a Relation for Planet Radius, Mass, and Incident Flux

We measure the mass of a modestly irradiated giant planet, KOI-94d. We wish to determine whether this planet, which is in a 22 day orbit and receives 2700 times as much incident flux as Jupiter, is as dense as Jupiter or rarefied like inflated hot Jupiters. KOI-94 also hosts at least three smaller transiting planets, all of which were detected by the Kepler mission. With 26 radial velocities of KOI-94 from the W. M. Keck Observatory and a simultaneous fit to the Kepler light curve, we measure the mass of the giant planet and determine that it is not inflated. Support for the planetary interpretation of the other three candidates comes from gravitational interactions through transit timing variations, the statistical robustness of multi-planet systems against false positives, and several lines of evidence that no other star resides within the photometric aperture. We report the properties of KOI-94b (M_P = 10.5 ± 4.6 M_⊕, R_P = 1.71 ± 0.16 R_⊕, P = 3.74 days), KOI-94c (M_P = 15.6^(+5.7)_(-15.6) M_⊕, R_P = 4.32 ± 0.41 R_⊕, P = 10.4 days), KOI-94d (M_P = 106 ± 11 M_⊕, R_P = 11.27 ± 1.06 R_⊕, P = 22.3 days), and KOI-94e (M_P = 35^(+18)_(-28) M_⊕, R_P = 6.56 ± 0.62 R_⊕, P = 54.3 days). The radial velocity analyses of KOI-94b and KOI-94e offer marginal (>2σ) mass detections, whereas the observations of KOI-94c offer only an upper limit to its mass. Using the KOI-94 system and other planets with published values for both mass and radius (138 exoplanets total, including 35 with M_P 150 M_⊕. These equations can be used to predict the radius or mass of a planet

Scientific publishing and the reading of science in nineteenth-century Britain: a historiographical survey and guide to sources

[FIRST PARAGRAPH] It is now generally accepted that both the conception and practices of natural enquiry in the Western tradition underwent a series of profound developments in the late eighteenth and early nineteenth century—developments which have been variously characterized as a ‘second scientific revolution’ and, much more tellingly, as the ‘invention of science’. As several authors have argued, moreover, a crucial aspect of this change consisted in the distinctive audience relations of the new sciences. While eighteenth-century natural philosophy was distinguished by an audience relation in which, as William Whewell put it, ‘a large and popular circle of spectators and amateurs [felt] themselves nearly upon a level, in the value of their trials and speculations, with more profound thinkers’, the science which was invented in the late eighteenth and early nineteenth century was, as Simon Schaffer has argued, marked by the ‘emergence of disciplined, trained cadres of research scientists’ clearly distinguished from a wider, exoteric public. Similarly, Jan Golinski argues that the ‘emergence of new instrumentation and a more consolidated social structure for the specialist community’ for early nineteenth-century chemistry was intimately connected with the transformation in the role of its public audience to a condition of relative passivity. These moves were underpinned by crucial epistemological and rhetorical shifts—from a logic of discovery, theoretically open to all, to a more restrictive notion of discovery as the preserve of scientific ‘genius’, and from an open-ended philosophy of ‘experience’ to a far more restrictive notion of disciplined ‘expertise’. Both of these moves were intended to do boundary work, restricting the community active in creating and validating scientific knowledge, and producing a passive public