Assessing the effectiveness of specially protected areas for conservation of Antarctica's botanical diversity

Vegetation is sparsely distributed over Antarctica's ice-free ground, and distinct plant communities are present in each of the continent's 15 recently identified Antarctic Conservation Biogeographic Regions (ACBRs). With rapidly increasing human activity in Antarctica, terrestrial plant communities are at risk of damage or destruction by trampling, overland transport and infrastructure construction, and the impacts of anthropogenically introduced species, as well as uncontrollable pressures such as fur seal activity and climate change. Under the Protocol on Environmental Protection to the Antarctic Treaty, the conservation of plant communities can be enacted and facilitated through the designation of Antarctic Specially Protected Areas (ASPAs). In this study we examined the distribution within the 15 ACBRs of the 33 ASPAs whose explicit purpose includes protecting macroscopic terrestrial flora. Large omissions in the protection of Antarctic botanical diversity were found, with no protection of plant communities in six ACBRs and, in a further six, less than 0.4% of the ACBR area was included within an ASPA protecting vegetation. We completed the first normalised difference vegetation index (NDVI) satellite remote sensing survey to provide baseline data on the extent of vegetation cover in all ASPAs designated for plant protection in Antarctica. Protected vegetation cover within the 33 ASPAs totalled 16.1 km2 for the entire Antarctic continent, with over half of this within a single protected area. Over 96% of the protected vegetation was contained within two ACBRs, which together contribute only 7.8% of the continent's ice-free ground. We conclude that Antarctic botanical diversity is clearly inadequately protected, and call for systematic designation of ASPAs protecting plant communities across by the Antarctic Treaty Consultative Parties, the members of the governing body of the continen

Automated lithological mapping using airborne hyperspectral thermal infrared data: A case study from Anchorage Island, Antarctica

The thermal infrared portion of the electromagnetic spectrum has considerable potential for mineral and lithological mapping of the most abundant rock-forming silicates that do not display diagnostic features at visible and shortwave infrared wavelengths. Lithological mapping using visible and shortwave infrared hyperspectral data is well developed and established processing chains are available, however there is a paucity of such methodologies for hyperspectral thermal infrared data. Here we present a new fully automated processing chain for deriving lithological maps from hyperspectral thermal infrared data and test its applicability using the first ever airborne hyperspectral thermal data collected in the Antarctic. A combined airborne hyperspectral survey, targeted geological field mapping campaign and detailed mineralogical and geochemical datasets are applied to small test site in West Antarctica where the geological relationships are representative of continental margin arcs. The challenging environmental conditions and cold temperatures in the Antarctic meant that the data have a significantly lower signal to noise ratio than is usually attained from airborne hyperspectral sensors. We applied preprocessing techniques to improve the signal to noise ratio and convert the radiance images to ground leaving emissivity. Following preprocessing we developed and applied a fully automated processing chain to the hyperspectral imagery, which consists of the following six steps: (1) superpixel segmentation, (2) determine the number of endmembers, (3) extract endmembers from superpixels, (4) apply fully constrained linear unmixing, (5) generate a predictive classification map, and (6) automatically label the predictive classes to generate a lithological map. The results show that the image processing chain was successful, despite the low signal to noise ratio of the imagery; reconstruction of the hyperspectral image from the endmembers and their fractional abundances yielded a root mean square error of 0.58%. The results are encouraging with the thermal imagery allowing clear distinction between granitoid types. However, the distinction of fine grained, intermediate composition dykes is not possible due to the close geochemical similarity with the country rock

Measuring Stellar Radial Velocities with a Dispersed Fixed-Delay Interferometer

We demonstrate the ability to measure precise stellar barycentric radial velocities with the dispersed fixed-delay interferometer technique using the Exoplanet Tracker (ET), an instrument primarily designed for precision differential Doppler velocity measurements using this technique. Our barycentric radial velocities, derived from observations taken at the KPNO 2.1 meter telescope, differ from those of Nidever et al. by 0.047 km/s (rms) when simultaneous iodine calibration is used, and by 0.120 km/s (rms) without simultaneous iodine calibration. Our results effectively show that a Michelson interferometer coupled to a spectrograph allows precise measurements of barycentric radial velocities even at a modest spectral resolution of R ~ 5100. A multi-object version of the ET instrument capable of observing ~500 stars per night is being used at the Sloan 2.5 m telescope at Apache Point Observatory for the Multi-object APO Radial Velocity Exoplanet Large-area Survey (MARVELS), a wide-field radial velocity survey for extrasolar planets around TYCHO-2 stars in the magnitude range 7.6<V<12. In addition to precise differential velocities, this survey will also yield precise barycentric radial velocities for many thousands of stars using the data analysis techniques reported here. Such a large kinematic survey at high velocity precision will be useful in identifying the signature of accretion events in the Milky Way and understanding local stellar kinematics in addition to discovering exoplanets, brown dwarfs and spectroscopic binaries.Comment: 9 pages, 4 figures. Accepted for publication in Ap

An Emperor Penguin population estimate: The first global, synoptic survey of a species from space

Our aim was to estimate the population of emperor penguins (Aptenodytes fosteri) using a single synoptic survey. We examined the whole continental coastline of Antarctica using a combination of medium resolution and Very High Resolution (VHR) satellite imagery to identify emperor penguin colony locations. Where colonies were identified, VHR imagery was obtained in the 2009 breeding season. The remotely-sensed images were then analysed using a supervised classification method to separate penguins from snow, shadow and guano. Actual counts of penguins from eleven ground truthing sites were used to convert these classified areas into numbers of penguins using a robust regression algorithm. We found four new colonies and confirmed the location of three previously suspected sites giving a total number of emperor penguin breeding colonies of 46. We estimated the breeding population of emperor penguins at each colony during 2009 and provide a population estimate of ~238,000 breeding pairs (compared with the last previously published count of 135,000–175,000 pairs). Based on published values of the relationship between breeders and non-breeders, this translates to a total population of ~595,000 adult birds. There is a growing consensus in the literature that global and regional emperor penguin populations will be affected by changing climate, a driver thought to be critical to their future survival. However, a complete understanding is severely limited by the lack of detailed knowledge about much of their ecology, and importantly a poor understanding of their total breeding population. To address the second of these issues, our work now provides a comprehensive estimate of the total breeding population that can be used in future population models and will provide a baseline for long-term research

Revised Stellar Properties of Kepler Targets for the Quarter 1-16 Transit Detection Run

We present revised properties for 196,468 stars observed by the NASA Kepler Mission and used in the analysis of Quarter 1-16 (Q1-Q16) data to detect and characterize transiting exoplanets. The catalog is based on a compilation of literature values for atmospheric properties (temperature, surface gravity, and metallicity) derived from different observational techniques (photometry, spectroscopy, asteroseismology, and exoplanet transits), which were then homogeneously fitted to a grid of Dartmouth stellar isochrones. We use broadband photometry and asteroseismology to characterize 11,532 Kepler targets which were previously unclassified in the Kepler Input Catalog (KIC). We report the detection of oscillations in 2,762 of these targets, classifying them as giant stars and increasing the number of known oscillating giant stars observed by Kepler by ~20% to a total of ~15,500 stars. Typical uncertainties in derived radii and masses are ~40% and ~20%, respectively, for stars with photometric constraints only, and 5-15% and ~10% for stars based on spectroscopy and/or asteroseismology, although these uncertainties vary strongly with spectral type and luminosity class. A comparison with the Q1-Q12 catalog shows a systematic decrease in radii for M dwarfs, while radii for K dwarfs decrease or increase depending on the Q1-Q12 provenance (KIC or Yonsei-Yale isochrones). Radii of F-G dwarfs are on average unchanged, with the exception of newly identified giants. The Q1-Q16 star properties catalog is a first step towards an improved characterization of all Kepler targets to support planet occurrence studies.Comment: 20 pages, 14 figures, 5 tables; accepted for publication in ApJS; electronic versions of Tables 4 and 5 are available as ancillary files (see sidebar on the right), and an interactive version of Table 5 is available at the NASA Exoplanet Archive (http://exoplanetarchive.ipac.caltech.edu/

Estimating encounter location distributions from animal tracking data

1. Ecologists have long been interested in linking individual behaviour with higher level processes. For motile species, this ‘upscaling’ is governed by how well any given movement strategy maximizes encounters with positive factors and minimizes encounters with negative factors. Despite the importance of encounter events for a broad range of ecological processes, encounter theory has not kept pace with developments in animal tracking or movement modelling. Furthermore, existing work has focused primarily on the relationship between animal movement and encounter rates while the relationship between individual movement and the spatial locations of encounter events in the environment has remained conspicuously understudied. 2. Here, we bridge this gap by introducing a method for describing the long-term encounter location probabilities for movement within home ranges, termed the conditional distribution of encounters (CDE). We then derive this distribution, as well as confidence intervals, implement its statistical estimator into open-source software and demonstrate the broad ecological relevance of this distribution. 3. We first use simulated data to show how our estimator provides asymptotically consistent estimates. We then demonstrate the general utility of this method for three simulation-based scenarios that occur routinely in biological systems: (a) a population of individuals with home ranges that overlap with neighbours; (b) a pair of individuals with a hard territorial border between their home ranges; and (c) a predator with a large home range that encompassed the home ranges of multiple prey individuals. Using GPS data from white-faced capuchins Cebus capucinus, tracked on Barro Colorado Island, Panama, and sleepy lizards Tiliqua rugosa, tracked in Bundey, South Australia, we then show how the CDE can be used to estimate the locations of territorial borders, identify key resources, quantify the potential for competitive or predatory interactions and/or identify any changes in behaviour that directly result from location-specific encounter probability. 4. The CDE enables researchers to better understand the dynamics of populations of interacting individuals. Notably, the general estimation framework developed in this work builds straightforwardly off of home range estimation and requires no specialized data collection protocols. This method is now openly available via the ctmm R package

An eQTL in the cystathionine beta synthase gene is linked to osteoporosis in laying hens

Background Skeletal damage is a challenge for laying hens because the physiological adaptations required for egg laying make them susceptible to osteoporosis. Previously, we showed that genetic factors explain 40% of the variation in end of lay bone quality and we detected a quantitative trait locus (QTL) of large effect on chicken chromosome 1. The aim of this study was to combine data from the commercial founder White Leghorn population and the F2 mapping population to fine-map this QTL and understand its function in terms of gene expression and physiology. Results Several single nucleotide polymorphisms on chromosome 1 between 104 and 110 Mb (galGal6) had highly significant associations with tibial breaking strength. The alternative genotypes of markers of large effect that flanked the region had tibial breaking strengths of 200.4 vs. 218.1 Newton (P < 0.002) and, in a subsequent founder generation, the higher breaking strength genotype was again associated with higher breaking strength. In a subsequent generation, cortical bone density and volume were increased in individuals with the better bone genotype but with significantly reduced medullary bone quality. The effects on cortical bone density were confirmed in a further generation and was accompanied by increased mineral maturity of the cortical bone as measured by infrared spectrometry and there was evidence of better collagen cross-linking in the cortical bone. Comparing the transcriptome of the tibia from individuals with good or poor bone quality genotypes indicated four differentially-expressed genes at the locus, one gene, cystathionine beta synthase (CBS), having a nine-fold higher expression in the genotype for low bone quality. The mechanism was cis-acting and although there was an amino-acid difference in the CBS protein between the genotypes, there was no difference in the activity of the enzyme. Plasma homocysteine concentration, the substrate of CBS, was higher in the poor bone quality genotype. Conclusions Validated markers that predict bone strength have been defined for selective breeding and a gene was identified that may suggest alternative ways to improve bone health in addition to genetic selection. The identification of how genetic variants affect different aspects of bone turnover shows potential for translational medicine

Non-global Structure of the O({\alpha}_s^2) Dijet Soft Function

High energy scattering processes involving jets generically involve matrix elements of light- like Wilson lines, known as soft functions. These describe the structure of soft contributions to observables and encode color and kinematic correlations between jets. We compute the dijet soft function to O({\alpha}_s^2) as a function of the two jet invariant masses, focusing on terms not determined by its renormalization group evolution that have a non-separable dependence on these masses. Our results include non-global single and double logarithms, and analytic results for the full set of non-logarithmic contributions as well. Using a recent result for the thrust constant, we present the complete O({\alpha}_s^2) soft function for dijet production in both position and momentum space.Comment: 55 pages, 8 figures. v2: extended discussion of double logs in the hard regime. v3: minor typos corrected, version published in JHEP. v4: typos in Eq. (3.33), (3.39), (3.43) corrected; this does not affect the main result, numerical results, or conclusion