Gemini Planet Imager Observational Calibrations III: Empirical Measurement Methods and Applications of High-Resolution Microlens PSFs

The newly commissioned Gemini Planet Imager (GPI) combines extreme adaptive optics, an advanced coronagraph, precision wavefront control and a lenslet-based integral field spectrograph (IFS) to measure the spectra of young extrasolar giant planets between 0.9-2.5 um. Each GPI detector image, when in spectral model, consists of ~37,000 microspectra which are under or critically sampled in the spatial direction. This paper demonstrates how to obtain high-resolution microlens PSFs and discusses their use in enhancing the wavelength calibration, flexure compensation and spectral extraction. This method is generally applicable to any lenslet-based integral field spectrograph including proposed future instrument concepts for space missions.Comment: 10 pages, 6 figures. Proceedings of the SPIE, 9147-282 v2: reference adde

iHabiMap: habitat mapping, monitoring and assessment using high-resolution imagery

Despite the ecological importance of natural habitats, they are facing threats of loss and degradation. The Habitats Directive requires EU countries to accurately map and monitor the condition of Annex I habitats. Ireland must report, map and monitor the conservation status of its Annex 1 habitats based on ecological field data every six years. This field-based mapping and assessment methodology, while desirable, is time-consuming and expensive. Thus, more efficient mapping approaches should be considered to supplement these traditional field-based methods. The use of remote sensing techniques to map, monitor and evaluate Irish habitats enables repeatable and cost-effective surveys. The advent of Unmanned Aerial Vehicles (UAVs) delivers new developments in the field of remote sensing by providing multi-sensor images with centimeter-level resolution. UAVs also offer flexible data acquisition suited for monitoring and change detection applications due to their independence from weather and cloud cover. The “Habitat Mapping, Assessment and Monitoring using High-Resolution Imagery” Project or iHabiMap is a part of Ireland’s initiative to produce detailed assessment of its habitats using ultra-high resolution images acquired from UAVs. Analytical approaches will be developed to map, assess, and monitor three habitats - upland, grasslands, and coastal zones, by utilizing UAV data and machine learning algorithms. This poster presentation will give an overview of the project. Multispectral data will be acquired and tested for each habitat. The methodology will provide a reproducible automated technique to enable frequent habitat mapping in Ireland. Field surveys will be conducted alongside the acquisition of UAV data at each study site. Overall, this study aims to develop and test a methodology that integrates remote sensing data and machine learning technologies to map and monitor these three Annex I habitats

Karstification in the Cuddapah Sedimentary Basin, Southern India: Implications for Groundwater Resources

The Cuddapah sedimentary basin extends over a significant part of the southern part of Andhra Pradesh State, Southern India. Proterozoic carbonate rocks in the basin are constituted by as three main units- the Vempalle dolomite, the Narji and Koilkuntla limestones. These carbonate rocks are of strategic importance for local communities as they provide the main water source for irrigation and domestic use and they are also intensively quarried for cement production and building stones. It is therefore, of primary importance to assess to which extent these carbonate units are karstified so as to provide recommendations for appropriate land and water resource management. The field investigations carried out indicate that these carbonate units are significantly karstified and karstification has been an ongoing process with several phases under variable climatic conditions. As a result, a significant part of aquifer recharge occurs as point-recharge through swallow-holes and groundwater flow is channelized by conduit networks which emerge at karst springs. Karst development was possibly more active during past humid conditions; however karstification is still an ongoing process under the present semi-arid climate especially in the favorable case where karst drains the runoff issued from upstream quartzitic hills. The karstic nature of these carbonate units need to be integrated in future research and development programmes to avoid practices that may lead to unexpected collapses, reservoir leaks, inaccurate groundwater budgeting, etc

Chromatin structure changes around satellite repeats on the Schistosoma mansoni female sex chromosome suggest a possible mechanism for sex chromosome emergence.

International audienceBACKGROUND: In the leuphotrochozoan parasitic platyhelminth Schistosoma mansoni, male individuals are homogametic (ZZ) whereas females are heterogametic (ZW). To elucidate the mechanisms that led to the emergence of sex chromosomes we compared the genomic sequence and the chromatin structure of male and female individuals. As for many eukaryotes, the lower estimate for the repeat content is 40%, with an unknown proportion of domesticated repeats. We used massive sequencing to de novo assemble all repeats, and identify unambiguously Z-specific, W-specific and pseudoautosomal regions of the S. mansoni sex chromosomes.RESULTS: We show that 70-90 % of S. mansoni W and Z are pseudoautosomal. No female specific gene could be identified. Instead, the W-specific region is composed almost entirely of 36 satellite repeat families, of which 33 were previously unknown. Transcription and chromatin status of female specific repeats are stage specific: for those repeats that are transcribed, transcription is restricted to the larval stages lacking sexual dimorphism. In contrast, in the sexually dimorphic adult stage of the life cycle, no transcription occurs. In addition, the euchromatic character of histone modifications around the W-specific repeats decreases during the life cycle. Recombination repression occurs in this region even if homologous sequences are present on both the Z and W chromosomes.CONCLUSION: Our study provides for the first time evidence for the hypothesis that, at least in organisms with a ZW type of sex chromosomes, repeat-induced chromatin structure changes could indeed be the initial event in sex chromosome emergence

Managed aquifer recharge in weathered crystalline basement aquifers in India: Monitoring of the effect of tank infiltration on water quality over several monsoon events

International audienceManaged aquifer recharge (MAR) structures like percolation tanks are considered by the Indian national and regional governments as major option for tackling declining groundwater levels due to overexploitation for irrigation purposes (Boisson et al., 2014). Their main purpose is to restore groundwater availability under strong climatic and anthropogenic pressure. Furthermore, MAR-induced dilution with fresh surface water is generally expected to improve groundwater quality with respect to both anthropogenic and geogenic contaminants (total mineralisation, nitrates, chlorides, sulphates and fluoride contents). The impact of a percolation tank on groundwater quality was investigated in a context that is typical for hydro-climatic and geological settings in southern and eastern India: fractured crystalline basement aquifers overlain by a weathering zone under semi-arid climate. Water level data and geochemical indicators (stable isotopes and major ions) were monitored for both groundwater and surface water, over several successive monsoon events. In case of high to very high water levels, the groundwater quality is globally improved. However, in a few cases, the quality of the groundwater can be negatively impacted due to leaching of salts under the tank, particularly during the first rain events of the monsoon. Geogenic fluoride contents in groundwater, induced by water-rock interaction and enhanced by recycling of agricultural return flow under paddy fields, is found to be relatively stable over the year. This finding points out that the underlying processes, mainly dissolution of F-bearing phases like fluorapatites combined with Ca/Na cation exchange and calcite precipitation , both limiting the possibility of F-removal via fluorite precipitation (Pettenati et al., 2013, 2014), are not impacted by the hydrological conditions. This work highlights the complexity of the recharge processes in crystalline aquifers, enhanced by the variability of hydrological conditions. It also provides insights into the possible risk for groundwater quality deterioration in cases of light and short monsoons periods

Constraints on the architecture of the HD 95086 planetary system with the Gemini Planet Imager

We present astrometric monitoring of the young exoplanet HD 95086 b obtained with the Gemini Planet Imager between 2013 and 2016. A small but significant position angle change is detected at constant separation; the orbital motion is confirmed with literature measurements. Efficient Monte Carlo techniques place preliminary constraints on the orbital parameters of HD 95086 b. With 68% confidence, a semimajor axis of 61.7^{+20.7}_{-8.4} au and an inclination of 153.0^{+9.7}_{-13.5} deg are favored, with eccentricity less than 0.21. Under the assumption of a co-planar planet-disk system, the periastron of HD 95086 b is beyond 51 au with 68% confidence. Therefore HD 95086 b cannot carve the entire gap inferred from the measured infrared excess in the SED of HD 95086. We use our sensitivity to additional planets to discuss specific scenarios presented in the literature to explain the geometry of the debris belts. We suggest that either two planets on moderately eccentric orbits or three to four planets with inhomogeneous masses and orbital properties are possible. The sensitivity to additional planetary companions within the observations presented in this study can be used to help further constrain future dynamical simulations of the planet-disk system.Comment: Accepted for publication in ApJ

Dynamical Mass Measurement of the Young Spectroscopic Binary V343 Normae AaAb Resolved With the Gemini Planet Imager

We present new spatially resolved astrometry and photometry from the Gemini Planet Imager of the inner binary of the young multiple star system V343 Normae, which is a member of the beta Pictoris moving group. V343 Normae comprises a K0 and mid-M star in a ~4.5 year orbit (AaAb) and a wide 10" M5 companion (B). By combining these data with archival astrometry and radial velocities we fit the orbit and measure individual masses for both components of M_Aa = 1.10 +/- 0.10 M_sun and M_Ab = 0.290 +/- 0.018 M_sun. Comparing to theoretical isochrones, we find good agreement for the measured masses and JHK band magnitudes of the two components consistent with the age of the beta Pic moving group. We derive a model-dependent age for the beta Pic moving group of 26 +/- 3 Myr by combining our results for V343 Normae with literature measurements for GJ 3305, which is another group member with resolved binary components and dynamical masses.Comment: 12 pages, 7 figures. Accepted to A

GPI spectra of HR 8799 c, d, and e from 1.5 to 2.4μ\mum with KLIP Forward Modeling

We explore KLIP forward modeling spectral extraction on Gemini Planet Imager coronagraphic data of HR 8799, using PyKLIP and show algorithm stability with varying KLIP parameters. We report new and re-reduced spectrophotometry of HR 8799 c, d, and e in H & K bands. We discuss a strategy for choosing optimal KLIP PSF subtraction parameters by injecting simulated sources and recovering them over a range of parameters. The K1/K2 spectra for HR 8799 c and d are similar to previously published results from the same dataset. We also present a K band spectrum of HR 8799 e for the first time and show that our H-band spectra agree well with previously published spectra from the VLT/SPHERE instrument. We show that HR 8799 c and d show significant differences in their H & K spectra, but do not find any conclusive differences between d and e or c and e, likely due to large error bars in the recovered spectrum of e. Compared to M, L, and T-type field brown dwarfs, all three planets are most consistent with mid and late L spectral types. All objects are consistent with low gravity but a lack of standard spectra for low gravity limit the ability to fit the best spectral type. We discuss how dedicated modeling efforts can better fit HR 8799 planets' near-IR flux and discuss how differences between the properties of these planets can be further explored.Comment: Accepted to AJ, 25 pages, 16 Figure

Chromatin structural changes around satellite repeats on the female sex chromosome in Schistosoma mansoni and their possible role in sex chromosome emergence

Background: In the leuphotrochozoan parasitic platyhelminth Schistosoma mansoni, male individuals are homogametic (ZZ) whereas females are heterogametic (ZW). To elucidate the mechanisms that led to the emergence of sex chromosomes, we compared the genomic sequence and the chromatin structure of male and female individuals. As for many eukaryotes, the lower estimate for the repeat content is 40%, with an unknown proportion of domesticated repeats. We used massive sequencing to de novo assemble all repeats, and identify unambiguously Z-specific, W-specific and pseudoautosomal regions of the S. mansoni sex chromosomes. Results: We show that 70 to 90% of S. mansoni W and Z are pseudoautosomal. No female-specific gene could be identified. Instead, the W-specific region is composed almost entirely of 36 satellite repeat families, of which 33 were previously unknown. Transcription and chromatin status of female-specific repeats are stage-specific: for those repeats that are transcribed, transcription is restricted to the larval stages lacking sexual dimorphism. In contrast, in the sexually dimorphic adult stage of the life cycle, no transcription occurs. In addition, the euchromatic character of histone modifications around the W-specific repeats decreases during the life cycle. Recombination repression occurs in this region even if homologous sequences are present on both the Z and W chromosomes. Conclusion: Our study provides for the first time evidence for the hypothesis that, at least in organisms with a ZW type of sex chromosomes, repeat-induced chromatin structure changes could indeed be the initial event in sex chromosome emergence.Keywords: Evolution, Dicer, Biomphalaria glabrata, Heterochromatin, Separate sexes, Argonaute Proteins, Y chromosomes, Genome, Repetitive DNA, Methylatio