Science.gov

Sample records for high-resolution comparative map

  1. High-resolution comparative mapping of the proximal region of the mouse X chromosome

    SciTech Connect

    Blair, H.J.; Boyd, Y.; Ho, M.; Monaco, A.P.

    1995-07-20

    The murine homologues of the loci for McLeod syndrome (XK), Dent`s disease (ClCN5), and synaptophysin (SYP) have been mapped to the proximal region of the mouse X chromosome and positioned with respect to other conserved loci in this region using a total of 948 progeny from two separate Mus musculus x Mus spretus backcrosses. In the mouse, the order of loci and evolutionary breakpoints (EB) has been established as centromere-(DXWas70, DXHXF34h)-EB-Clen5-(Syp, DXMit55, DXMit26)-Tfe3-Gata1-EB-Xk-Cybb-telomere. In the proximal region of the human X chromosome short arm, the position of evolutionary breakpoints with respect to key loci has been established as DMD-EB-XK-PFC-EB-GATA1-C1CN5-EB-DXS1272E-ALAS2-EB-DXF34-centromere. These data have enabled us to construct a high-resolution genetic map for the {approximately}3-cM interval between DXWas70 and Cybb on the mouse X chromosome, which encompasses 10 loci. This detailed map demonstrates the power of high-resolution genetic mapping in the mouse as a means of determining locus order in a small chromosomal region and of providing an accurate framework for the construction of physical maps. 31 refs., 4 figs., 1 tab.

  2. Mars high-resolution mapping

    NASA Astrophysics Data System (ADS)

    Batson, R. M.; Thomas, P. K.

    1991-06-01

    A series of photomosaics of high-resolution Viking Orbiter images of Mars is being prepared and published to support the Mars 1:500,000 scale geologic mapping program. More than 100 of these photomosaics were made manually, but for the last several years they have all been made digitally. The digital mosaics are published on the Mars Transverse Mercator (MTM) system, and they are also available to the appropriate principal investigators as digital files in the mosaicked digital image model (MDIM) format. The mosaics contain Viking Orbiter images with the highest available resolution: in some areas as high as 10 m/pixel. This resolution, where it exists, will support a 1:100,000 map scale. The full resolution of a mosaic is preserved in a digital file, but conventional lithographic publication of such large-scale inset maps will be done only if required by the geologic map author. When high-resolution images do not fill the neat lines of an MTM quadrangle, the medium-resolution (1/256 degrees/pixel, or 231 m/pixel) MDIM is used. The mosaics are tied by image-matching to the planetwide MDIM, in which random errors as large as 5 km (10 mm at 1:500,000 scale) are common; a few much larger, worst-case errors also occur. Because of the distribution of the errors, many large discrepancies appear along the cutlines between frames with very different resolutions. Furthermore, each block of quadrangles is compiled on its own local control system, and adjacent blocks, compiled later, are unlikely to match. Selection of areas to be mapped is based on geologic mapping proposals reviewed and recommended by the Mars 1:500,000 scale geologic mapping review panel. There is no intention to map the entire planet at this scale.

  3. High resolution optical DNA mapping

    NASA Astrophysics Data System (ADS)

    Baday, Murat

    Many types of diseases including cancer and autism are associated with copy-number variations in the genome. Most of these variations could not be identified with existing sequencing and optical DNA mapping methods. We have developed Multi-color Super-resolution technique, with potential for high throughput and low cost, which can allow us to recognize more of these variations. Our technique has made 10--fold improvement in the resolution of optical DNA mapping. Using a 180 kb BAC clone as a model system, we resolved dense patterns from 108 fluorescent labels of two different colors representing two different sequence-motifs. Overall, a detailed DNA map with 100 bp resolution was achieved, which has the potential to reveal detailed information about genetic variance and to facilitate medical diagnosis of genetic disease.

  4. High Resolution Camera for Mapping Titan Surface

    NASA Technical Reports Server (NTRS)

    Reinhardt, Bianca

    2011-01-01

    Titan, Saturn's largest moon, has a dense atmosphere and is the only object besides Earth to have stable liquids at its surface. The Cassini/Huygens mission has revealed the extraordinary breadth of geological processes shaping its surface. Further study requires high resolution imaging of the surface, which is restrained by light absorption by methane and scattering from aerosols. The Visual and Infrared Mapping Spectrometer (VIMS) onboard the Cassini spacecraft has demonstrated that Titan's surface can be observed within several windows in the near infrared, allowing us to process several regions in order to create a geological map and to determine the morphology. Specular reflections monitored on the lakes of the North Pole show little scattering at 5 microns, which, combined with the present study of Titan's northern pole area, refutes the paradigm that only radar can achieve high resolution mapping of the surface. The present data allowed us to monitor the evolution of lakes, to identify additional lakes at the Northern Pole, to examine Titan's hypothesis of non-synchronous rotation and to analyze the albedo of the North Pole surface. Future missions to Titan could carry a camera with 5 micron detectors and a carbon fiber radiator for weight reduction.

  5. High-resolution mapping of genotype-phenotype relationships in cridu chat syndrome using array comparative genomic hybridization

    SciTech Connect

    Zhang, Xiaoxiao; Snijders, Antoine; Segraves, Richard; Zhang,Xiuqing; Niebuhr, Anita; Albertson, Donna; Yang, Huanming; Gray, Joe; Niebuhr, Erik; Bolund, Lars; Pinkel, Dan

    2007-07-03

    We have used array comparative genomic hybridization to map DNA copy-number changes in 94 patients with cri du chat syndrome who had been carefully evaluated for the presence of the characteristic cry, speech delay, facial dysmorphology, and level of mental retardation (MR). Most subjects had simple deletions involving 5p (67 terminal and 12 interstitial). Genotype-phenotype correlations localized the region associated with the cry to 1.5 Mb in distal 5p15.31, between bacterial artificial chromosomes (BACs) containing markers D5S2054 and D5S676; speech delay to 3.2 Mb in 5p15.32-15.33, between BACs containing D5S417 and D5S635; and the region associated with facial dysmorphology to 2.4 Mb in 5p15.2-15.31, between BACs containing D5S208 and D5S2887. These results overlap and refine those reported in previous publications. MR depended approximately on the 5p deletion size and location, but there were many cases in which the retardation was disproportionately severe, given the 5p deletion. All 15 of these cases, approximately two-thirds of the severely retarded patients, were found to have copy-number aberrations in addition to the 5p deletion. Restriction of consideration to patients with only 5p deletions clarified the effect of such deletions and suggested the presence of three regions, MRI-III, with differing effect on retardation. Deletions including MRI, a 1.2-Mb region overlapping the previously defined cri du chat critical region but not including MRII and MRIII, produced a moderate level of retardation. Deletions restricted to MRII, located just proximal to MRI, produced a milder level of retardation, whereas deletions restricted to the still-more proximal MRIII produced no discernible phenotype. However, MR increased as deletions that included MRI extended progressively into MRII and MRIII, and MR became profound when all three regions were deleted.

  6. High-resolution comprehensive radiation hybrid maps of the porcine chromosomes 2p and 9p compared with the human chromosome 11.

    PubMed

    Liu, W-S; Yasue, H; Eyer, K; Hiraiwa, H; Shimogiri, T; Roelofs, B; Landrito, E; Ekstrand, J; Treat, M; Paes, N; Lemos, M; Griffith, A C; Davis, M L; Meyers, S N; Yerle, M; Milan, D; Beever, J E; Schook, L B; Beattie, C W

    2008-01-01

    We are constructing high-resolution, chromosomal 'test' maps for the entire pig genome using a 12,000-rad WG-RH panel (IMNpRH2(12,000-rad))to provide a scaffold for the rapid assembly of the porcine genome sequence. Here we present an initial, comparative map of human chromosome (HSA) 11 with pig chromosomes (SSC) 2p and 9p. Two sets of RH mapping vectors were used to construct the RH framework (FW) maps for SSC2p and SSC9p. One set of 590 markers, including 131 microsatellites (MSs), 364 genes/ESTs, and 95 BAC end sequences (BESs) was typed on the IMNpRH2(12,000-rad) panel. A second set of 271 markers (28 MSs, 138 genes/ESTs, and 105 BESs) was typed on the IMpRH(7,000-rad) panel. The two data sets were merged into a single data-set of 655 markers of which 206 markers were typed on both panels. Two large linkage groups of 72 and 194 markers were assigned to SSC2p, and two linkage groups of 84 and 168 markers to SSC9p at a two-point LOD score of 10. A total of 126 and 114 FW markers were ordered with a likelihood ratio of 1000:1 to the SSC2p and SSC9p RH(12,000-rad) FW maps, respectively, with an accumulated map distance of 4046.5 cR(12,000 )and 1355.2 cR(7,000 )for SSC2p, and 4244.1 cR(12,000) and 1802.5 cR(7,000) for SSC9p. The kb/cR ratio in the IMNpRH2(12,000-rad) FW maps was 15.8 for SSC2p, and 15.4 for SSC9p, while the ratio in the IMpRH(7,000-rad) FW maps was 47.1 and 36.3, respectively, or an approximately 3.0-fold increase in map resolution in the IMNpRH(12,000-rad) panel over the IMpRH(7,000-rad) panel. The integrated IMNpRH(12,000-rad) andIMpRH(7,000-rad) maps as well as the genetic and BAC FPC maps provide an inclusive comparative map between SSC2p, SSC9p and HSA11 to close potential gaps between contigs prior to sequencing, and to identify regions where potential problems may arise in sequence assembly. PMID:18467842

  7. Comparative Very-High-Resolution VUV Spectroscopy

    NASA Astrophysics Data System (ADS)

    Lewis, B. R.; Gibson, S. T.; Baldwin, K. G. H.; Dooley, P. M.; Waring, K.

    Despite their importance to the photochemistry of the terrestrial atmosphere, and many experimental studies, previous characterization of the Schumann-Runge (SR) bands of O2, B3 Σ u- <- X3 Σ_g^- (v, 0) (1750-2050 Å) has been limited by poor experimental resolution. In addition, our understanding of the SR spectrum is incomplete, many rovibrational transitions in the perturbed region of the spectrum [B(v > 15)] remaining unassigned. We review new very-high-resolution measurements of the O2 photoabsorption cross section in the SR bands. Tunable, narrow-bandwidth background vacuum-ultraviolet (VUV) radiation for the measurements ( 7 × 105 resolving power) was generated by the two-photon-resonant difference-frequency four-wave mixing in Xe of excimer-pumped dye-laser radiation. With the aid of these cross-section measurements, rovibrational and line-shape analyses have led to new insights into the molecular structure and predissociation dynamics of O2. The current VUV laser-spectroscopic measurements are shown to compare favourably with results from two other very-high-resolution experimental techniques, namely laser-induced fluorescence spectroscopy and VUV Fourier-transform spectroscopy, the latter performed using a synchrotron source.

  8. High Resolution Airborne Shallow Water Mapping

    NASA Astrophysics Data System (ADS)

    Steinbacher, F.; Pfennigbauer, M.; Aufleger, M.; Ullrich, A.

    2012-07-01

    In order to meet the requirements of the European Water Framework Directive (EU-WFD), authorities face the problem of repeatedly performing area-wide surveying of all kinds of inland waters. Especially for mid-sized or small rivers this is a considerable challenge imposing insurmountable logistical efforts and costs. It is therefore investigated if large-scale surveying of a river system on an operational basis is feasible by employing airborne hydrographic laser scanning. In cooperation with the Bavarian Water Authority (WWA Weilheim) a pilot project was initiated by the Unit of Hydraulic Engineering at the University of Innsbruck and RIEGL Laser Measurement Systems exploiting the possibilities of a new LIDAR measurement system with high spatial resolution and high measurement rate to capture about 70 km of riverbed and foreland for the river Loisach in Bavaria/Germany and the estuary and parts of the shoreline (about 40km in length) of lake Ammersee. The entire area surveyed was referenced to classic terrestrial cross-section surveys with the aim to derive products for the monitoring and managing needs of the inland water bodies forced by the EU-WFD. The survey was performed in July 2011 by helicopter and airplane and took 3 days in total. In addition, high resolution areal images were taken to provide an optical reference, offering a wide range of possibilities on further research, monitoring, and managing responsibilities. The operating altitude was about 500 m to maintain eye-safety, even for the aided eye, the airspeed was about 55 kts for the helicopter and 75 kts for the aircraft. The helicopter was used in the alpine regions while the fixed wing aircraft was used in the plains and the urban area, using appropriate scan rates to receive evenly distributed point clouds. The resulting point density ranged from 10 to 25 points per square meter. By carefully selecting days with optimum water quality, satisfactory penetration down to the river bed was achieved

  9. Genome-wide SNP identification for the construction of a high-resolution genetic map of Japanese flounder (Paralichthys olivaceus): applications to QTL mapping of Vibrio anguillarum disease resistance and comparative genomic analysis.

    PubMed

    Shao, Changwei; Niu, Yongchao; Rastas, Pasi; Liu, Yang; Xie, Zhiyuan; Li, Hengde; Wang, Lei; Jiang, Yong; Tai, Shuaishuai; Tian, Yongsheng; Sakamoto, Takashi; Chen, Songlin

    2015-04-01

    High-resolution genetic maps are essential for fine mapping of complex traits, genome assembly, and comparative genomic analysis. Single-nucleotide polymorphisms (SNPs) are the primary molecular markers used for genetic map construction. In this study, we identified 13,362 SNPs evenly distributed across the Japanese flounder (Paralichthys olivaceus) genome. Of these SNPs, 12,712 high-confidence SNPs were subjected to high-throughput genotyping and assigned to 24 consensus linkage groups (LGs). The total length of the genetic linkage map was 3,497.29 cM with an average distance of 0.47 cM between loci, thereby representing the densest genetic map currently reported for Japanese flounder. Nine positive quantitative trait loci (QTLs) forming two main clusters for Vibrio anguillarum disease resistance were detected. All QTLs could explain 5.1-8.38% of the total phenotypic variation. Synteny analysis of the QTL regions on the genome assembly revealed 12 immune-related genes, among them 4 genes strongly associated with V. anguillarum disease resistance. In addition, 246 genome assembly scaffolds with an average size of 21.79 Mb were anchored onto the LGs; these scaffolds, comprising 522.99 Mb, represented 95.78% of assembled genomic sequences. The mapped assembly scaffolds in Japanese flounder were used for genome synteny analyses against zebrafish (Danio rerio) and medaka (Oryzias latipes). Flounder and medaka were found to possess almost one-to-one synteny, whereas flounder and zebrafish exhibited a multi-syntenic correspondence. The newly developed high-resolution genetic map, which will facilitate QTL mapping, scaffold assembly, and genome synteny analysis of Japanese flounder, marks a milestone in the ongoing genome project for this species.

  10. Genome-wide SNP identification for the construction of a high-resolution genetic map of Japanese flounder (Paralichthys olivaceus): applications to QTL mapping of Vibrio anguillarum disease resistance and comparative genomic analysis.

    PubMed

    Shao, Changwei; Niu, Yongchao; Rastas, Pasi; Liu, Yang; Xie, Zhiyuan; Li, Hengde; Wang, Lei; Jiang, Yong; Tai, Shuaishuai; Tian, Yongsheng; Sakamoto, Takashi; Chen, Songlin

    2015-04-01

    High-resolution genetic maps are essential for fine mapping of complex traits, genome assembly, and comparative genomic analysis. Single-nucleotide polymorphisms (SNPs) are the primary molecular markers used for genetic map construction. In this study, we identified 13,362 SNPs evenly distributed across the Japanese flounder (Paralichthys olivaceus) genome. Of these SNPs, 12,712 high-confidence SNPs were subjected to high-throughput genotyping and assigned to 24 consensus linkage groups (LGs). The total length of the genetic linkage map was 3,497.29 cM with an average distance of 0.47 cM between loci, thereby representing the densest genetic map currently reported for Japanese flounder. Nine positive quantitative trait loci (QTLs) forming two main clusters for Vibrio anguillarum disease resistance were detected. All QTLs could explain 5.1-8.38% of the total phenotypic variation. Synteny analysis of the QTL regions on the genome assembly revealed 12 immune-related genes, among them 4 genes strongly associated with V. anguillarum disease resistance. In addition, 246 genome assembly scaffolds with an average size of 21.79 Mb were anchored onto the LGs; these scaffolds, comprising 522.99 Mb, represented 95.78% of assembled genomic sequences. The mapped assembly scaffolds in Japanese flounder were used for genome synteny analyses against zebrafish (Danio rerio) and medaka (Oryzias latipes). Flounder and medaka were found to possess almost one-to-one synteny, whereas flounder and zebrafish exhibited a multi-syntenic correspondence. The newly developed high-resolution genetic map, which will facilitate QTL mapping, scaffold assembly, and genome synteny analysis of Japanese flounder, marks a milestone in the ongoing genome project for this species. PMID:25762582

  11. Updating Maps Using High Resolution Satellite Imagery

    NASA Astrophysics Data System (ADS)

    Alrajhi, Muhamad; Shahzad Janjua, Khurram; Afroz Khan, Mohammad; Alobeid, Abdalla

    2016-06-01

    Kingdom of Saudi Arabia is one of the most dynamic countries of the world. We have witnessed a very rapid urban development's which are altering Kingdom's landscape on daily basis. In recent years a substantial increase in urban populations is observed which results in the formation of large cities. Considering this fast paced growth, it has become necessary to monitor these changes, in consideration with challenges faced by aerial photography projects. It has been observed that data obtained through aerial photography has a lifecycle of 5-years because of delay caused by extreme weather conditions and dust storms which acts as hindrances or barriers during aerial imagery acquisition, which has increased the costs of aerial survey projects. All of these circumstances require that we must consider some alternatives that can provide us easy and better ways of image acquisition in short span of time for achieving reliable accuracy and cost effectiveness. The approach of this study is to conduct an extensive comparison between different resolutions of data sets which include: Orthophoto of (10 cm) GSD, Stereo images of (50 cm) GSD and Stereo images of (1 m) GSD, for map updating. Different approaches have been applied for digitizing buildings, roads, tracks, airport, roof level changes, filling stations, buildings under construction, property boundaries, mosques buildings and parking places.

  12. High resolution mapping of total deposition of acidifying pollutants

    NASA Astrophysics Data System (ADS)

    de Vos, Thierri; Zhang, Leiming

    2012-09-01

    A framework has been developed to estimate dry and wet deposition over Southern Belgium for a variety of acidifying substances on a 5 × 5 km2 grid. Concentrations of different compounds in the atmosphere or in the precipitation are provided by the measurement networks (both stations and gauges) and are interpolated over Southern Belgium. Dry deposition velocities are calculated using local meteorology and land use information, following the approach described in Zhang et al. (2001, 2003). Local precipitation is provided by merged radar-gauge observations. This is the first high resolution framework for Southern Belgium computing both time- and space-dependent deposition, using a modified kriging interpolation method (for SO2 and NO2), as well as radar-based precipitation. Estimated dry and wet depositions are compared with long range transport (LRT) model results, based on the European emission inventories. Although a good agreement is observed between our results and LRT model results on the annual totals averaged over Southern Belgium, the extent of agreement for the spatial variability of the annual deposition differs significantly from one pollutant to another. This new framework provides consistent high resolution maps for several pollutants, while improving the mapping of dry and wet deposition in Southern Belgium, in order to assess critical loads exceedances.

  13. High resolution fire risk mapping in Italy

    NASA Astrophysics Data System (ADS)

    Fiorucci, Paolo; Biondi, Guido; Campo, Lorenzo; D'Andrea, Mirko

    2014-05-01

    extinguishing actions, leaving more resources to improve safety in areas at risk. With the availability of fire perimeters mapped over a period spanning from 5 to 10 years, depending by the region, a procedure was defined in order to assess areas at risk with high spatial resolution (900 m2) based on objective criteria by observing past fire events. The availability of fire perimeters combined with a detailed knowledge of topography and land cover allowed to understand which are the main features involved in forest fire occurrences and their behaviour. The seasonality of the fire regime was also considered, partitioning the analysis in two macro season (November- April and May- October). In addition, the total precipitation obtained from the interpolation of 30 years-long time series from 460 raingauges and the average air temperature obtained downscaling 30 years ERA-INTERIM data series were considered. About 48000 fire perimeters which burnt about 5500 km2 were considered in the analysis. The analysis has been carried out at 30 m spatial resolution. Some important considerations relating to climate and the territorial features that characterize the fire regime at national level contribute to better understand the forest fire phenomena. These results allow to define new strategies for forest fire prevention and management extensible to other geographical areas.

  14. A high resolution CO map of M51

    NASA Technical Reports Server (NTRS)

    Adler, D. S.; Lo, K. Y.; Allen, R. J.

    1990-01-01

    Observations of the CO (1-0) emission in two fields of M51 were taken with the Berkeley-Illinois-Maryland Array at Hat Creek, California from May 1988 to February 1989. When combined with two previously observed fields (Lo et al. 1988), a complete map of the central 5 minute x 4 minute at a resolution of 7 seconds x 10 seconds was obtained. The project is part of an ongoing high-resolution survey of the molecular, atomic, and ionized gas distributions in nearby spiral galaxies. The two recently observed fields can be compared to the results of the interferometric study of Vogel et al. (1988 - hereafter VKS). Since the shortest spacing in the current survey is shorter than that of VKS, researchers expect to see more of the extended emission. This is evident when comparing the width of the spiral arms in each survey; ours are a bit broader. While some of the peaks in this region correspond to the peaks in VKS, several of them do not. These discrepancies are probably because of the low signal to noise inherent in observations of this nature. Single-dish maps are currently being readied for inclusion with the interferometer data. These will help fill the short-spacing hole in the UV plane, and serve to recover the flux missing from the interferometer maps.

  15. High-Resolution Land Use and Land Cover Mapping

    USGS Publications Warehouse

    ,

    1999-01-01

    As the Nation?s population grows, quantifying, monitoring, and managing land use becomes increasingly important. The U.S. Geological Survey (USGS) has a long heritage of leadership and innovation in land use and land cover (LULC) mapping that has been the model both nationally and internationally for over 20 years. At present, the USGS is producing high-resolution LULC data for several watershed and urban areas within the United States. This high-resolution LULC mapping is part of an ongoing USGS Land Cover Characterization Program (LCCP). The four components of the LCCP are global (1:2,000,000-scale), national (1:100,000-scale), urban (1:24,000-scale), and special projects (various scales and time periods). Within the urban and special project components, the USGS Rocky Mountain Mapping Center (RMMC) is collecting historical as well as contemporary high-resolution LULC data. RMMC?s high-resolution LULC mapping builds on the heritage and success of previous USGS LULC programs and provides LULC information to meet user requirements.

  16. High resolution data base for use with MAP

    SciTech Connect

    Tapley, W.C.; Harris, D.B.

    1987-05-05

    A high resolution cartographic data base of thw World is available from the CIA. We obtained this data, extracted portions of the data, and produced cartographic files of varying resolutions. The resulting data files are of the proper format for use with MAP (2), our in-house cartographic plotting program.

  17. Comparing High Resolution Weather Forecasts to Observations

    NASA Astrophysics Data System (ADS)

    Foley, T. A.; Smith, J. A.; Raby, J. W.

    2013-12-01

    cannot be seen when the statistics are aggregated over the entire domain. This study uses a geographical information system (GIS) to compare WRF forecasts against gridded observations from multiple data sources.

  18. High-resolution mapping of motor vehicle carbon dioxide emissions

    NASA Astrophysics Data System (ADS)

    McDonald, Brian C.; McBride, Zoe C.; Martin, Elliot W.; Harley, Robert A.

    2014-05-01

    A fuel-based inventory for vehicle emissions is presented for carbon dioxide (CO2) and mapped at various spatial resolutions (10 km, 4 km, 1 km, and 500 m) using fuel sales and traffic count data. The mapping is done separately for gasoline-powered vehicles and heavy-duty diesel trucks. Emission estimates from this study are compared with the Emissions Database for Global Atmospheric Research (EDGAR) and VULCAN. All three inventories agree at the national level within 5%. EDGAR uses road density as a surrogate to apportion vehicle emissions, which leads to 20-80% overestimates of on-road CO2 emissions in the largest U.S. cities. High-resolution emission maps are presented for Los Angeles, New York City, San Francisco-San Jose, Houston, and Dallas-Fort Worth. Sharp emission gradients that exist near major highways are not apparent when emissions are mapped at 10 km resolution. High CO2 emission fluxes over highways become apparent at grid resolutions of 1 km and finer. Temporal variations in vehicle emissions are characterized using extensive day- and time-specific traffic count data and are described over diurnal, day of week, and seasonal time scales. Clear differences are observed when comparing light- and heavy-duty vehicle traffic patterns and comparing urban and rural areas. Decadal emission trends were analyzed from 2000 to 2007 when traffic volumes were increasing and a more recent period (2007-2010) when traffic volumes declined due to recession. We found large nonuniform changes in on-road CO2 emissions over a period of ~5 years, highlighting the importance of timely updates to motor vehicle emission inventories.

  19. High Resolution Ionospheric Mapping Using Spaceborne Synthetic Aperture Radars

    NASA Astrophysics Data System (ADS)

    Meyer, F. J.; Chotoo, K.; Roth, A. P.

    2012-12-01

    properties, and (if applicable) geographic location. Three case studies will be presented to highlight the type and quality of ionospheric information that can be retrieved: (1) The high spatial resolution of SAR-derived TEC maps is emphasized in a case study that focuses on high resolution mapping of aurora arcs in central Alaska. Here, TEC enhancements associated with aurora activity are mapped and compared to reference observations from sky cameras and GPS; (2) observations of mid-latitudal traveling ionospheric disturbances are shown to showcase the accuracy of SAR-derived TEC maps. Several SAR-based TEC mapping methods are compared to highlight their respective advantages and disadvantages regarding processing complexity and estimation accuracy; (3) a third example focuses on analyzing post-sunset scintillation phenomena in equatorial regions. SAR is used to assess the frequency of occurrence of scintillation and analyze their associated power spectra. To conclude the paper, the temporal and spatial sampling of the ionosphere provided by the fleet of current and future spaceborne SAR sensors is analyzed to provide an assessment of the global ionospheric mapping capabilities of SAR.

  20. Clickstream Data Yields High-Resolution Maps of Science

    PubMed Central

    Bollen, Johan; Van de Sompel, Herbert; Rodriguez, Marko A.; Balakireva, Lyudmila

    2009-01-01

    Background Intricate maps of science have been created from citation data to visualize the structure of scientific activity. However, most scientific publications are now accessed online. Scholarly web portals record detailed log data at a scale that exceeds the number of all existing citations combined. Such log data is recorded immediately upon publication and keeps track of the sequences of user requests (clickstreams) that are issued by a variety of users across many different domains. Given these advantages of log datasets over citation data, we investigate whether they can produce high-resolution, more current maps of science. Methodology Over the course of 2007 and 2008, we collected nearly 1 billion user interactions recorded by the scholarly web portals of some of the most significant publishers, aggregators and institutional consortia. The resulting reference data set covers a significant part of world-wide use of scholarly web portals in 2006, and provides a balanced coverage of the humanities, social sciences, and natural sciences. A journal clickstream model, i.e. a first-order Markov chain, was extracted from the sequences of user interactions in the logs. The clickstream model was validated by comparing it to the Getty Research Institute's Architecture and Art Thesaurus. The resulting model was visualized as a journal network that outlines the relationships between various scientific domains and clarifies the connection of the social sciences and humanities to the natural sciences. Conclusions Maps of science resulting from large-scale clickstream data provide a detailed, contemporary view of scientific activity and correct the underrepresentation of the social sciences and humanities that is commonly found in citation data. PMID:19277205

  1. Clickstream data yields high-resolution maps of science

    SciTech Connect

    Bollen, Johan; Van De Sompel, Herbert; Hagberg, Aric; Bettencourt, Luis; Chute, Ryan; Rodriguez, Marko A; Balakireva, Lyudmila

    2009-01-01

    Intricate maps of science have been created from citation data to visualize the structure of scientific activity. However, most scientific publications are now accessed online. Scholarly web portals record detailed log data at a scale that exceeds the number of all existing citations combined. Such log data is recorded immediately upon publication and keeps track of the sequences of user requests (clickstreams) that are issued by a variety of users across many different domains. Given these advantagees of log datasets over citation data, we investigate whether they can produce high-resolution, more current maps of science.

  2. High resolution map of light pollution over Poland

    NASA Astrophysics Data System (ADS)

    Netzel, Henryka; Netzel, Paweł

    2016-09-01

    In 1976 Berry introduced a simple mathematical equation to calculate artificial night sky brightness at zenith. In the original model cities, considered as points with given population, are only sources of light emission. In contrary to Berry's model, we assumed that all terrain surface can be a source of light. Emission of light depends on percent of built up area in a given cell. We based on Berry's model. Using field measurements and high-resolution data we obtained the map of night sky brightness over Poland in 100-m resolution. High resolution input data, combined with a very simple model, makes it possible to obtain detailed structures of the night sky brightness without complicating the calculations.

  3. Airborne laser scanning for high-resolution mapping of Antarctica

    NASA Astrophysics Data System (ADS)

    Csatho, Bea; Schenk, Toni; Krabill, William; Wilson, Terry; Lyons, William; McKenzie, Garry; Hallam, Cheryl; Manizade, Serdar; Paulsen, Timothy

    In order to evaluate the potential of airborne laser scanning for topographic mapping in Antarctica and to establish calibration/validation sites for NASA's Ice, Cloud and land Elevation Satellite (ICESat) altimeter mission, NASA, the U.S. National Science Foundation (NSF), and the U.S. Geological Survey (USGS) joined forces to collect high-resolution airborne laser scanning data.In a two-week campaign during the 2001-2002 austral summer, NASA's Airborne Topographic Mapper (ATM) system was used to collect data over several sites in the McMurdo Sound area of Antarctica (Figure 1a). From the recorded signals, NASA computed laser points and The Ohio State University (OSU) completed the elaborate computation/verification of high-resolution Digital Elevation Models (DEMs) in 2003. This article reports about the DEM generation and some exemplary results from scientists using the geomorphologic information from the DEMs during the 2003-2004 field season.

  4. From amplification to gene in thyroid cancer: A high-resolution mapped bacterial-artificial-chromosome resource for cancer chromosome aberrations guides gene discovery after comparative genome hybridization

    SciTech Connect

    Chen, X.N.; Gonsky, R.; Korenberg, J.R.; Knauf, J.A.; Fagin, J.A.; Chissoe, S.

    1998-08-01

    Chromosome rearrangements associated with neoplasms provide a rich resource for definition of the pathways of tumorigenesis. The power of comparative genome hybridization (CGH) to identify novel genes depends on the existence of suitable markers, which are lacking throughout most of the genome. The authors now report a general approach that translates CGH data into higher-resolution genomic-clone data that are then used to define the genes located in aneuploid regions. They used CGH to study 33 thyroid-tumor DNAs and two tumor-cell-line DNAs. The results revealed amplifications of chromosome band 2p21, with less-intense amplification on 2p13, 19q13.1, and 1p36 and with least-intense amplification on 1p34, 1q42, 5q31, 5q33-34, 9q32-34, and 14q32. To define the 2p21 region amplified, a dense array of 373 FISH-mapped chromosome 2 bacterial artificial chromosomes (BACs) was constructed, and 87 of these were hybridized to a tumor-cell line. Four BACs carried genomic DNA that was amplified in these cells. The maximum amplified region was narrowed to 3--6 Mb by multicolor FISH with the flanking BACs, and the minimum amplicon size was defined by a contig of 420 kb. Sequence analysis of the amplified BAC 1D9 revealed a fragment of the gene, encoding protein kinase C epsilon (PKC{epsilon}), that was then shown to be amplified and rearranged in tumor cells. In summary, CGH combined with a dense mapped resource of BACs and large-scale sequencing has led directly to the definition of PKC{epsilon} as a previously unmapped candidate gene involved in thyroid tumorigenesis.

  5. Mapping Crop Yield and Sow Date Using High Resolution Imagery

    NASA Astrophysics Data System (ADS)

    Royal, K.

    2015-12-01

    Keitasha Royal, Meha Jain, Ph.D., David Lobell, Ph.D Mapping Crop Yield and Sow Date Using High Resolution ImageryThe use of satellite imagery in agriculture is becoming increasingly more significant and valuable. Due to the emergence of new satellites, such as Skybox, these satellites provide higher resolution imagery (e.g 1m) therefore improving the ability to map smallholder agriculture. For the smallholder farm dominated area of northern India, Skybox high-resolution satellite imagery can aid in understanding how to improve farm yields. In particular, we are interested in mapping winter wheat in India, as this region produces approximately 80% of the country's wheat crop, which is important given that wheat is a staple crop that provides approximately 20% of household calories. In northeast India, the combination of increased heat stress, limited irrigation access, and the difficulty for farmers to access advanced farming technologies results in farmers only producing about 50% of their potential crop yield. The use of satellite imagery can aid in understanding wheat yields through time and help identify ways to increase crop yields in the wheat belt of India. To translate Skybox satellite data into meaningful information about wheat fields, we examine vegetation indices, such as the normalized difference vegetation index (NDVI), to measure the "greenness" of plants to help determine the health of the crops. We test our ability to predict crop characteristics, like sow date and yield, using vegetation indices of 59 fields for which we have field data in Bihar, India.

  6. High-Resolution Underwater Mapping Using Side-Scan Sonar.

    PubMed

    Burguera, Antoni; Oliver, Gabriel

    2016-01-01

    The goal of this study is to generate high-resolution sea floor maps using a Side-Scan Sonar(SSS). This is achieved by explicitly taking into account the SSS operation as follows. First, the raw sensor data is corrected by means of a physics-based SSS model. Second, the data is projected to the sea-floor. The errors involved in this projection are thoroughfully analysed. Third, a probabilistic SSS model is defined and used to estimate the probability of each sea-floor region to be observed. This probabilistic information is then used to weight the contribution of each SSS measurement to the map. Because of these models, arbitrary map resolutions can be achieved, even beyond the sensor resolution. Finally, a geometric map building method is presented and combined with the probabilistic approach. The resulting map is composed of two layers. The echo intensity layer holds the most likely echo intensities at each point in the sea-floor. The probabilistic layer contains information about how confident can the user or the higher control layers be about the echo intensity layer data. Experimental results have been conducted in a large subsea region. PMID:26821379

  7. High-Resolution Underwater Mapping Using Side-Scan Sonar

    PubMed Central

    2016-01-01

    The goal of this study is to generate high-resolution sea floor maps using a Side-Scan Sonar(SSS). This is achieved by explicitly taking into account the SSS operation as follows. First, the raw sensor data is corrected by means of a physics-based SSS model. Second, the data is projected to the sea-floor. The errors involved in this projection are thoroughfully analysed. Third, a probabilistic SSS model is defined and used to estimate the probability of each sea-floor region to be observed. This probabilistic information is then used to weight the contribution of each SSS measurement to the map. Because of these models, arbitrary map resolutions can be achieved, even beyond the sensor resolution. Finally, a geometric map building method is presented and combined with the probabilistic approach. The resulting map is composed of two layers. The echo intensity layer holds the most likely echo intensities at each point in the sea-floor. The probabilistic layer contains information about how confident can the user or the higher control layers be about the echo intensity layer data. Experimental results have been conducted in a large subsea region. PMID:26821379

  8. High-Resolution Underwater Mapping Using Side-Scan Sonar.

    PubMed

    Burguera, Antoni; Oliver, Gabriel

    2016-01-01

    The goal of this study is to generate high-resolution sea floor maps using a Side-Scan Sonar(SSS). This is achieved by explicitly taking into account the SSS operation as follows. First, the raw sensor data is corrected by means of a physics-based SSS model. Second, the data is projected to the sea-floor. The errors involved in this projection are thoroughfully analysed. Third, a probabilistic SSS model is defined and used to estimate the probability of each sea-floor region to be observed. This probabilistic information is then used to weight the contribution of each SSS measurement to the map. Because of these models, arbitrary map resolutions can be achieved, even beyond the sensor resolution. Finally, a geometric map building method is presented and combined with the probabilistic approach. The resulting map is composed of two layers. The echo intensity layer holds the most likely echo intensities at each point in the sea-floor. The probabilistic layer contains information about how confident can the user or the higher control layers be about the echo intensity layer data. Experimental results have been conducted in a large subsea region.

  9. Mars 1:500k high resolution map bases

    NASA Astrophysics Data System (ADS)

    Lee, E. M.; Edwards, K.; Grecu, A.; Redding, B.; Wasserman, A.; Bennett, A.

    1997-03-01

    The Mars 1:500k map bases are high-resolution black and white digital photomosaics generated to support the Mars Geologic Mapping Program. The Viking Orbiter images are used to map areas of scientific interest. The final products provided to the mapper include a cutline plot indicating image location and resolution, digital files, and a package consisting of a brownline, cronapaque, cronaflex, ozalid, and continuous tone photographic print. The mosaics are compiled by digital methods. The Planetary Imaging Cartography System (PICS) software, developed by the U.S. Geological Survey, was used to process the digital mosaics. The Integrated Software for Imaging Spectrometers (ISIS) software within the UNIX environment will be used starting this year to replace PICS. Currently, ISIS runs on SUN and Alpha platforms. The images are processed through reseau mark, and systematic and random noise artifact removal, radiometric correction, geometric control, and tone matching, to produce an even-toned controlled photomosaic. The maps are geometrically controlled to the Mars Digital Image Model and mosaicked at a resolution of 1024 pixels/deg or 58 m/pixel.

  10. High-resolution mapping of bifurcations in nonlinear biochemical circuits.

    PubMed

    Genot, A J; Baccouche, A; Sieskind, R; Aubert-Kato, N; Bredeche, N; Bartolo, J F; Taly, V; Fujii, T; Rondelez, Y

    2016-08-01

    Analog molecular circuits can exploit the nonlinear nature of biochemical reaction networks to compute low-precision outputs with fewer resources than digital circuits. This analog computation is similar to that employed by gene-regulation networks. Although digital systems have a tractable link between structure and function, the nonlinear and continuous nature of analog circuits yields an intricate functional landscape, which makes their design counter-intuitive, their characterization laborious and their analysis delicate. Here, using droplet-based microfluidics, we map with high resolution and dimensionality the bifurcation diagrams of two synthetic, out-of-equilibrium and nonlinear programs: a bistable DNA switch and a predator-prey DNA oscillator. The diagrams delineate where function is optimal, dynamics bifurcates and models fail. Inverse problem solving on these large-scale data sets indicates interference from enzymatic coupling. Additionally, data mining exposes the presence of rare, stochastically bursting oscillators near deterministic bifurcations.

  11. High-resolution mapping of bifurcations in nonlinear biochemical circuits

    NASA Astrophysics Data System (ADS)

    Genot, A. J.; Baccouche, A.; Sieskind, R.; Aubert-Kato, N.; Bredeche, N.; Bartolo, J. F.; Taly, V.; Fujii, T.; Rondelez, Y.

    2016-08-01

    Analog molecular circuits can exploit the nonlinear nature of biochemical reaction networks to compute low-precision outputs with fewer resources than digital circuits. This analog computation is similar to that employed by gene-regulation networks. Although digital systems have a tractable link between structure and function, the nonlinear and continuous nature of analog circuits yields an intricate functional landscape, which makes their design counter-intuitive, their characterization laborious and their analysis delicate. Here, using droplet-based microfluidics, we map with high resolution and dimensionality the bifurcation diagrams of two synthetic, out-of-equilibrium and nonlinear programs: a bistable DNA switch and a predator–prey DNA oscillator. The diagrams delineate where function is optimal, dynamics bifurcates and models fail. Inverse problem solving on these large-scale data sets indicates interference from enzymatic coupling. Additionally, data mining exposes the presence of rare, stochastically bursting oscillators near deterministic bifurcations.

  12. High-resolution mapping of bifurcations in nonlinear biochemical circuits

    NASA Astrophysics Data System (ADS)

    Genot, A. J.; Baccouche, A.; Sieskind, R.; Aubert-Kato, N.; Bredeche, N.; Bartolo, J. F.; Taly, V.; Fujii, T.; Rondelez, Y.

    2016-08-01

    Analog molecular circuits can exploit the nonlinear nature of biochemical reaction networks to compute low-precision outputs with fewer resources than digital circuits. This analog computation is similar to that employed by gene-regulation networks. Although digital systems have a tractable link between structure and function, the nonlinear and continuous nature of analog circuits yields an intricate functional landscape, which makes their design counter-intuitive, their characterization laborious and their analysis delicate. Here, using droplet-based microfluidics, we map with high resolution and dimensionality the bifurcation diagrams of two synthetic, out-of-equilibrium and nonlinear programs: a bistable DNA switch and a predator-prey DNA oscillator. The diagrams delineate where function is optimal, dynamics bifurcates and models fail. Inverse problem solving on these large-scale data sets indicates interference from enzymatic coupling. Additionally, data mining exposes the presence of rare, stochastically bursting oscillators near deterministic bifurcations.

  13. High-resolution mapping of bifurcations in nonlinear biochemical circuits.

    PubMed

    Genot, A J; Baccouche, A; Sieskind, R; Aubert-Kato, N; Bredeche, N; Bartolo, J F; Taly, V; Fujii, T; Rondelez, Y

    2016-08-01

    Analog molecular circuits can exploit the nonlinear nature of biochemical reaction networks to compute low-precision outputs with fewer resources than digital circuits. This analog computation is similar to that employed by gene-regulation networks. Although digital systems have a tractable link between structure and function, the nonlinear and continuous nature of analog circuits yields an intricate functional landscape, which makes their design counter-intuitive, their characterization laborious and their analysis delicate. Here, using droplet-based microfluidics, we map with high resolution and dimensionality the bifurcation diagrams of two synthetic, out-of-equilibrium and nonlinear programs: a bistable DNA switch and a predator-prey DNA oscillator. The diagrams delineate where function is optimal, dynamics bifurcates and models fail. Inverse problem solving on these large-scale data sets indicates interference from enzymatic coupling. Additionally, data mining exposes the presence of rare, stochastically bursting oscillators near deterministic bifurcations. PMID:27442281

  14. High-resolution mapping of protein sequence-function relationships.

    PubMed

    Fowler, Douglas M; Araya, Carlos L; Fleishman, Sarel J; Kellogg, Elizabeth H; Stephany, Jason J; Baker, David; Fields, Stanley

    2010-09-01

    We present a large-scale approach to investigate the functional consequences of sequence variation in a protein. The approach entails the display of hundreds of thousands of protein variants, moderate selection for activity and high-throughput DNA sequencing to quantify the performance of each variant. Using this strategy, we tracked the performance of >600,000 variants of a human WW domain after three and six rounds of selection by phage display for binding to its peptide ligand. Binding properties of these variants defined a high-resolution map of mutational preference across the WW domain; each position had unique features that could not be captured by a few representative mutations. Our approach could be applied to many in vitro or in vivo protein assays, providing a general means for understanding how protein function relates to sequence.

  15. Exploring for subtle traps with high-resolution paleogeographic maps

    SciTech Connect

    Bulling, T.B.; Breyer, J.A.

    1988-01-01

    High-resolution paleogeographic maps depicting the depositional history of the Reklaw 1 interval provide a basis for prospecting for subtle traps in the updip Reklaw trend in south Texas. The Reklaw 1 interval began with sand being carried southwest by longshore currents to form the barrier bar that forms the reservoir in Atkinson field. The hydrocarbons are trapped by the updip pinch-out of barrier-bar sand into lagoonal mud. Stratigraphic traps similar to Atkinson field could be present along depositional strike if the sand in the field were part of a more extensive-bar system. After the barrier bar formed, distributary-mouth bars prograded seaward depositing the bar-finger sands that are the reservoirs in Hysaw and Flax fields. Subtle structural traps could be present where small down-to-the-north faults associated with the Sample fault system cut the bar-finger sands downdip from the established production. Farther down paleoslope, the distributary channels began to bifurcate and the distributary-mouth bar coalesced to form a broad delt-front sheet sand. Burnell, Hondo Creek, and Runge West fields produce from this sheet sand near the unstable shelf margin. A rapid rise in relative sea level terminated deposition of the Reklaw 1 interval. Many of the oil and gas fields remaining to be discovered in the United States are in mature petroleum provinces where much of the remaining oil and gas probably resides in subtle traps. High-resolution paleogeographic maps may be a key to finding these subtle traps.

  16. Application of laser microdissection ICP-MS for high resolution elemental mapping in mouse brain tissue: a comparative study with laser ablation ICP-MS.

    PubMed

    Sussulini, Alessandra; Becker, J Sabine

    2015-01-01

    Mapping of elements in biological tissue by laser induced mass spectrometry is a fast growing analytical methodology in life sciences. This method provides a multitude of useful information of metal, nonmetal, metalloid and isotopic distribution at major, minor and trace concentration ranges, usually with a lateral resolution of 12-160 µm. Selected applications in medical research require an improved lateral resolution of laser induced mass spectrometric technique at the low micrometre scale and below. The present work demonstrates the applicability of a recently developed analytical methodology - laser microdissection associated to inductively coupled plasma mass spectrometry (LMD ICP-MS) - to obtain elemental images of different solid biological samples at high lateral resolution. LMD ICP-MS images of mouse brain tissue samples stained with uranium and native are shown, and a direct comparison of LMD and laser ablation (LA) ICP-MS imaging methodologies, in terms of elemental quantification, is performed. PMID:25476347

  17. Mapping Hazardous River Ice from High Resolution Satellite Imagery

    NASA Astrophysics Data System (ADS)

    Jones, C.; Kielland, K.; Prakash, A.; Hinzman, L. D.

    2014-12-01

    In interior Alaska, frozen river systems are important transportation corridors, due to the very limited road network. Long-time Alaskan residents report that winter travel conditions on Interior rivers have become more dangerous in recent memory. Field experience suggested that visual clues may provide experienced river travelers with clues of ice conditions. We explored the utility of airborne or satellite imagery as useful tools to map dangerous ice conditions on rivers in interior Alaska. Unsupervised classification of high-resolution satellite imagery was used to identify and map open water and degraded ice conditions on the Tanana River. An accuracy assessment indicated that snow, degraded ice, and open water were mapped with an overall accuracy of 73%, producer's accuracies between (82 and 100%), and user's accuracy ranging from (62 to 86%). Over 95% of the errors were caused by shadowing of trees or topographic features in the snow. The classification system performed well for a variety of satellite images and across different satellite platforms. With further development, these types of satellite remote sensing tools could prove to be very useful across a range of disciplines and industry in northern climates.

  18. High resolution soil moisture mapping using Distributed Temperature Sensing

    NASA Astrophysics Data System (ADS)

    Dong, Jianzhi; Steele-Dunne, Susan; Ochsner, Tyson; van de Giesen, Nick

    2016-04-01

    Distributed Temperature Sensing (DTS) can measure high resolution (spatial < 1 m, and temporal < 1 min) soil temperature at multiple depths at scales up to kilometers. This study presents a data assimilation framework for robustly estimating soil moisture using DTS observed soil temperature data. The combination of advanced data assimilation techniques and DTS produces a tool for high spatial and temporal resolution soil moisture mapping. To robustly extract soil moisture information from the evolution of soil temperatures, we use a new data assimilation algorithm, particle batch smoother (PBS). Synthetic, as well as real point and DTS data were use develop the data assimilation framework. In addition to estimating soil moisture, the PBS was also used to estimate soil thermal and hydraulic properties by assimilating soil temperatures. The improved soil hydraulic properties fundamentally benefit the forward model in the data assimilation framework, which leads to the most robust soil moisture estimates. Finally, we applied the proposed data assimilation frame work to a real transect of DTS cable. The estimated soil moisture and soil properties are validated using data observed at a nearby site. The DTS mapped soil moisture shows that the soil moisture spatial variability is a strong function of the areal mean soil moisture, which is consistent with previous studies. Results so far indicate that we can finally use DTS to understand intermediate scale soil moisture spatial variability, and link soil moisture measurements at different scales.

  19. MBARI Mapping AUV: A High-Resolution Deep-Ocean Seafloor Mapping Capability

    NASA Astrophysics Data System (ADS)

    Kirkwood, W. J.; Caress, D. W.; Thomas, H.; McEwen, R.; Henthorn, R.; Sibenac, M.; McGill, P.; Hamilton, A.; Shane, F.; Thompson, D.; Jensen, S.; Salamy, K.

    2005-12-01

    The Monterey Bay Aquarium Research Institute (MBARI) has developed an autonomous seafloor mapping capability for deep ocean science applications. The MBARI Mapping AUV is a 0.53 m (21 in) diameter, 5.1 m (16.7 ft) long, Dorado-class vehicle designed to carry four mapping sonars. The primary sensor is a 200 kHz multibeam sonar producing swath bathymetry and sidescan. In addition, the vehicle carries 100 kHz and 410 kHz chirp sidescan sonars, and a 2-16 kHz sweep chirp subbottom profiler. Navigation and attitude data are obtained from an inertial navigation system (INS) incorporating a ring laser gyro and a 300 kHz Doppler velocity log (DVL). The vehicle also includes acoustic modem, ultra-short baseline navigation, and long-baseline navigation systems. The Mapping AUV is powered by 6 kWhr of Li-polymer batteries, providing a mission duration of 12 hours at a typical speed of 1.5 m/s. All components of the vehicle are rated to 6000 m depth, allowing MBARI to conduct high-resolution mapping of the deep-ocean seafloor. The sonar package can also be mounted on ROV Ventana, allowing surveys at altitudes less than 10 m at topographically challenging sites. The vehicle was assembled and underwent initial tests during 2004. During 2005 we have commenced science survey operations while completing the integration and testing of the complete suite of sensors and systems. MBARI is now using this capability in both autonomous and ROV-mounted surveys to observe the changing morphology of dynamic systems such as submarine canyons and active slumps, to map deep-water benthic habitats at resolutions comparable to ROV and submersible observations, to provide basemaps for ROV dives, and to provide high resolution bathymetry and subbottom profiles in support of seafloor observatory installations.

  20. High-Resolution Geologic Mapping in the Eastern Manus Basin

    NASA Astrophysics Data System (ADS)

    Thal, J.; Bach, W.; Tivey, M.; Yoerger, D. R.

    2011-12-01

    AUV-based microbathymetry combined with ROV video data was used to create the first high-resolution geologic maps of two hydrothermal active areas in the eastern Manus Basin: North Su volcano and PACManus hydrothermal field on Pual Ridge. The data were recorded in 2006 and 2011 during the research cruises Magellan-06 operated by the Woods Hole Oceanographic Institution and BAMBUS (SO-216) operated by MARUM / University Bremen. High accuracy underwater navigation transponder-based and Posidonia systems allowed us to combine video data with bathymetry. The navigation on both cruises was very precise (m-scale) and navigation offsets were less than 10 m. We conducted detailed geologic mapping and sampling to identify the seafloor volcanic and hydrothermal features and created highly detailed maps that provide a comprehensive picture of the seafloor and vent distribution in the eastern Manus Basin. Several different types of dacite lava morphology were mapped, including pillow lava, lobate flows and massive block lava. We have compiled all available information on rock chemistry, fluid and temperature measurements, video data, bathymetry and navigation data into a GIS database. We find that, in contrast to the tectonic control on vent distribution at slow spreading mid-ocean ridges, the pathways of upwelling hydrothermal vent fluids at PACManus are dominated by volcanic features, such as lava domes and thick, massive block lava flows. Vent fields are developed preferentially along the margins of major flow units, probably because the cores of these units are impermeable to fluid flow, while the autobrecciated outer parts of the flows are not. In the North Su area, a comparison of seafloor maps from 2006 and 2011 reveals recent volcanic activity, which has strongly modified the bathymetry and hydrothermal vent distribution on the southern flank of the volcano. An ash cone with multiple small craters on the SW flank of the North-Su volcano that didn't exist in 2006 was

  1. High-resolution genetic mapping of complex traits.

    PubMed Central

    Kruglyak, L; Lander, E S

    1995-01-01

    Positional cloning requires high-resolution genetic mapping. To plan a positional cloning project, one needs to know how many informative meioses will be required to narrow the search for a disease gene to an acceptably small region. For a simple Mendelian trait studied with linkage analysis, the answer is straightforward. In this paper, we address the situation of a complex trait studied with affected-relative-pair methods. We derive mathematical formulas for the size of an appropriate confidence region, as a function of the relative risk attributable to the gene. Using these results, we provide graphs showing the number of relative pairs required to narrow the gene hunt to an interval of a given size. For example, we show that localizing a gene to 1 cM requires a median of 200 sib pairs for a locus causing a fivefold increased risk to an offspring and 700 sib pairs for a locus causing a twofold increased risk. We discuss the implications of these results for the positional cloning of genes underlying complex traits. PMID:7726179

  2. High-resolution genetic mapping of complex traits

    SciTech Connect

    Zruglyak, L.; Lander, E.S. |

    1995-05-01

    Positional cloning requires high-resolution genetic mapping. To plan a positional cloning project, one needs to know how many informative meioses will be required to narrow the search for a disease gene to an acceptably small region. For a simple Mendelian trait studied with linkage analysis, the answer is straightforward. In this paper, we address the situation of a complex trait studied with affected-relative-pair methods. We derive mathematical formulas for the size of an appropriate confidence region, as a function of the relative risk attributable to the gene. Using these results, we provide graphs showing the number of relative pairs required to narrow the gene hunt to an interval of a given size. For example, we show that localizing a gene to a 1 cM requires a median of 200 sib pairs for a locus causing a fivefold increased risk to an offspring and 700 sib pairs for a locus causing a twofold increased risk. We discuss the implications of these results for the positional cloning of genes underlying complex traits. 11 refs., 7 figs., 2 tabs.

  3. Genome-Wide High-Resolution Mapping by Recurrent Intermating Using Arabidopsis Thaliana as a Model

    PubMed Central

    Liu, S. C.; Kowalski, S. P.; Lan, T. H.; Feldmann, K. A.; Paterson, A. H.

    1996-01-01

    We demonstrate a method for developing populations suitable for genome-wide high-resolution genetic linkage mapping, by recurrent intermating among F(2) individuals derived from crosses between homozygous parents. Comparison of intermated progenies to F(2) and ``recombinant inbred'' (RI) populations from the same pedigree corroborate theoretical expectations that progenies intermated for four generations harbor about threefold more information for estimating recombination fraction between closely linked markers than either RI-selfed or F(2) individuals (which are, in fact, equivalent in this regard). Although intermated populations are heterozygous, homozygous ``intermated recombinant inbred'' (IRI) populations can readily be generated, combining additional information afforded by intermating with the permanence of RI populations. Intermated populations permit fine-mapping of genetic markers throughout a genome, helping to bridge the gap between genetic map resolution and the DNA-carrying capacity of modern cloning vectors, thus facilitating merger of genetic and physical maps. Intermating can also facilitate high-resolution mapping of genes and QTLs, accelerating map-based cloning. Finally, intermated populations will facilitate investigation of other fundamental genetic questions requiring a genome-wide high-resolution analysis, such as comparative mapping of distantly related species, and the genetic basis of heterosis. PMID:8770602

  4. MBARI Mapping AUV: A High-Resolution Deep Ocean Seafloor Mapping Capability

    NASA Astrophysics Data System (ADS)

    Caress, D. W.; Kirkwood, W. J.; Thomas, H.; McEwen, R.; Henthorn, R.; McGill, P.; Thompson, D.; Sibenac, M.; Jensen, S.; Shane, F.; Hamilton, A.

    2005-05-01

    The Monterey Bay Aquarium Research Institute (MBARI) is developing an autonomous seafloor mapping capability for deep ocean science applications. The MBARI Mapping AUV is a 0.53 m (21 in) diameter, 5.1 m (16.7 ft) long, Dorado-class vehicle designed to carry four mapping sonars. The primary sensor is a 200 kHz multibeam sonar producing swath bathymetry and sidescan. In addition, the vehicle carries 100 kHz and 410 kHz chirp sidescan sonars, and a 2-16 kHz sweep chirp subbottom profiler. Navigation and attitude data are obtained from an inertial navigation system (INS) incorporating a ring laser gyro and a 300 kHz Doppler velocity log (DVL). The vehicle also includes acoustic modem, ultra-short baseline navigation, and long-baseline navigation systems. The Mapping AUV is powered by 6 kWhr of Li-polymer batteries, providing expected mission duration of 12 hours at a typical speed of 1.5 m/s. All components of the vehicle are rated to 6000 m depth, allowing MBARI to conduct high-resolution mapping of the deep-ocean seafloor. The sonar package is also be mountable on ROV Ventana, allowing surveys at altitudes less than 20 m at topographically challenging sites. The vehicle was assembled and extensively tested during 2004; this year we are commencing operations for MBARI science projects while continuing the process of testing and integrating the complete suite of sensors and systems. MBARI is beginning to use this capability to observe the changing morphology of dynamic systems such as submarine canyons and active slumps, to map deep-water benthic habitats at resolutions comparable to ROV and submersible observations, to provide basemaps for ROV dives, and to provide high resolution bathymetry and subbottom profiles as part of a variety of projects requiring knowledge of the seafloor. We will present initial results from surveys in and around Monterey Canyon, including high resolution repeat surveys of four sites along the canyon axis.

  5. Towards a Global High Resolution Peatland Map in 2020

    NASA Astrophysics Data System (ADS)

    Barthelmes, Alexandra; Barthelmes, Karen-Doreen; Dommain, Rene; Margalef, Olga; Joosten, Hans

    2014-05-01

    Some 3% of land area on planet Earth (approx. 4 million km2) is covered by peatlands. About 10% (~ 0.3 % of the land area) are drained and responsible for a disproportional 5 % of the global anthropogenic CO2 emissions (Victoria et al., 2012). Additionally, peatland drainage and degradation lead to land subsidence, soil degradation, water pollution, and enhanced susceptibility to fire (Holden et al., 2004; Joosten et al., 2012). The global importance of peatlands for carbon storage and climate change mitigation has only recently been recognized in international policy - only since 2008 organic soils are subject of discussion in the UN Framework Convention on Climate Change (UNFCCC) (Joosten, 2011). In May 2013 the European Parliament decided that the global post 2020 climate agreement should include the obligation to report emissions and removals from peatland drainage and rewetting. Implementation of such program, however, necessitates the rapid availability of reliable, comprehensive, high resolution, spatially explicit data on the extent and status of peatlands. For many reporting countries this requires an innovation in peatland mapping, i.e. the better and integrative use of novel, but already available methods and technologies. We developed an approach that links various science networks, methodologies and data bases, including those of peatland/landscape ecology for understanding where and how peatlands may occur, those of remote sensing for identifying possible locations, and those of pedology (legacy soil maps) and (palaeo-)ecology for ground truthing. Such integration of old field data, specialized knowledge, and modern RS and GIS technologies enables acquiring a rapid, comprehensive, detailed and rather reliable overview, even on a continental scale. We illustrate this approach with a high resolution overview of peatland distribution, area, status and greenhouse gas fluxes for East Africa (including the Horn of Africa, the African Great Lakes region and

  6. Towards a Global High Resolution Peatland Map in 2020

    NASA Astrophysics Data System (ADS)

    Barthelmes, Alexandra; Barthelmes, Karen-Doreen; Joosten, Hans; Dommain, Rene; Margalef, Olga

    2015-04-01

    Some 3% of land area on planet Earth (approx. 4 million km2) is covered by peatlands. About 10% (~ 0.3 % of the land area) are drained and responsible for a disproportional 5 % of the global anthropogenic CO2 emissions (Victoria et al., 2012). Additionally, peatland drainage and degradation lead to land subsidence, soil degradation, water pollution, and enhanced susceptibility to fire (Holden et al., 2004; Joosten et al., 2012). The global importance of peatlands for carbon storage and climate change mitigation has currently been recognized in international policy - since 2008 organic soils are subject of discussion in the UN Framework Convention on Climate Change (UNFCCC) (Joosten, 2011). In May 2013 the European Parliament decided that the global post 2020 climate agreement should include the obligation to report emissions and removals from peatland drainage and rewetting. Implementation of such program, however, necessitates the rapid availability of reliable, comprehensive, high resolution, spatially explicit data on the extent and status of peatlands. For many reporting countries this requires an innovation in peatland mapping, i.e. the better and integrative use of novel, but already available methods and technologies. We developed an approach that links various science networks, methodologies and data bases, including those of peatland/landscape ecology for understanding where and how peatlands may occur, those of remote sensing for identifying possible locations, and those of pedology (legacy soil maps) and (palaeo-)ecology for ground truthing. Such integration of old field data, specialized knowledge, and modern RS and GIS technologies enables acquiring a rapid, comprehensive, detailed and rather reliable overview, even on a continental scale. We illustrate this approach with a high resolution overview of peatland distribution, area, status and greenhouse gas fluxes e.g. for the East African countries Rwanda, Burundi, Uganda and Zambia. Furthermore, we

  7. High-resolution structural mapping in Southwest Candor Chasma

    NASA Astrophysics Data System (ADS)

    Okubo, C. H.; Lewis, K.; McEwen, A. S.; Kirk, R.; HiRISE Team

    2007-12-01

    We report initial results of high-resolution structural mapping of layered deposits in southwest Candor Chasma, near the contact with the surrounding wall rock. Mapping is accomplished on a digital terrain model created from stereo HiRISE imagery, with postings at every one meter. A prominent stratigraphic package, herein referred to as the 'Slickrock Member', is present throughout the study area and consists of a characteristic sequence of massive and friable layers. Mapping of the Slickrock Member reveals both the stratigraphic continuity between faults and folds, as well as the younging direction throughout the study area. Numerous synclines, anticlines and monoclines generally trend NW-SE and have wavelengths of ca. 0.5-0.7 km. Present-day exposures through these folds indicate that at least several hundred meters of layered deposits have been eroded and removed. Normal and thrust faults are identified from the dip direction of the fault plane and sense of bedding offset. These faults generally strike NE-SW to E-W. Fault dip angles are consistent with an effective rock friction of ca. 30 degrees. Thrust faults have lengths that are 1-2 km or more, while normal faults are generally less than 0.5 km in length. Damage zones occur at several fault stopovers and bends, and fault propagation folds are also observed. Thrust fault vergence directions appear non-systematic, consistent with thick-skinned deformation. Fault planes have a ridge-like erosional morphology that rises up to 5 m above the surrounding terrain, consistent with an origin through deformation band processes. Faults crosscut the NW-SE- trending folds and these faults do not appear to be folded, indicating that brittle deformation occurred after formation of the folds. These overlapping styles of deformation, and senses of faulting, reveal multiple changes in the orientations and magnitudes of the principal stresses that drove deformation in this area. Further, large-scale normal faulting associated

  8. High Resolution Velocity Map Imaging Photoelectron Spectroscopy of the Beryllium Oxide Anion, BeO-

    NASA Astrophysics Data System (ADS)

    Dermer, Amanda Reed; Mascaritolo, Kyle; Heaven, Michael

    2016-06-01

    The photodetachment spectrum of BeO- has been studied using high resolution velocity map imaging photoelectron spectroscopy. The vibrational contours were imaged and compared with Franck-Condon simulations for the ground and excited states of the neutral. The electron affinity of BeO was measured for the first time, and anisotropies of several transitions were determined. Experimental findings are compared to high level ab initio calculations.

  9. Estimation of high-resolution dust column density maps. Empirical model fits

    NASA Astrophysics Data System (ADS)

    Juvela, M.; Montillaud, J.

    2013-09-01

    Context. Sub-millimetre dust emission is an important tracer of column density N of dense interstellar clouds. One has to combine surface brightness information at different spatial resolutions, and specific methods are needed to derive N at a resolution higher than the lowest resolution of the observations. Some methods have been discussed in the literature, including a method (in the following, method B) that constructs the N estimate in stages, where the smallest spatial scales being derived only use the shortest wavelength maps. Aims: We propose simple model fitting as a flexible way to estimate high-resolution column density maps. Our goal is to evaluate the accuracy of this procedure and to determine whether it is a viable alternative for making these maps. Methods: The new method consists of model maps of column density (or intensity at a reference wavelength) and colour temperature. The model is fitted using Markov chain Monte Carlo methods, comparing model predictions with observations at their native resolution. We analyse simulated surface brightness maps and compare its accuracy with method B and the results that would be obtained using high-resolution observations without noise. Results: The new method is able to produce reliable column density estimates at a resolution significantly higher than the lowest resolution of the input maps. Compared to method B, it is relatively resilient against the effects of noise. The method is computationally more demanding, but is feasible even in the analysis of large Herschel maps. Conclusions: The proposed empirical modelling method E is demonstrated to be a good alternative for calculating high-resolution column density maps, even with considerable super-resolution. Both methods E and B include the potential for further improvements, e.g., in the form of better a priori constraints.

  10. High resolution digital soil mapping as a future instrument for developing sustainable landuse strategies

    NASA Astrophysics Data System (ADS)

    Gries, Philipp; Funke, Lisa-Marie; Baumann, Frank; Schmidt, Karsten; Behrens, Thorsten; Scholten, Thomas

    2016-04-01

    Climate change, increase in population and intensification of land use pose a great challenge for sustainable handling of soils. Intelligent landuse systems are able to minimize and/or avoid soil erosion and loss of soil fertility. A successful application of such systems requires area-wide soil information with high resolution. Containing three consecutive steps, the project INE-2-H („innovative sustainable landuse") at the University of Tuebingen is about creating high-resolution soil information using Digital Soil Mapping (DSM) techniques to develop sustainable landuse strategies. Input data includes soil data from fieldwork (texture and carbon content), the official digital soil and geological map (1:50.000) as well as a wide selection of local, complex and combined terrain parameters. First, soil maps have been created using the DSM approach and Random Forest (RF). Due to high resolution (10x10 m pixels), those maps show a more detailed spatial variability of soil information compared to the official maps used. Root mean square errors (RMSE) of the modelled maps vary from 2.11 % to 6.87 % and the coefficients of determination (R²) go from 0.42 to 0.68. Second, soil erosion potentials have been estimated according to the Universal Soil Loss Equation (USLE). Long-term average annual soil loss ranges from 0.56 to 24.23 [t/ha/a]. Third, combining high-resolution erosion potentials with expert-knowledge of local farmers will result in a landuse system adapted to local conditions. This system will include sustainable strategies reducing soil erosion and conserving soil fertility.

  11. Comparative Assessment of Very High Resolution Satellite and Aerial Orthoimagery

    NASA Astrophysics Data System (ADS)

    Agrafiotis, P.; Georgopoulos, A.

    2015-03-01

    This paper aims to assess the accuracy and radiometric quality of orthorectified high resolution satellite imagery from Pleiades-1B satellites through a comparative evaluation of their quantitative and qualitative properties. A Pleiades-B1 stereopair of high resolution images taken in 2013, two adjacent GeoEye-1 stereopairs from 2011 and aerial orthomosaic (LSO) provided by NCMA S.A (Hellenic Cadastre) from 2007 have been used for the comparison tests. As control dataset orthomosaic from aerial imagery provided also by NCMA S.A (0.25m GSD) from 2012 was selected. The process for DSM and orthoimage production was performed using commercial digital photogrammetric workstations. The two resulting orthoimages and the aerial orthomosaic (LSO) were relatively and absolutely evaluated for their quantitative and qualitative properties. Test measurements were performed using the same check points in order to establish their accuracy both as far as the single point coordinates as well as their distances are concerned. Check points were distributed according to JRC Guidelines for Best Practice and Quality Checking of Ortho Imagery and NSSDA standards while areas with different terrain relief and land cover were also included. The tests performed were based also on JRC and NSSDA accuracy standards. Finally, tests were carried out in order to assess the radiometric quality of the orthoimagery. The results are presented with a statistical analysis and they are evaluated in order to present the merits and demerits of the imaging sensors involved for orthoimage production. The results also serve for a critical approach for the usability and cost efficiency of satellite imagery for the production of Large Scale Orthophotos.

  12. Mariner 9 high-resolution albedo mapping of Mars

    NASA Technical Reports Server (NTRS)

    Devaucouleurs, G.

    1974-01-01

    Large and small scale albedo markings obtained from Mariner 9 photographs and ground based telescope observations are shown on quadrangle charts with a scale of 1:5,000,000. Mercator and stereographic projections at the same scale are presented of the various regions of Mars along with explanatory information about their preparation. Changes in the albedo for the Solis Lacus area were observed and are compared with previous data for the same region. Large scale relief maps covering up to 1.7 million sq miles of the Martian surface are included.

  13. Force scanning: A rapid, high-resolution approach for spatial mechanical property mapping

    PubMed Central

    Darling, E M

    2011-01-01

    Atomic force microscopy (AFM) can be used to co-localize mechanical properties and topographical features through property mapping techniques. The most common approach for testing biological materials at the micro-and nano-scales is force mapping, which involves taking individual force curves at discrete sites across a region of interest. Limitations of force mapping include long testing times and low resolution. While newer AFM methodologies, like modulated scanning and torsional oscillation, circumvent this problem, their adoption for biological materials has been limited. This could be due to their need for specialized software algorithms and/or hardware. The objective of this study is to develop a novel force scanning technique using AFM to rapidly capture high-resolution topographical images of soft biological materials while simultaneously quantifying their mechanical properties. Force scanning is a straight-forward methodology applicable to a wide range of materials and testing environments, requiring no special modification to standard AFMs. Essentially, if a contact mode image can be acquired, then force scanning can be used to produce a spatial modulus map. The current study first validates this technique using agarose gels, comparing results to the standard force mapping approach. Biologically relevant demonstrations are then presented for high-resolution modulus mapping of individual cells, cell-cell interfaces, and articular cartilage tissue. PMID:21411911

  14. High resolution comparative genomic hybridisation in clinical cytogenetics

    PubMed Central

    Kirchhoff, M.; Rose, H.; Lundsteen, C.

    2001-01-01

    High resolution comparative genomic hybridisation (HR-CGH) is a diagnostic tool in our clinical cytogenetics laboratory. The present survey reports the results of 253 clinical cases in which 47 abnormalities were detected. Among 144 dysmorphic and mentally retarded subjects with a normal conventional karyotype, 15 (10%) had small deletions or duplications, of which 11 were interstitial. In addition, a case of mosaic trisomy 9 was detected. Among 25 dysmorphic and mentally retarded subjects carrying apparently balanced de novo translocations, four had deletions at translocation breakpoints and two had deletions elsewhere in the genome. Seventeen of 19 complex rearrangements were clarified by HR-CGH. A small supernumerary marker chromosome occurring with low frequency and the breakpoint of a mosaic r(18) case could not be clarified. Three of 19 other abnormalities could not be confirmed by HR-CGH. One was a Williams syndrome deletion and two were DiGeorge syndrome deletions, which were apparently below the resolution of HR-CGH. However, we were able to confirm Angelman and Prader-Willi syndrome deletions, which are about 3-5 Mb. We conclude that HR-CGH should be used for the evaluation of (1) dysmorphic and mentally retarded subjects where normal karyotyping has failed to show abnormalities, (2) dysmorphic and mentally retarded subjects carrying apparently balanced de novo translocations, (3) apparently balanced de novo translocations detected prenatally, and (4) for clarification of complex structural rearrangements.


Keywords: comparative genomic hybridisation; chromosome analysis; chromosome aberrations; dysmorphism PMID:11694545

  15. THEMIS high-resolution digital terrain: Topographic and thermophysical mapping of Gusev Crater, Mars

    USGS Publications Warehouse

    Cushing, G.E.; Titus, T.N.; Soderblom, L.A.; Kirk, R.L.

    2009-01-01

    We discuss a new technique to generate high-resolution digital terrain models (DTMs) and to quantitatively derive and map slope-corrected thermophysical properties such as albedo, thermal inertia, and surface temperatures. This investigation is a continuation of work started by Kirk et al. (2005), who empirically deconvolved Thermal Emission Imaging System (THEMIS) visible and thermal infrared data of this area, isolating topographic information that produced an accurate DTM. Surface temperatures change as a function of many variables such as slope, albedo, thermal inertia, time, season, and atmospheric opacity. We constrain each of these variables to construct a DTM and maps of slope-corrected albedo, slope- and albedo-corrected thermal inertia, and surface temperatures across the scene for any time of day or year and at any atmospheric opacity. DTMs greatly facilitate analyses of the Martian surface, and the MOLA global data set is not finely scaled enough (128 pixels per degree, ???0.5 km per pixel near the equator) to be combined with newer data sets (e.g., High Resolution Imaging Science Experiment, Context Camera, and Compact Reconnaissance Imaging Spectrometer for Mars at ???0.25, ???6, and ???20 m per pixel, respectively), so new techniques to derive high-resolution DTMs are always being explored. This paper discusses our technique of combining a set of THEMIS visible and thermal infrared observations such that albedo and thermal inertia variations within the scene are eliminated and only topographic variations remain. This enables us to produce a high-resolution DTM via photoclinometry techniques that are largely free of albedo-induced errors. With this DTM, THEMIS observations, and a subsurface thermal diffusion model, we generate slope-corrected maps of albedo, thermal inertia, and surface temperatures. In addition to greater accuracy, these products allow thermophysical properties to be directly compared with topography.

  16. MOURA Martian magnetometer potential for high resolution magnetic mapping

    NASA Astrophysics Data System (ADS)

    Díaz-Michelena, Marina; Kilian, Rolf

    2013-04-01

    Mars Global Surveyor (MGS) mission mapped the magnetic signature all along the Martian globe during its operation between 1996 and 2006. These data shows that Mars does not present an active global magnetic field as the Earth. However, the Martian crust has an overall magnetic signature stronger than the Earth which was inherited from the active magnetic field of the Martian core during its early cooling history. The MGS survey shows plenty of magnetic anomalies located in particular within high lands of its Southern Hemisphere. Several magnetic models have been derived to explain the MGS data considering magnetic dipoles distribution in the Martian crust with moderate to high magnetic intensities and pronounced regional anomalies. However, the origin of major magnetic anomalies remains highly disputed [1]. From the magnetic investigation point of view it would be of major importance to perform near-surface magnetic measurements [2] to compare both surface and in orbit (between 100 and 440 km) data. This would help to comprehend not only the distribution of the magnetic dipoles but also to make progress in the identification of different rock types and understanding of their degree of alteration which could have modified superficial magnetic signatures. In the frame of Finnish-Russian and Spanish MetNet mission, to perform meteorological studies on Martian surface, a miniaturized magnetometer and gradiometer named MOURA was developed with the objective to improve the interpretation of the magnetic anomalies and their origin. In order to test this magnetometer, comparative on Earth magnetic measurements were performed with MOURA and a reference absolute scalar magnetometer (Geometrics 853) in areas with a representative and large variation of magmatic rocks compositions. The final goal is to test the appropriateness of the developed magnetometer for the in situ measurements on Mars. The active continental margin of the Patagonian Andes was used for this case study

  17. Creating High-Resolution Maps of Leaf Water Isotopes Using IM-CRDS and IRMS Techniques

    NASA Astrophysics Data System (ADS)

    Gerlein-Safdi, C.; Sinkler, C. J.; Caylor, K. K.

    2014-12-01

    Since the development of isotope ratio infrared spectroscopy (IRIS), the applications of water isotope analysis have been increasing. Here, we present a new protocol to create high-resolution maps of leaf water isotopes 18O and 2H. We use the Picarro induction module (IM-CRDS) combined with an isotope analyzer (L2130-i) to sample up to 25 locations in one half of each leaf. Each sampling location corresponds to four samples (6 mm outside diameter punched-holes) punched next to each other. In the induction module, an induction coil heats a metal holder containing the leaf sample. The sample will release water vapor that is then sent to the isotope analyzer. The IM-CRDS allows us to significantly reduce the sample size and therefore increase the sample density, compared to the traditional cryogenic extraction method. Using spatial analysis tools, we create high-resolution spatial maps of each isotope as well as d-excess maps. The water in the second half of the leaf is extracted by cryogenic extraction and analyzed using both IRIS and isotope ratio mass spectroscopy. The isotopic composition of the extracted water is compared to the average composition calculated from the maps and used for calibration. We present applications of this protocol to the analysis of the spatio-temporal evolution of foliar uptake in Colocasia esculenta under laboratory conditions.

  18. High resolution hybrid optical and acoustic sea floor maps (Invited)

    NASA Astrophysics Data System (ADS)

    Roman, C.; Inglis, G.

    2013-12-01

    This abstract presents a method for creating hybrid optical and acoustic sea floor reconstructions at centimeter scale grid resolutions with robotic vehicles. Multibeam sonar and stereo vision are two common sensing modalities with complementary strengths that are well suited for data fusion. We have recently developed an automated two stage pipeline to create such maps. The steps can be broken down as navigation refinement and map construction. During navigation refinement a graph-based optimization algorithm is used to align 3D point clouds created with both the multibeam sonar and stereo cameras. The process combats the typical growth in navigation error that has a detrimental affect on map fidelity and typically introduces artifacts at small grid sizes. During this process we are able to automatically register local point clouds created by each sensor to themselves and to each other where they overlap in a survey pattern. The process also estimates the sensor offsets, such as heading, pitch and roll, that describe how each sensor is mounted to the vehicle. The end results of the navigation step is a refined vehicle trajectory that ensures the points clouds from each sensor are consistently aligned, and the individual sensor offsets. In the mapping step, grid cells in the map are selectively populated by choosing data points from each sensor in an automated manner. The selection process is designed to pick points that preserve the best characteristics of each sensor and honor some specific map quality criteria to reduce outliers and ghosting. In general, the algorithm selects dense 3D stereo points in areas of high texture and point density. In areas where the stereo vision is poor, such as in a scene with low contrast or texture, multibeam sonar points are inserted in the map. This process is automated and results in a hybrid map populated with data from both sensors. Additional cross modality checks are made to reject outliers in a robust manner. The final

  19. High-resolution Geophysical Mapping of Submarine Glacial Landforms

    NASA Astrophysics Data System (ADS)

    Jakobsson, M.; Dowdeswell, J. A.; Canals, M.; Todd, B. J.; Dowdeswell, E. K.; Hogan, K. A.; Mayer, L. A.

    2014-12-01

    Glacial landforms are generated from the activity of glaciers and display spatial dimensions ranging from below one meter up to tens of kilometers. Glacial landforms are used as diagnostic features of past activity of ice sheets and glaciers; they are specifically important in the field of palaeoglaciology. Mapping of submarine glacial landforms is largely dependent on geophysical survey methods capable of imaging the seafloor and sub-bottom through the water column. Full "global" seafloor mapping coverage, equivalent to what exists for land elevation, is to-date only achieved by the powerful method of deriving bathymetry from altimeters on satellites like GEOSAT and ERS-1. The lateral resolution of satellite derived bathymetry is, however, limited by the footprint of the satellite and the need to average out local wave and wind effects resulting in values of around 15 km. Consequently, mapping submarine glacial landforms requires for the most part higher resolution than is achievable by satellite derived bathymetry. The most widely-used methods for mapping submarine glacial landforms are based on echo-sounding principles. This presentation shows how the evolution of marine geophysical mapping techniques, in particular the advent of side-scan and multibeam bathymetric sonars, has made it possible to study submarine glacial landforms in unprecedented detail. Examples are shown from the Atlas of Submarine Glacial Landforms: Modern, Quaternary and Ancient, which will be published in late 2015 in the Memoir Series of the Geological Society of London.

  20. High-Resolution Geologic Mapping in East Candor Chasma: 2016 Status Report

    NASA Astrophysics Data System (ADS)

    Okubo, C. H.

    2016-06-01

    This abstract summarizes current results and planned activities from an ongoing initiative to construct a series of high-resolution structural and geologic maps in the east Candor Chasma region of Valles Marineris, Mars.

  1. High resolution weak lensing mass mapping combining shear and flexion

    NASA Astrophysics Data System (ADS)

    Lanusse, F.; Starck, J.-L.; Leonard, A.; Pires, S.

    2016-06-01

    Aims: We propose a new mass mapping algorithm, specifically designed to recover small-scale information from a combination of gravitational shear and flexion. Including flexion allows us to supplement the shear on small scales in order to increase the sensitivity to substructures and the overall resolution of the convergence map without relying on strong lensing constraints. Methods: To preserve all available small scale information, we avoid any binning of the irregularly sampled input shear and flexion fields and treat the mass mapping problem as a general ill-posed inverse problem, which is regularised using a robust multi-scale wavelet sparsity prior. The resulting algorithm incorporates redshift, reduced shear, and reduced flexion measurements for individual galaxies and is made highly efficient by the use of fast Fourier estimators. Results: We tested our reconstruction method on a set of realistic weak lensing simulations corresponding to typical HST/ACS cluster observations and demonstrate our ability to recover substructures with the inclusion of flexion, which are otherwise lost if only shear information is used. In particular, we can detect substructures on the 15'' scale well outside of the critical region of the clusters. In addition, flexion also helps to constrain the shape of the central regions of the main dark matter halos. Our mass mapping software, called Glimpse2D, is made freely available at http://www.cosmostat.org/software/glimpse

  2. High-resolution Mapping of Offshore and Onshore Glaciogenic Features in Melville Bay, Northwestern Greenland

    NASA Astrophysics Data System (ADS)

    Freire, F.; Gyllencreutz, R.; Greenwood, S.; Mayer, L. A.; Jakobsson, M.

    2014-12-01

    This study presents results from high resolution mapping in the northwestern part of Greenland's continental shelf, offshore from the Greenland Ice Sheet. The study area is located at about 74o30'N and 58 o40'W where high-resolution seafloor imagery were collected from ~200-500 m water depth. These data were analyzed and compared to existing high-resolution satellite imagery of exposed glacial landforms from the nearby coastal areas. Offshore geophysical mapping equipment consisted of a Kongsberg EM2040 multibeam that was bow-mounted on the sailing vessel Explorer of Sweden together with a Seatex MRU5+ motion sensor and GPS antennas. In addition, a GAVIA autonomous underwater vehicle (AUV) from University of Iceland with installed Geoswath interfometric sonar and Marine Sonic side-scan was used. The data from these systems permitted the production of both 5-m (for the EM2040) and 2-m (for the Geoswath) resolution bathymetric grids for landform analyzes. Sediment characterization analysis was also undertaken using the co-registered backscatter data. The exposed onshore landforms were studied using data from the high-res QuickBird satellite images with a 2-m pixel resolution. Geomorphic analysis of the data shows that past tectonic and glacial scouring processes have shaped the present-day landscape in both the offshore and onshore study areas. The terrain consists of glacially eroded bedrock covered with very thin surficial sediments resembling a 'cnoc-and-lochan' terrain, although the degree of erosion varies spatially, probably as a result of local variations in the rock properties. Different glacially influenced features are identified and described in the study. These features have been used to understand and infer past ice-sheet processes, particularly ice-flow direction and the extent of ice-cover on the continental shelves from previous extreme glaciation events. The backscatter information from the high-resolution interferometric sonar show fine

  3. Mapping of Settlements in High Resolution Satellite Imagery using High Performance Computing

    SciTech Connect

    Cheriydat, Anil; Bright, Eddie A; Bhaduri, Budhendra L; Potere, David T

    2007-01-01

    Classifying urban land cover from high-resolution satellite imagery is challenging, and those challenges are compounded when the imagery databases are very large. Accurate land cover data is a crucial component of the population distribution modeling efforts of the Oak Ridge National Laboratory's (ORNL) LandScan Program. Currently, LandScan Program imagery analysts manually interpret high-resolution (1-5 meter) imagery to augment existing satellite-derived medium (30m) and coarse (1km) resolution land cover datasets. At LandScan, the high-resolution image archives that require interpretation are on the order of terabytes. The goal of this research is to automate urban land cover mapping utilizing ORNL's high performance computing capabilities. Our algorithm employs gray-level and local edge-pattern co-occurrence matrices to generate texture and edge patterns. Areas of urban land cover correlate with statistical features derived from these texture and edge patterns. We have parallelized our algorithms for implementation on a 64-node system using a single instruction multiple data programming model (SIMD) with Message Passing Interface (MPI) as the communication mode. Our parallel-configured classifier performs 30-40 times faster than stand-alone alternatives. When compared with manually interpreted IKONOS imagery, the classifier achieves a 91% overall accuracy. These early results are promising, pointing towards future large-scale classification of urban areas.

  4. High Resolution Urban Feature Extraction for Global Population Mapping using High Performance Computing

    SciTech Connect

    Vijayaraj, Veeraraghavan; Bright, Eddie A; Bhaduri, Budhendra L

    2007-01-01

    The advent of high spatial resolution satellite imagery like Quick Bird (0.6 meter) and IKONOS (1 meter) has provided a new data source for high resolution urban land cover mapping. Extracting accurate urban regions from high resolution images has many applications and is essential to the population mapping efforts of Oak Ridge National Laboratory's (ORNL) LandScan population distribution program. This paper discusses an automated parallel algorithm that has been implemented on a high performance computing environment to extract urban regions from high resolution images using texture and spectral features

  5. High Resolution Aircraft Scanner Mapping of Geothermal and Volcanic Areas

    SciTech Connect

    Mongillo, M.A.; Cochrane, G.R.; Wood, C.P.; Shibata, Y.

    1995-01-01

    High spectral resolution GEOSCAN Mkll multispectral aircraft scanner imagery has been acquired, at 3-6 m spatial resolutions, over much of the Taupo Volcanic Zone as part of continuing investigations aimed at developing remote sensing techniques for exploring and mapping geothermal and volcanic areas. This study examined the 24-band: visible, near-IR (NIR), mid-IR (MIR) and thermal-IR (TIR) imagery acquired over Waiotapu geothermal area (3 m spatial resolution) and White Island volcano (6 m resolution). Results show that color composite images composed of visible and NIR wavelengths that correspond to color infrared (CIR) photographic wavelengths can be useful for distinguishing among bare ground, water and vegetation features and, in certain cases, for mapping various vegetation types. However, combinations which include an MIR band ({approx} 2.2 {micro}m) with either visible and NIR bands, or two NIR bands, are the most powerful for mapping vegetation types, water bodies, and bare and hydrothermally altered ground. Combinations incorporating a daytime TIR band with NIR and MIR bands are also valuable for locating anomalously hot features and distinguishing among different types of surface hydrothermal alteration.

  6. Improving dust emission characterization in dust models using dynamic high-resolution geomorphic erodibility map

    NASA Astrophysics Data System (ADS)

    Parajuli, S. P.; Yang, Z.; Kocurek, G.

    2013-12-01

    Dust is known to affect the earth radiation budget, biogeochemical cycle, precipitation, human health and visibility. Despite the increased research effort, dust emission modeling remains challenging because dust emission is affected by complex geomorphological processes. Existing dust models overestimate dust emission and rely on tuning and a static erodibility factor in order to make simulated results comparable to remote sensing and ground-based observations. In most of current models, dust emission is expressed in terms of threshold friction speed, which ultimately depends mainly upon the percentage clay content and soil moisture. Unfortunately, due to the unavailability of accurate and high resolution input data of the clay content and soil moisture, estimated threshold friction speed commonly does not represent the variability in field condition. In this work, we attempt to improve dust emission characterization by developing a high resolution geomorphic map of the Middle East and North Africa (MENA), which is responsible for more than 50% of global dust emission. We develop this geomorphic map by visually examining high resolution satellite images obtained from Google Earth Pro and ESRI base map. Albeit subjective, our technique is more reliable compared to automatic image classification technique because we incorporate knowledge of geological/geographical setting in identifying dust sources. We hypothesize that the erodibility is unique for different geomorphic landforms and that it can be quantified by the correlation between observed wind speed and satellite retrieved aerosol optical depth (AOD). We classify the study area into several key geomorphological categories with respect to their dust emission potential. Then we quantify their dust emission potential using the correlation between observed wind speed and satellite retrieved AOD. The dynamic, high-resolution geomorphic erodibility map thus prepared will help to reduce the uncertainty in current

  7. Large-Scale, High-Resolution Neurophysiological Maps Underlying fMRI of Macaque Temporal Lobe

    PubMed Central

    Papanastassiou, Alex M.; DiCarlo, James J.

    2013-01-01

    Maps obtained by functional magnetic resonance imaging (fMRI) are thought to reflect the underlying spatial layout of neural activity. However, previous studies have not been able to directly compare fMRI maps to high-resolution neurophysiological maps, particularly in higher level visual areas. Here, we used a novel stereo microfocal x-ray system to localize thousands of neural recordings across monkey inferior temporal cortex (IT), construct large-scale maps of neuronal object selectivity at subvoxel resolution, and compare those neurophysiology maps with fMRI maps from the same subjects. While neurophysiology maps contained reliable structure at the sub-millimeter scale, fMRI maps of object selectivity contained information at larger scales (>2.5 mm) and were only partly correlated with raw neurophysiology maps collected in the same subjects. However, spatial smoothing of neurophysiology maps more than doubled that correlation, while a variety of alternative transforms led to no significant improvement. Furthermore, raw spiking signals, once spatially smoothed, were as predictive of fMRI maps as local field potential signals. Thus, fMRI of the inferior temporal lobe reflects a spatially low-passed version of neurophysiology signals. These findings strongly validate the widespread use of fMRI for detecting large (>2.5 mm) neuronal domains of object selectivity but show that a complete understanding of even the most pure domains (e.g., faces vs nonface objects) requires investigation at fine scales that can currently only be obtained with invasive neurophysiological methods. PMID:24048850

  8. Mapping Urban Ecosystem Services Using High Resolution Aerial Photography

    NASA Astrophysics Data System (ADS)

    Pilant, A. N.; Neale, A.; Wilhelm, D.

    2010-12-01

    Ecosystem services (ES) are the many life-sustaining benefits we receive from nature: e.g., clean air and water, food and fiber, cultural-aesthetic-recreational benefits, pollination and flood control. The ES concept is emerging as a means of integrating complex environmental and economic information to support informed environmental decision making. The US EPA is developing a web-based National Atlas of Ecosystem Services, with a component for urban ecosystems. Currently, the only wall-to-wall, national scale land cover data suitable for this analysis is the National Land Cover Data (NLCD) at 30 m spatial resolution with 5 and 10 year updates. However, aerial photography is acquired at higher spatial resolution (0.5-3 m) and more frequently (1-5 years, typically) for most urban areas. Land cover was mapped in Raleigh, NC using freely available USDA National Agricultural Imagery Program (NAIP) with 1 m ground sample distance to test the suitability of aerial photography for urban ES analysis. Automated feature extraction techniques were used to extract five land cover classes, and an accuracy assessment was performed using standard techniques. Results will be presented that demonstrate applications to mapping ES in urban environments: greenways, corridors, fragmentation, habitat, impervious surfaces, dark and light pavement (urban heat island). Automated feature extraction results mapped over NAIP color aerial photograph. At this scale, we can look at land cover and related ecosystem services at the 2-10 m scale. Small features such as individual trees and sidewalks are visible and mappable. Classified aerial photo of Downtown Raleigh NC Red: impervious surface Dark Green: trees Light Green: grass Tan: soil

  9. Using Formaldehyde to Create High Resolution Temperature Maps of CMZ Clouds

    NASA Astrophysics Data System (ADS)

    Castaño, Jimmy

    2016-01-01

    80% of the dense molecular gas in our Galaxy resides in the central few hundred parsecs, known as the Central Molecular Zone (CMZ). From our understanding of star formation, we would expect a comparatively high star formation rate in this region, but the estimates so far indicate that only 5-10% of the star formation in our Galaxy occurs there. There are a number of physical effects that may be causing this, but we particularly wish to investigate the role of the temperature of the gas - which initial estimates put at an average of 50-100 K or about a factor of 5 higher than elsewhere in the disk. Armed with the data taken by the SMA Legacy Survey of the CMZ, we aim to compare parameters two transition lines for the dense gas tracer H2CO which are particularly sensitive to temperature to measure the gas temperature on 0.2 pc scales. Ultimately we provide a high resolution temperature map for a set of clouds in the CMZ dubbed "the three little pigs" to provide an initial comparison with similar work done with ammonia tracers in order to pave the way for a high resolution temperature map of the entire CMZ.

  10. High-resolution electroencephalogram (EEG) mapping: scalp charge layer

    NASA Astrophysics Data System (ADS)

    Yao, Dezhong; Yin, Zhong Ke; Tang, Xiang Hong; Arendt-Nielsen, Lars; Chen, Andrew C. N.

    2004-11-01

    The neural electrical signal related to the human brain function is one of the tracks to understanding ourselves. Various electroencephalogram imaging techniques have been developed to reveal spatial information on neural activities in the brain from scalp recordings, such as Laplacian, equivalent source layer and potential. Physically, these methods may be classified into two categories: scalp surface or cortical surface based techniques. In this work, the focus is on the scalp surface based equivalent charge layer (ECL), with a comparison to the scalp potential with different references and scalp Laplacian (SL). The contents include theoretical analysis and numeric evaluation of simulated data and real alpha (8-12 Hz) data. The results confirm the fact that SL and ECL are of higher spatial resolution than various scalp potential maps, and for SL and ECL, SL is of higher resolution but more sensitive to noise.

  11. High-resolution habitat mapping on mud fields: new approach to quantitative mapping of Ocean quahog.

    PubMed

    Isachenko, Artem; Gubanova, Yana; Tzetlin, Alexander; Mokievsky, Vadim

    2014-12-01

    During 2009-2012 stocks of the bivalve Arctica islandica (Linnaeus, 1767) (Ocean quahog) in Kandalaksha Bay (the White Sea) has been assessed using a side-scan sonar, grab sampling and underwater photo imaging. Structurally uniform localities were highlighted on the basis of side-scan signal. Each type of a signal reflects combination of sediment type, microtopography and structural characteristics of benthic community. The distribution of A. islandica was the predominant factor in determining community structure. Seabed attributes considered most significant were defined for each type of substrate type. Relations of sonar signal and sediment type were used for landscape mapping based on sonar data. Community characteristics at known localities were reliably interpolated to the area of survey using statistical processing of geophysical data. A method of integrated sonar and sampling data interpretation for high-resolution mapping of A. islandica by biomass groups, benthic faunal groups and associated habitats was developed.

  12. A new map of the vegetation of central European Russia based on high-resolution satellite data.

    PubMed

    Ershov, D V; Gavrilyuk, E A; Karpukhina, D A; Kovganko, K A

    2015-01-01

    The scientific basis of and approaches to regional thematic mapping of vegetation based on high-resolution satellite data have been elaborated. A vegetation map of central European Russia has been compiled. The map includes 12 thematic classes, six of which pertain to forest ecosystems. The map has been compared to the data of the GFC project (University of Maryland, United States) and the official data of the Rosstat Federal Service of State Statistics (Russia). The new vegetation map is currently used in the information system of the remote monitoring of forest fires in Russia. PMID:26530069

  13. A new map of the vegetation of central European Russia based on high-resolution satellite data.

    PubMed

    Ershov, D V; Gavrilyuk, E A; Karpukhina, D A; Kovganko, K A

    2015-01-01

    The scientific basis of and approaches to regional thematic mapping of vegetation based on high-resolution satellite data have been elaborated. A vegetation map of central European Russia has been compiled. The map includes 12 thematic classes, six of which pertain to forest ecosystems. The map has been compared to the data of the GFC project (University of Maryland, United States) and the official data of the Rosstat Federal Service of State Statistics (Russia). The new vegetation map is currently used in the information system of the remote monitoring of forest fires in Russia.

  14. A high-resolution radiation hybrid map of the bovine genome

    Technology Transfer Automated Retrieval System (TEKTRAN)

    We are building high-resolution radiation hybrid maps of all 29 bovine autosomes and chromosome X, using a 58,000-marker genotyping assay, and a 12,000-rad whole-genome radiation hybrid (RH) panel. To accommodate the large number of markers, and to automate the map building procedure, a software pip...

  15. HetMappsS: Heterozygous mapping strategy for high resolution Genotyping-by-Sequencing Markers

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Reduced representation genotyping approaches, such as genotyping-by-sequencing (GBS), provide opportunities to generate high-resolution genetic maps at a low per-sample cost. However, missing data and non-uniform sequence coverage can complicate map creation in highly heterozygous species. To facili...

  16. Risk assessment of ventricular arrhythmia using new parameters based on high resolution body surface potential mapping

    PubMed Central

    Fereniec, Malgorzata; Stix, Gunter; Kania, Michal; Mroczka, Tomasz; Janusek, Dariusz; Maniewski, Roman

    2011-01-01

    Summary Background The effective screening of myocardial infarction (MI) patients threatened by ventricular tachycardia (VT) is an important issue in clinical practice, especially in the process of implantable cardioverter-defibrillator (ICD) therapy recommendation. This study proposes new parameters describing depolarization and repolarization inhomogeneity in high resolution body surface potential maps (HR BSPM) to identify MI patients threatened by VT. Material/Methods High resolution ECGs were recorded from 64 surface leads. Time-averaged HR BSPMs were used. Several parameters for arrhythmia risk assessment were calculated in 2 groups of MI patients: those with and without documented VT. Additionally, a control group of healthy subjects was studied. To assess the risk of VT, the following parameters were proposed: correlation coefficient between STT and QRST integral maps (STT_QRST_CORR), departure index of absolute value of STT integral map (STT_DI), and departure index of absolute value of T-wave shape index (TSI_DI). These new parameters were compared to known parameters: QRS width, QT interval, QT dispersion, Tpeak-Tend interval, total cosines between QRS complex and T wave, and non-dipolar content of QRST integral maps. Results STT_DI, TSI_DI, STT_QRST_CORR, QRS width, and QT interval parameters were statistically significant (p≤0.05) in arrhythmia risk assessment. The highest sensitivity was found for the STT_DI parameter (0.77) and the highest specificity for TSI_DI (0.79). Conclusions Arrhythmia risk is demonstrated by both abnormal spatial distribution of the repolarization phase and changed relationship between depolarization and repolarization phases, as well as their prolongation. The proposed new parameters might be applied for risk stratification of cardiac arrhythmia. PMID:21358612

  17. Fine Resolution Topographic Mapping of the Jovian Moons: A Ka-Band High Resolution Topographic Mapping Interferometric Synthetic Aperture Radar

    NASA Technical Reports Server (NTRS)

    Madsen, S. N.; Carsey, F. D.; Turtle, E. P.

    2003-01-01

    The topographic data set obtained by MOLA has provided an unprecedented level of information about Mars' geologic features. The proposed flight of JIMO provides an opportunity to accomplish a similar mapping of and comparable scientific discovery for the Jovian moons through use of an interferometric imaging radar analogous to the Shuttle radar that recently generated a new topographic map of Earth. A Ka-band single pass across-track synthetic aperture radar (SAR) interferometer can provide very high resolution surface elevation maps. The concept would use two antennas mounted at the ends of a deployable boom (similar to the Shuttle Radar Topographic Mapper) extended orthogonal to the direction of flight. Assuming an orbit altitude of approximately 100km and a ground velocity of approximately 1.5 km/sec, horizontal resolutions at the 10 meter level and vertical resolutions at the sub-meter level are possible.

  18. Fine resolution topographic mapping of the Jovian moons: a Ka-band high resolution topographic mapping interferometric synthetic aperture radar

    NASA Technical Reports Server (NTRS)

    Madsen, Soren N.; Carsey, Frank D.; Turtle, Elizabeth P.

    2003-01-01

    The topographic data set obtained by MOLA has provided an unprecedented level of information about Mars' geologic features. The proposed flight of JIMO provides an opportunity to accomplish a similar mapping of and comparable scientific discovery for the Jovian moons through us of an interferometric imaging radar analogous to the Shuttle radar that recently generated a new topographic map of Earth. A Ka-band single pass across-track synthetic aperture radar (SAR) interferometer can provide very high resolution surface elevation maps. The concept would use two antennas mounted at the ends of a deployable boom (similar to the Shuttle Radar Topographic Mapper) extended orthogonal to the direction of flight. Assuming an orbit altitude of approximately 100 km and a ground velocity of approximately 1.5 km/sec, horizontal resolutions at the 10 meter level and vertical resolutions at the sub-meter level are possible.

  19. High resolution regional soil carbon mapping in Madagascar : towards easy to update maps

    NASA Astrophysics Data System (ADS)

    Grinand, Clovis; Dessay, Nadine; Razafimbelo, Tantely; Razakamanarivo, Herintsitoaina; Albrecht, Alain; Vaudry, Romuald; Tiberghien, Matthieu; Rasamoelina, Maminiaina; Bernoux, Martial

    2013-04-01

    The soil organic carbon plays an important role in climate change regulation through carbon emissions and sequestration due to land use changes, notably tropical deforestation. Monitoring soil carbon emissions from shifting-cultivation requires to evaluate the amount of carbon stored at plot scale with a sufficient level of accuracy to be able to detect changes. The objective of this work was to map soil carbon stocks (30 cm and 100 cm depths) for different land use at regional scale using high resolution satellite dataset. The Andohahela National Parc and its surroundings (South-Est Madagascar) - a region with the largest deforestation rate in the country - was selected as a pilot area for the development of the methodology. A three steps approach was set up: (i) carbon inventory using mid infra-red spectroscopy and stock calculation, (ii) spatial data processing and (iii) modeling and mapping. Soil spectroscopy was successfully used for measuring organic carbon in this region. The results show that Random Forest was the inference model that produced the best estimates on calibration and validation datasets. By using a simple and robust method, we estimated uncertainty levels of of 35% and 43% for 30-cm and 100-cm carbon maps respectively. The approach developed in this study was based on open data and open source software that can be easily replicated to other regions and for other time periods using updated satellite images.

  20. Rapid, High-Resolution Forest Structure and Terrain Mapping over Large Areas using Single Photon Lidar

    NASA Astrophysics Data System (ADS)

    Swatantran, Anu; Tang, Hao; Barrett, Terence; Decola, Phil; Dubayah, Ralph

    2016-06-01

    Single photon lidar (SPL) is an innovative technology for rapid forest structure and terrain characterization over large areas. Here, we evaluate data from an SPL instrument - the High Resolution Quantum Lidar System (HRQLS) that was used to map the entirety of Garrett County in Maryland, USA (1700 km2). We develop novel approaches to filter solar noise to enable the derivation of forest canopy structure and ground elevation from SPL point clouds. SPL attributes are compared with field measurements and an existing leaf-off, low-point density discrete return lidar dataset as a means of validation. We find that canopy and ground characteristics from SPL are similar to discrete return lidar despite differences in wavelength and acquisition periods but the higher point density of the SPL data provides more structural detail. Our experience suggests that automated noise removal may be challenging, particularly over high albedo surfaces and rigorous instrument calibration is required to reduce ground measurement biases to accepted mapping standards. Nonetheless, its efficiency of data collection, and its ability to produce fine-scale, three-dimensional structure over large areas quickly strongly suggests that SPL should be considered as an efficient and potentially cost-effective alternative to existing lidar systems for large area mapping.

  1. Rapid, High-Resolution Forest Structure and Terrain Mapping over Large Areas using Single Photon Lidar

    PubMed Central

    Swatantran, Anu; Tang, Hao; Barrett, Terence; DeCola, Phil; Dubayah, Ralph

    2016-01-01

    Single photon lidar (SPL) is an innovative technology for rapid forest structure and terrain characterization over large areas. Here, we evaluate data from an SPL instrument - the High Resolution Quantum Lidar System (HRQLS) that was used to map the entirety of Garrett County in Maryland, USA (1700 km2). We develop novel approaches to filter solar noise to enable the derivation of forest canopy structure and ground elevation from SPL point clouds. SPL attributes are compared with field measurements and an existing leaf-off, low-point density discrete return lidar dataset as a means of validation. We find that canopy and ground characteristics from SPL are similar to discrete return lidar despite differences in wavelength and acquisition periods but the higher point density of the SPL data provides more structural detail. Our experience suggests that automated noise removal may be challenging, particularly over high albedo surfaces and rigorous instrument calibration is required to reduce ground measurement biases to accepted mapping standards. Nonetheless, its efficiency of data collection, and its ability to produce fine-scale, three-dimensional structure over large areas quickly strongly suggests that SPL should be considered as an efficient and potentially cost-effective alternative to existing lidar systems for large area mapping. PMID:27329078

  2. Rapid, High-Resolution Forest Structure and Terrain Mapping over Large Areas using Single Photon Lidar.

    PubMed

    Swatantran, Anu; Tang, Hao; Barrett, Terence; DeCola, Phil; Dubayah, Ralph

    2016-06-22

    Single photon lidar (SPL) is an innovative technology for rapid forest structure and terrain characterization over large areas. Here, we evaluate data from an SPL instrument - the High Resolution Quantum Lidar System (HRQLS) that was used to map the entirety of Garrett County in Maryland, USA (1700 km(2)). We develop novel approaches to filter solar noise to enable the derivation of forest canopy structure and ground elevation from SPL point clouds. SPL attributes are compared with field measurements and an existing leaf-off, low-point density discrete return lidar dataset as a means of validation. We find that canopy and ground characteristics from SPL are similar to discrete return lidar despite differences in wavelength and acquisition periods but the higher point density of the SPL data provides more structural detail. Our experience suggests that automated noise removal may be challenging, particularly over high albedo surfaces and rigorous instrument calibration is required to reduce ground measurement biases to accepted mapping standards. Nonetheless, its efficiency of data collection, and its ability to produce fine-scale, three-dimensional structure over large areas quickly strongly suggests that SPL should be considered as an efficient and potentially cost-effective alternative to existing lidar systems for large area mapping.

  3. Rapid, High-Resolution Forest Structure and Terrain Mapping over Large Areas using Single Photon Lidar.

    PubMed

    Swatantran, Anu; Tang, Hao; Barrett, Terence; DeCola, Phil; Dubayah, Ralph

    2016-01-01

    Single photon lidar (SPL) is an innovative technology for rapid forest structure and terrain characterization over large areas. Here, we evaluate data from an SPL instrument - the High Resolution Quantum Lidar System (HRQLS) that was used to map the entirety of Garrett County in Maryland, USA (1700 km(2)). We develop novel approaches to filter solar noise to enable the derivation of forest canopy structure and ground elevation from SPL point clouds. SPL attributes are compared with field measurements and an existing leaf-off, low-point density discrete return lidar dataset as a means of validation. We find that canopy and ground characteristics from SPL are similar to discrete return lidar despite differences in wavelength and acquisition periods but the higher point density of the SPL data provides more structural detail. Our experience suggests that automated noise removal may be challenging, particularly over high albedo surfaces and rigorous instrument calibration is required to reduce ground measurement biases to accepted mapping standards. Nonetheless, its efficiency of data collection, and its ability to produce fine-scale, three-dimensional structure over large areas quickly strongly suggests that SPL should be considered as an efficient and potentially cost-effective alternative to existing lidar systems for large area mapping. PMID:27329078

  4. ET mapping with high-resolution airborne remote sensing data in an advective semiarid environment

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Accurate estimates of spatially distributed vegetation evapotranspiration (ET) are essential for managing water in irrigated regions and for hydrologic modeling. The METRIC**TM (Mapping ET at high Resolutions with Internal Calibration) energy balance algorithm was applied to derive ET from six very ...

  5. High-resolution mapping of the Palos outflow channel: Preliminary results.

    NASA Astrophysics Data System (ADS)

    Rauhala, A. I.; Kukkonen, S.; Kostama, V.-P.

    2013-09-01

    We have begun a high-resolution geomorphic mapping of the "Palos outflow channel" in order to further characterize the paleofluvial activity in the Amenthes region. Preliminary findings, such as multiple instances of hanging valleys, suggest a complex history of flooding.

  6. Combination of comprehensive geophysical measurements and conventional soil sampling for high resolution soil mapping

    NASA Astrophysics Data System (ADS)

    Werban, U.; Nuesch, A.; Vienken, T.; Dietrich, P.; Behrens, T.

    2010-12-01

    The focus of the FP7-EU project iSOIL “Interactions between soil related sciences - Linking geophysics, soil science and digital soil mapping” is to develop new and to improve existing strategies and innovative methods for generating accurate, high-resolution soil property maps. Thus we will develop, validate, and evaluate concepts and strategies for transferring measured physical parameter distributions into soil property, soil function and soil threat maps of different scales. The resulting soil property maps can be used for agriculture applications and soil degradation threats studies, e.g. erosion, compaction and soil organic matter decline. A fast and cost efficient way to detect physical parameters of soils at large areas is the application of mobile geophysical platforms. An advantage of these platforms is the flexibility since different kind of instruments can be mounted and combined. Following instruments are used on platforms within iSOIL project: EMI, GPR, gamma-spectrometry and magnetics. Since geophysical methods provide only physical parameters it is essential to combine them with conventional soil sampling methods for ground truthing. Physical parameters have to be converted into soil parameters via (site specific) transfer functions. One focus of the project was the development of measuring designs for the evaluation and combination of different geophysical methods. The application of a hierarchical approach is one way to combine different scales and parameters. The implementation of this approach will be presented and can be summarized as follows: - The first step is a survey of the total area with EMI and gamma-spectrometry. The distance between two lines is 10 - 20 meters. - By means of the geophysical data and a digital elevation model, representative soil sampling points are chosen, via a weighted conditioned latin hypercube sampling scheme (wLHS) based on conditioned latin hypercube sampling (cLHS). - All soil sampling points are probed

  7. Aircraft Detection in High-Resolution SAR Images Based on a Gradient Textural Saliency Map.

    PubMed

    Tan, Yihua; Li, Qingyun; Li, Yansheng; Tian, Jinwen

    2015-09-11

    This paper proposes a new automatic and adaptive aircraft target detection algorithm in high-resolution synthetic aperture radar (SAR) images of airport. The proposed method is based on gradient textural saliency map under the contextual cues of apron area. Firstly, the candidate regions with the possible existence of airport are detected from the apron area. Secondly, directional local gradient distribution detector is used to obtain a gradient textural saliency map in the favor of the candidate regions. In addition, the final targets will be detected by segmenting the saliency map using CFAR-type algorithm. The real high-resolution airborne SAR image data is used to verify the proposed algorithm. The results demonstrate that this algorithm can detect aircraft targets quickly and accurately, and decrease the false alarm rate.

  8. Aircraft Detection in High-Resolution SAR Images Based on a Gradient Textural Saliency Map

    PubMed Central

    Tan, Yihua; Li, Qingyun; Li, Yansheng; Tian, Jinwen

    2015-01-01

    This paper proposes a new automatic and adaptive aircraft target detection algorithm in high-resolution synthetic aperture radar (SAR) images of airport. The proposed method is based on gradient textural saliency map under the contextual cues of apron area. Firstly, the candidate regions with the possible existence of airport are detected from the apron area. Secondly, directional local gradient distribution detector is used to obtain a gradient textural saliency map in the favor of the candidate regions. In addition, the final targets will be detected by segmenting the saliency map using CFAR-type algorithm. The real high-resolution airborne SAR image data is used to verify the proposed algorithm. The results demonstrate that this algorithm can detect aircraft targets quickly and accurately, and decrease the false alarm rate. PMID:26378543

  9. Aircraft Detection in High-Resolution SAR Images Based on a Gradient Textural Saliency Map.

    PubMed

    Tan, Yihua; Li, Qingyun; Li, Yansheng; Tian, Jinwen

    2015-01-01

    This paper proposes a new automatic and adaptive aircraft target detection algorithm in high-resolution synthetic aperture radar (SAR) images of airport. The proposed method is based on gradient textural saliency map under the contextual cues of apron area. Firstly, the candidate regions with the possible existence of airport are detected from the apron area. Secondly, directional local gradient distribution detector is used to obtain a gradient textural saliency map in the favor of the candidate regions. In addition, the final targets will be detected by segmenting the saliency map using CFAR-type algorithm. The real high-resolution airborne SAR image data is used to verify the proposed algorithm. The results demonstrate that this algorithm can detect aircraft targets quickly and accurately, and decrease the false alarm rate. PMID:26378543

  10. Topological Data Analysis Generates High-Resolution, Genome-wide Maps of Human Recombination.

    PubMed

    Camara, Pablo G; Rosenbloom, Daniel I S; Emmett, Kevin J; Levine, Arnold J; Rabadan, Raul

    2016-07-01

    Meiotic recombination is a fundamental evolutionary process driving diversity in eukaryotes. In mammals, recombination is known to occur preferentially at specific genomic regions. Using topological data analysis (TDA), a branch of applied topology that extracts global features from large data sets, we developed an efficient method for mapping recombination at fine scales. When compared to standard linkage-based methods, TDA can deal with a larger number of SNPs and genomes without incurring prohibitive computational costs. We applied TDA to 1,000 Genomes Project data and constructed high-resolution whole-genome recombination maps of seven human populations. Our analysis shows that recombination is generally under-represented within transcription start sites. However, the binding sites of specific transcription factors are enriched for sites of recombination. These include transcription factors that regulate the expression of meiosis- and gametogenesis-specific genes, cell cycle progression, and differentiation blockage. Additionally, our analysis identifies an enrichment for sites of recombination at repeat-derived loci matched by piwi-interacting RNAs. PMID:27345159

  11. Assessing Usefulness of High-Resolution Satellite Imagery (HRSI) for Re-Survey of Cadastral Maps

    NASA Astrophysics Data System (ADS)

    Rao, S. S.; Sharma, J. R.; Rajashekar, S. S.; Rao, D. S. P.; Arepalli, A.; Arora, V.; Kuldeep; Singh, R. P.; Kanaparthi, M.

    2014-11-01

    The Government of India has initiated "National Land Records Modernization Programme (NLRMP)" with emphasis to modernize management of land records, minimize scope of land/property disputes, enhance transparency in the land records maintenance system, and facilitate moving eventually towards guaranteed conclusive titles to immovable properties in the country. One of the major components of the programme is survey/re-survey and updating of all survey and settlement records including creation of original cadastral records wherever necessary. The use of ETS/GPS, Aerial or High Resolution Satellite Images (HRSI) and hybrid method of images are suggested for re-survey in the guidelines. The emerging new satellite technologies enabling earth observation at a spatial resolution of 1.0m or 0.5m or even 0.41m have brought revolutionary changes in the field of cadastral survey. The highresolution satellite imagery (HRSI) is showing its usefulness for cadastral surveys in terms of clear identification of parcel boundaries and other cultural features due to which traditional cadastre and land registration systems have been undergoing major changes worldwide. In the present research study, cadastral maps are derived from ETS/GPS, HRSI of 1.0m and 0.5m and used for comparison. The differences in areas, perimeter and position of parcels derived from HRSI are compared vis-a-vis ETS/GPS boundaries. An assessment has been made on the usefulness of HRSI for re-survey of cadastral maps vis-a-vis conventional ground survey.

  12. High-Resolution Debris Flow Volume Mapping with Unmanned Aerial Systems (uas) and Photogrammetric Techniques

    NASA Astrophysics Data System (ADS)

    Adams, M. S.; Fromm, R.; Lechner, V.

    2016-06-01

    Debris flows cause an average € 30 million damages and 1-2 fatalities every year in Austria. Detailed documentation of their extent and magnitude is essential for understanding, preventing and mitigating these natural hazard events. The recent development of unmanned aerial systems (UAS) has provided a new possibility for on-demand high-resolution monitoring and mapping. Here, we present a study, where the spatial extent and volume of a large debris flow event were mapped with different UAS, fitted with commercial off-the-shelf sensors. Orthophotos and digital terrain models (DTM) were calculated using structure-from-motion photogrammetry software. Terrain height differences caused by the debris flow in the catchment and valley floor were derived by subtracting the pre-event airborne laser scanning (ALS) DTM from a post-event UAS-DTM. The analysis of the volumetric sediment budget showed, that approximately 265,000 m³ material was mobilised in the catchment, of which 45,000 m³ settled there; of the material, which reached the valley floor, 120,000 m³ was deposited, while another 10,000 m³ was eroded from there. The UAS-results were validated against ALS data and imagery from a traditional manned-aircraft photogrammetry campaign. In conclusion, the UAS-data can reach an accuracy and precision comparable to manned aircraft data, but with the added benefits of higher flexibility, easier repeatability, less operational constraints and higher spatial resolution.

  13. Ecosystem services of boreal forests - Carbon budget mapping at high resolution.

    PubMed

    Akujärvi, Anu; Lehtonen, Aleksi; Liski, Jari

    2016-10-01

    The carbon (C) cycle of forests produces ecosystem services (ES) such as climate regulation and timber production. Mapping these ES using simple land cover -based proxies might add remarkable inaccuracy to the estimates. A framework to map the current status of the C budget of boreal forested landscapes was developed. The C stocks of biomass and soil and the annual change in these stocks were quantified in a 20 × 20 m resolution at the regional level on mineral soils in southern Finland. The fine-scale variation of the estimates was analyzed geo-statistically. The reliability of the estimates was evaluated by comparing them to measurements from the national multi-source forest inventory. The C stocks of forests increased slightly from the south coast to inland whereas the changes in these stocks were more uniform. The spatial patches of C stocks were larger than those of C stock changes. The patch size of the C stocks reflected the spatial variation in the environmental conditions, and that of the C stock changes the typical area of forest management compartments. The simulated estimates agreed well with the measurements indicating a good mapping framework performance. The mapping framework is the basis for evaluating the effects of forest management alternatives on C budget at high resolution across large spatial scales. It will be coupled with the assessment of other ES and biodiversity to study their relationships. The framework integrated a wide suite of simulation models and extensive inventory data. It provided reliable estimates of the human influence on C cycle in forested landscapes. PMID:27420172

  14. Agricultural land-use mapping using very high resolution satellite images in Canary Islands

    NASA Astrophysics Data System (ADS)

    Labrador Garcia, Mauricio; Arbelo, Manuel; Evora Brondo, Juan Antonio; Hernandez-Leal, Pedro A.; Alonso-Benito, Alfonso

    Crop maps are a basic tool for rural planning and a way to asses the impact of politics and infrastructures in the rural environment. Thus, they must be accurate and updated. Because of the small size of the land fields in Canary Islands, until now the crop maps have been made by means of an intense and expensive field work. The tiny crop terraces do not allow the use of traditional medium-size resolution satellite images. The launch of several satellites with sub-meter spatial resolutions in the last years provides an opportunity to update land use maps in these fragmented areas. SATELMAC is a project financed by the PCT-MAC 2007-2013 (FEDER funds). One of the main objectives of this project is to develop a methodology that allows the use of very high resolution satellite images to automate as much as possible the updating of agricultural land use maps. The study was carried out in 3 different areas of the two main islands of the Canarian Archipelago, Tenerife and Gran Canaria. The total area is about 550 km2 , which includes both urban and rural areas. Multitemporal images from Geo-Eye 1 were acquired during a whole agricultural season to extract information about annual and perennial crops. The work includes a detailed geographic correction of the images and dealing with many adverse factors like cloud shadows, variability of atmospheric conditions and the heterogeneity of the land uses within the study area. Different classification methods, including traditional pixel-based methods and object-oriented approach, were compared in order to obtain the best accuracy. An intensive field work was carried out to obtain the ground truth, which is the base for the classification procedures and the validation of the results. The final results will be integrated into a cadastral vector layer.

  15. Soil Erosion map of Europe based on high resolution input datasets

    NASA Astrophysics Data System (ADS)

    Panagos, Panos; Borrelli, Pasquale; Meusburger, Katrin; Ballabio, Cristiano; Alewell, Christine

    2015-04-01

    Modelling soil erosion in European Union is of major importance for agro-environmental policies. Soil erosion estimates are important inputs for the Common Agricultural Policy (CAP) and the implementation of the Soil Thematic Strategy. Using the findings of a recent pan-European data collection through the EIONET network, it was concluded that most Member States are applying the empirical Revised Universal Soil Loss Equation (RUSLE) for the modelling soil erosion at National level. This model was chosen for the pan-European soil erosion risk assessment and it is based on 6 input factors. Compared to past approaches, each of the factors is modelled using the latest pan-European datasets, expertise and data from Member states and high resolution remote sensing data. The soil erodibility (K-factor) is modelled using the recently published LUCAS topsoil database with 20,000 point measurements and incorporating the surface stone cover which can reduce K-factor by 15%. The rainfall erosivity dataset (R-factor) has been implemented using high temporal resolution rainfall data from more than 1,500 precipitation stations well distributed in Europe. The cover-management (C-factor) incorporates crop statistics and management practices such as cover crops, tillage practices and plant residuals. The slope length and steepness (combined LS-factor) is based on the first ever 25m Digital Elevation Model (DEM) of Europe. Finally, the support practices (P-factor) is modelled for first time at this scale taking into account the 270,000 LUCAS earth observations and the Good Agricultural and Environmental Condition (GAEC) that farmers have to follow in Europe. The high resolution input layers produce the final soil erosion risk map at 100m resolution and allow policy makers to run future land use, management and climate change scenarios.

  16. Automated high resolution mapping of coffee in Rwanda using an expert Bayesian network

    NASA Astrophysics Data System (ADS)

    Mukashema, A.; Veldkamp, A.; Vrieling, A.

    2014-12-01

    African highland agro-ecosystems are dominated by small-scale agricultural fields that often contain a mix of annual and perennial crops. This makes such systems difficult to map by remote sensing. We developed an expert Bayesian network model to extract the small-scale coffee fields of Rwanda from very high resolution data. The model was subsequently applied to aerial orthophotos covering more than 99% of Rwanda and on one QuickBird image for the remaining part. The method consists of a stepwise adjustment of pixel probabilities, which incorporates expert knowledge on size of coffee trees and fields, and on their location. The initial naive Bayesian network, which is a spectral-based classification, yielded a coffee map with an overall accuracy of around 50%. This confirms that standard spectral variables alone cannot accurately identify coffee fields from high resolution images. The combination of spectral and ancillary data (DEM and a forest map) allowed mapping of coffee fields and associated uncertainties with an overall accuracy of 87%. Aggregated to district units, the mapped coffee areas demonstrated a high correlation with the coffee areas reported in the detailed national coffee census of 2009 (R2 = 0.92). Unlike the census data our map provides high spatial resolution of coffee area patterns of Rwanda. The proposed method has potential for mapping other perennial small scale cropping systems in the East African Highlands and elsewhere.

  17. High-resolution Ceres High Altitude Mapping Orbit atlas derived from Dawn Framing Camera images

    NASA Astrophysics Data System (ADS)

    Roatsch, Th.; Kersten, E.; Matz, K.-D.; Preusker, F.; Scholten, F.; Jaumann, R.; Raymond, C. A.; Russell, C. T.

    2016-09-01

    The Dawn spacecraft Framing Camera (FC) acquired over 2400 clear filter images of Ceres with a resolution of about 140 m/pixel during the six cycles in the High Altitude Mapping Orbit (HAMO) phase between August 18 and October 21, 2015. We ortho-rectified the images from the first cycle and produced a global, high-resolution, controlled photomosaic of Ceres. This global mosaic is the basis for a high-resolution Ceres atlas that consists of 15 tiles mapped at a scale of 1:750,000. The nomenclature used in this atlas was proposed by the Dawn team and was approved by the International Astronomical Union (IAU). The full atlas is available to the public through the Dawn Geographical Information System (GIS) web page

  18. DSN microwave antenna holography. Part 2: Data processing and display of high-resolution effective maps

    NASA Technical Reports Server (NTRS)

    Rochblatt, D. J.; Rahmat-Samii, Y.; Mumford, J. H.

    1986-01-01

    The results of a recently completed computer graphic package for the process and display of holographically recorded data into effective aperture maps are presented. The term effective maps (labelled provisional on the holograms) signifies that the maps include contributions of surface mechanical errors as well as other electromagnetic factors (phase error due to feed/subreflector misalignment, linear phase error contribution due to pointing errors, subreflector flange diffraction effects, and strut diffraction shadows). While these maps do not show the true mechanical surface errors, they nevertheless show the equivalent errors, which are effective in determining overall antenna performance. Final steps to remove electromagnetic pointing and misalignment factors are now in progress. The processing and display of high-resolution effective maps of a 64m antenna (DSS 63) are presented.

  19. Testing the Validity of Single-Particle Maps at Low and High Resolution.

    PubMed

    Rosenthal, P B

    2016-01-01

    Single-particle electron cryomicroscopy may be used to determine the structure of biological assemblies by aligning and averaging low-contrast projection images recorded in the electron microscope. Recent progress in both experimental and computational methods has led to higher resolution three-dimensional maps, including for more challenging low molecular weight proteins, and this has highlighted the problems of model bias and over-fitting during iterative refinement that can potentially lead to incorrect map features at low or high resolution. This chapter discusses the principles and practice of specific validation tests that demonstrate the consistency of a 3D map with projection images. In addition, the chapter describes tests that detect over-fitting during refinement and lead to more robust assessment of both global and local map resolution. Application of several of these tests together demonstrates the reliability of single-particle maps that underpins their correct biological interpretation. PMID:27572729

  20. Pleiotropic Effect of a High Resolution Mapped Blood Pressure QTL on Tumorigenesis.

    PubMed

    Cheng, Xi; Waghulde, Harshal; Mell, Blair; Smedlund, Kathryn; Vazquez, Guillermo; Joe, Bina

    2016-01-01

    This study is focused on a translationally significant, genome-wide-association-study (GWAS) locus for cardiovascular disease (QT-interval) on human chromosome 17. We have previously validated and high resolution mapped the homologous genomic segment of this human locus to <42.5 kb on rat chromosome 10. This <42.5 kb segment in rats regulates both QT-interval and blood pressure and contains a single protein-coding gene, rififylin (Rffl). The expression of Rffl in the hearts and kidneys is differential between Dahl S and S.LEW congenic rats, which are the strains used for mapping this locus. Our previous study points to altered rate of endocytic recycling as the underlying mechanism, through which Rffl operates to control both QT-interval and blood pressure. Interestingly, Rffl also contributes to tumorigenesis by repressing caspases and tumor suppressor genes. Moreover, the expression of Methyl-CpG Binding Domain Protein 2 (Mbd2) in the hearts and kidneys is also higher in the S.LEW congenic strain than the background (control) Dahl S strain. Mbd2 can repress methylated tumor suppressor genes. These data suggest that the S.LEW congenic strain could be more susceptible to tumorigenesis. To test this hypothesis, the S and S.LEW strains were compared for susceptibility to azoxymethane-induced colon tumors. The number of colon tumors was significantly higher in the S.LEW congenic strain compared with the S rat. Transcriptomic analysis confirmed that the chemical carcinogenesis pathway was significantly up-regulated in the congenic strain. These studies provide evidence for a GWAS-validated genomic segment on rat chromosome 10 as being important for the regulation of cardiovascular function and tumorigenesis. PMID:27073989

  1. High resolution critical habitat mapping and classification of tidal freshwater wetlands in the ACE Basin

    NASA Astrophysics Data System (ADS)

    Strickland, Melissa Anne

    In collaboration with the South Carolina Department of Natural Resources ACE Basin National Estuarine Research Reserve (ACE Basin NERR), the tidal freshwater ecosystems along the South Edisto River in the ACE Basin are being accurately mapped and classified using a LIDAR-Remote Sensing Fusion technique that integrates LAS LIDAR data into texture images and then merges the elevation textures and multispectral imagery for very high resolution mapping. This project discusses the development and refinement of an ArcGIS Toolbox capable of automating protocols and procedures for marsh delineation and microhabitat identification. The result is a high resolution habitat and land use map used for the identification of threatened habitat. Tidal freshwater wetlands are also a critical habitat for colonial wading birds and an accurate assessment of community diversity and acreage of this habitat type in the ACE Basin will support SCDNR's conservation and protection efforts. The maps developed by this study will be used to better monitor the freshwater/saltwater interface and establish a baseline for an ACE NERR monitoring program to track the rates and extent of alterations due to projected environmental stressors. Preliminary ground-truthing in the field will provide information about the accuracy of the mapping tool.

  2. Contamination-free transmission electron microscopy for high-resolution carbon elemental mapping of polymers.

    PubMed

    Horiuchi, Shin; Hanada, Takeshi; Ebisawa, Masaharu; Matsuda, Yasuhiro; Kobayashi, Motoyasu; Takahara, Atsushi

    2009-05-26

    Specimen contamination induced by electron beam irradiation has long been a serious problem for high-resolution imaging and analysis by a transmission electron microscope (TEM). It creates a deposition of carbonaceous compounds on a region under study, causing the loss of resolution. We developed a method to reduce the beam-induced specimen contamination by cleaning a TEM with activated oxygen radicals. The hydrocarbon contaminants accumulated inside the microscope's chamber can be etched away by gentle chemical oxidation without causing any damage to the microscope. The "contamination-free TEM" can effectively suppress the deposition of carbon-rich products on a specimen and therefore enables us to perform high-resolution carbon elemental mapping by energy-filtering transmission electron microscopy (EFTEM). In this study, we investigated the structure of polymer brushes immobilized on a silica nanoparticle (SiNP), of which molecular weight, length, and density of the brushes had been characterized in detail. The isolated particle showed the stretched formations of the polymer chains growing from the surface, while the densely distributed particles showed the connection of the polymer chains between neighboring particles. Moreover, the polymer brush layer and the surface initiator could be differentiated from each other by the component-specific contrast achieved by electron spectroscopic imaging (ESI). The contamination-free TEM can allow us to perform high-resolution carbon mapping and is expected to provide deep insights of soft materials' nanostructures. PMID:19402650

  3. RAVEN - High-resolution Mapping of Venus within a Discovery Mission Budget

    NASA Astrophysics Data System (ADS)

    Sharpton, V. L.; Herrick, R. R.; Rogers, F.; Waterman, S.

    2009-12-01

    It has been more than 15 years since the Magellan mission mapped Venus with S-band synthetic aperture radar (SAR) images at ~100-m resolution. Advances in radar technology are such that current Earth-orbiting SAR instruments are capable of providing images at meter-scale resolution. RAVEN (RAdar at VENus) is a mission concept that utilizes the instrument developed for the RADARSAT Constellation Mission (RCM) to map Venus in an economical, highly capable, and reliable way. RCM relies on a C-band SAR that can be tuned to generate images at a wide variety of resolutions and swath widths, ranging from ScanSAR mode (broad swaths at 30-m resolution) to strip-map mode (resolutions as fine as 3 m), as well as a spotlight mode that can image patches at 1-m resolution. In particular, the high-resolution modes allow the landing sites of previous missions to be pinpointed and characterized. Repeat-pass interferometric SAR (InSAR) and stereo radargrammetry provide options for constraining topography to better than 100-m horizontal and 10-m vertical resolution. InSAR also provides the potential for detecting surface deformation at centimeter precision. Performing InSAR requires precise knowledge and control of the orbital geometry, and for this reason a 600-km circular polar orbit is favored. This configuration causes the equatorial nadir point to move ~9 km per orbit. Considering both ascending and descending passes, the spacecraft will pass over every point on the planet in half a Venus day (~4 Earth months). The ability to transmit data back to Earth via the Deep Space Network is the primary limiting factor on the volume of data that can be collected. Our current estimates indicate that within an imaging cycle of one Venus day we can image 20-30 percent of the planet at 20-30-m resolution and several percent at 3-5 m resolution. These figures compare favorably to the coverage provided by recent imaging systems orbiting Mars. Our strategy calls for the first cycle of coverage

  4. National scale high-resolution mapping of coastal wave overtopping risk in England and Wales

    NASA Astrophysics Data System (ADS)

    Alexandre, Rebecca; Hird, Matthew

    2015-04-01

    The coastal flooding associated with the 2013-2014 UK winter storms caused widespread property damage and one fatality along the coastlines of south-west England and Wales. High spring tides and large waves combined to unexpectedly overtop coastal flood defences. The increasing risk of waves overtopping sea defences coupled with the rise in property development along the coast highlights the need for new and innovative tools for understanding coastal flood risk. Until now, broad-scale coastal hazard maps have overlooked coastal wave overtopping inundation, thereby underestimating flood risk. Recognising this gap has led to the development of the first nation-wide wave overtopping flood map for England and Wales, which we present here. Aimed primarily at the re/insurance sector, JBA has established a methodology for rapidly modelling large-scale wave overtopping flooding. An inception study investigated a range of modelling approaches for national scale modelling and the most suitable design computed general peak wave overtopping rates representative of four separate return period events. Hydrographs were calculated to reflect the changes in the overtopping rate as a result of changes to the water levels throughout the tidal cycle. Overtopping volumes were then computed from the overtopping rates and defence polylines digitised in ArcGIS. Finally, topographically controlled inundation was simulated across a high-resolution digital terrain model using a 2D hydrodynamic flood model. Results from the selected methodology compared well against test areas modelled in detail using additional data on bathymetry, beach profiles, and defence geometry. Sensibility checks were performed using extreme sea level value data to ensure that the model outputs were consistent with the sea level heights expected during a storm event of a particular return period. Moreover, model results corroborated well with media reports on flood extents experienced by communities during the 2013

  5. High-resolution YAC-cosmid-STS map of human chromosome 13.

    PubMed

    Cayanis, E; Russo, J J; Kalachikov, S; Ye, X; Park, S H; Sunjevaric, I; Bonaldo, M F; Lawton, L; Venkatraj, V S; Schon, E; Soares, M B; Rothstein, R; Warburton, D; Edelman, I S; Zhang, P; Efstratiadis, A; Fischer, S G

    1998-01-01

    We have assembled a high-resolution physical map of human chromosome 13 DNA (approximately 114 Mb) from hybridization, PCR, and FISH mapping data using a specifically designed set of computer programs. Although the mapping of 13p is limited, 13q (approximately 98 Mb) is covered by an almost continuous contig of 736 YACs aligned to 597 contigs of cosmids. Of a total of 10,789 cosmids initially selected from a chromosome 13-specific cosmid library (16,896 colonies) using inter-Alu PCR probes from the YACs and probes for markers mapped to chromosome 13, 511 were assembled in contigs that were established from cross-hybridization relationships between the cosmids. The 13q YAC-cosmid map was annotated with 655 sequence tagged sites (STSs) with an average spacing of 1 STS per 150 kb. This set of STSs, each identified by a D number and cytogenetic location, includes database markers (198), expressed sequence tags (93), and STSs generated by sequencing of the ends of cosmid inserts (364). Additional annotation has been provided by positioning 197 cosmids mapped by FISH on 13q. The final (comprehensive) map, a list of STS primers, and raw data used in map assembly are available at our Web site (genome1.ccc.columbia.edu/ approximately genome/) and can serve as a resource to facilitate accurate localization of additional markers, provide substrates for sequencing, and assist in the discovery of chromosome 13 genes associated with hereditary diseases. PMID:9465293

  6. High-Resolution Aeromagnetic Survey Map of Part of the Southwest Nevada Volcanic Field

    SciTech Connect

    G. Keating; R. Prueitt; A. Cogbill

    2004-06-21

    A high-resolution aeromagnetic survey was recently flown to collect data for geologic investigations in the Southwest Nevada Volcanic Field. This survey represents a marked improvement over previous (1999) surveys. The survey includes over 860 km{sup 2} covered by nearly 16,000 km of flightline with 60-m spacing and an instrument altitude of 30 m above the ground surface. Features of interest visible in the dataset include magnetic banding in the volcanic tuffs that form the faulted terrain and sharp delineation of Quaternary basalt cinder cones and lava flows. This 1:100,000-scale map includes a shaded-relief map base and a semi-transparent overlay of the aeromagnetic data, with inset maps illustrating (1) comparisons of detail between the 1999 and 2004 datasets, (2) polarity reversal banding in the volcanic tuff ridges, (3) details of the morphology of Quaternary basalt centers enhanced by aeromagnetic data, and (4) use of GIS in planning the survey.

  7. Very High Resolution Mapping of Tree Cover Using Scalable Deep Learning Architectures

    NASA Astrophysics Data System (ADS)

    ganguly, sangram; basu, saikat; nemani, ramakrishna; mukhopadhyay, supratik; michaelis, andrew; votava, petr; saatchi, sassan

    2016-04-01

    Several studies to date have provided an extensive knowledge base for estimating forest aboveground biomass (AGB) and recent advances in space-based modeling of the 3-D canopy structure, combined with canopy reflectance measured by passive optical sensors and radar backscatter, are providing improved satellite-derived AGB density mapping for large scale carbon monitoring applications. A key limitation in forest AGB estimation from remote sensing, however, is the large uncertainty in forest cover estimates from the coarse-to-medium resolution satellite-derived land cover maps (present resolution is limited to 30-m of the USGS NLCD Program). As part of our NASA Carbon Monitoring System Phase II activities, we have demonstrated that uncertainties in forest cover estimates at the Landsat scale result in high uncertainties in AGB estimation, predominantly in heterogeneous forest and urban landscapes. We have successfully tested an approach using scalable deep learning architectures (Feature-enhanced Deep Belief Networks and Semantic Segmentation using Convolutional Neural Networks) and High-Performance Computing with NAIP air-borne imagery data for mapping tree cover at 1-m over California and Maryland. Our first high resolution satellite training label dataset from the NAIP data can be found here at http://csc.lsu.edu/~saikat/deepsat/ . In a comparison with high resolution LiDAR data available over selected regions in the two states, we found our results to be promising both in terms of accuracy as well as our ability to scale nationally. In this project, we propose to estimate very high resolution forest cover for the continental US at spatial resolution of 1-m in support of reducing uncertainties in the AGB estimation. The proposed work will substantially contribute to filling the gaps in ongoing carbon monitoring research and help quantifying the errors and uncertainties in related carbon products.

  8. GERLUMPH DATA RELEASE 1: HIGH-RESOLUTION COSMOLOGICAL MICROLENSING MAGNIFICATION MAPS AND eResearch TOOLS

    SciTech Connect

    Vernardos, G.; Fluke, C. J.; Croton, D.; Bate, N. F.

    2014-03-01

    As synoptic all-sky surveys begin to discover new multiply lensed quasars, the flow of data will enable statistical cosmological microlensing studies of sufficient size to constrain quasar accretion disk and supermassive black hole properties. In preparation for this new era, we are undertaking the GPU-Enabled, High Resolution cosmological MicroLensing parameter survey (GERLUMPH). We present here the GERLUMPH Data Release 1, which consists of 12,342 high resolution cosmological microlensing magnification maps and provides the first uniform coverage of the convergence, shear, and smooth matter fraction parameter space. We use these maps to perform a comprehensive numerical investigation of the mass-sheet degeneracy, finding excellent agreement with its predictions. We study the effect of smooth matter on microlensing induced magnification fluctuations. In particular, in the minima and saddle-point regions, fluctuations are enhanced only along the critical line, while in the maxima region they are always enhanced for high smooth matter fractions (≈0.9). We describe our approach to data management, including the use of an SQL database with a Web interface for data access and online analysis, obviating the need for individuals to download large volumes of data. In combination with existing observational databases and online applications, the GERLUMPH archive represents a fundamental component of a new microlensing eResearch cloud. Our maps and tools are publicly available at http://gerlumph.swin.edu.au/.

  9. High-resolution mapping of a 130-kb core region of the MYCN amplicon in neuroblastomas

    SciTech Connect

    Reiter, J.L.; Brodeur, G.M.

    1996-02-15

    This article reports on a high-resolution restriction map containing the MYCN locus. the exon-intron structure and tissue distribution of the laminin {gamma}2 chain (LAMC2) gene, which is mutated in some cases of junctional epidermolysis bullosa. The article also discusses the transcription and splicing of this gene, which result in alternative uses of the last two exons of the gene. The different tissue distributions of the transcripts indicate different functions for the gene in vivo. 36 refs., 8 figs., 3 tabs.

  10. High-Resolution Geologic Mapping of the Inner Continental Shelf: Cape Ann to Salisbury Beach, Massachusetts

    USGS Publications Warehouse

    Barnhardt, Walter A.; Andrews, Brian D.; Ackerman, Seth D.; Baldwin, Wayne E.; Hein, Christopher J.

    2009-01-01

    The geologic framework of the Massachusetts inner continental shelf between Cape Ann and Salisbury Beach has been shaped by a complicated history of glaciation, deglaciation, and changes in relative sea level. New geophysical data (swath bathymetry, sidescan sonar and seismic-reflection profiling), sediment samples, and seafloor photography provide insight into the geomorphic and stratigraphic record generated by these processes. High-resolution spatial data and geologic maps in this report support coastal research and efforts to understand the type, distribution, and quality of subtidal marine habitats in the Massachusetts coastal ocean.

  11. High-resolution geologic mapping of the inner continental shelf: Nahant to Gloucester, Massachusetts

    USGS Publications Warehouse

    Barnhardt, Walter A.; Andrews, Brian D.; Butman, Bradford

    2006-01-01

    This report presents high-resolution maps of the seafloor offshore of Massachusetts, from Nahant to Gloucester. Approximately 134 km² of the inner shelf were mapped with a focus on the nearshore region in water depths less than 40 m (fig. 1.1). The maps were prepared as part of a cooperative mapping program between the U.S. Geological Survey (USGS) and the Massachusetts Office of Coastal Zone Management (CZM). They are based on marine geophysical data, sediment sampling, and bottom photography obtained on two research cruises carried out in 2003 and 2004. The primary objective of this program is to develop a suite of seafloor maps that provide geologic information for management of coastal and marine resources. Accurate maps of seafloor geology are important first steps toward protecting fish habitat, delineating marine reserves, and assessing environmental changes due to natural or human impacts. The maps also provide a geologic framework for scientific research, industry and the public. The organization of this report is outlined in the navigation bar along the left-hand margin of the page. This is section 1, the introduction. Section 2 briefly describes the mapping products contained in this report and has links to large-format map sheets, that can be viewed on line or downloaded. Section 3 is a description of the data collection, processing, and analysis procedures used to create the map products. Section 4 examines the geologic framework and late Quaternary evolution of the region, and presents two different strategies for mapping the complex seafloor. This report also contains four appendices that include GIS layers of all data collected in this study, and copies of the sample and photographic data used to validate the interpretations.

  12. High-Resolution Association Mapping of Quantitative Trait Loci: A Population-Based Approach

    PubMed Central

    Fan, Ruzong; Jung, Jeesun; Jin, Lei

    2006-01-01

    In this article, population-based regression models are proposed for high-resolution linkage disequilibrium mapping of quantitative trait loci (QTL). Two regression models, the “genotype effect model” and the “additive effect model,” are proposed to model the association between the markers and the trait locus. The marker can be either diallelic or multiallelic. If only one marker is used, the method is similar to a classical setting by Nielsen and Weir, and the additive effect model is equivalent to the haplotype trend regression (HTR) method by Zaykin et al. If two/multiple marker data with phase ambiguity are used in the analysis, the proposed models can be used to analyze the data directly. By analytical formulas, we show that the genotype effect model can be used to model the additive and dominance effects simultaneously; the additive effect model takes care of the additive effect only. On the basis of the two models, F-test statistics are proposed to test association between the QTL and markers. By a simulation study, we show that the two models have reasonable type I error rates for a data set of moderate sample size. The noncentrality parameter approximations of F-test statistics are derived to make power calculation and comparison. By a simulation study, it is found that the noncentrality parameter approximations of F-test statistics work very well. Using the noncentrality parameter approximations, we compare the power of the two models with that of the HTR. In addition, a simulation study is performed to make a comparison on the basis of the haplotype frequencies of 10 SNPs of angiotensin-1 converting enzyme (ACE) genes. PMID:16172503

  13. High-Resolution BAC-Based Map of the Central Portion of Mouse Chromosome 5

    PubMed Central

    Crabtree, Jonathan; Wiltshire, Tim; Brunk, Brian; Zhao, Shaying; Schug, Jonathan; Stoeckert, Christian J.; Bucan, Maja

    2001-01-01

    The current strategy for sequencing the mouse genome involves the combination of a whole-genome shotgun approach with clone-based sequencing. High-resolution physical maps will provide a foundation for assembling contiguous segments of sequence. We have established a bacterial artificial chromosome (BAC)-based map of a 5-Mb region on mouse Chromosome 5, encompassing three gene families: receptor tyrosine kinases (PdgfraKit-Kdr), nonreceptor protein-tyrosine type kinases (Tec–Txk), and type-A receptors for the neurotransmitter GABA (Gabra2, Gabrb1, Gabrg1, and Gabra4). The construction of a BAC contig was initiated by hybridization screening the C57BL/6J (RPCI-23) BAC library, using known genes and sequence tagged sites (STSs). Additional overlapping clones were identified by searching the database of available restriction fingerprints for the RPCI-23 and RPCI-24 libraries. This effort resulted in the selection of >600 BAC clones, 251 kb of BAC-end sequences, and the placement of 40 known and/or predicted genes within this 5-Mb region. We use this high-resolution map to illustrate the integration of the BAC fingerprint map with a radiation-hybrid map via assembled expressed sequence tags (ESTs). From annotation of three representative BAC clones we demonstrate that up to 98% of the draft sequence for each contig could be ordered and oriented using known genes, BAC ends, consensus sequences for transcript assemblies, and comparisons with orthologous human sequence. For functional studies, annotation of sequence fragments as they are assembled into 50–200-kb stretches will be remarkably valuable. PMID:11591652

  14. High-Resolution 3D Bathymetric Mapping for Small Streams Using Low-Altitude Aerial Photography

    NASA Astrophysics Data System (ADS)

    Dietrich, J. T.; Duffin, J.

    2015-12-01

    Geomorphic monitoring of river restoration projects is a critical component of measuring their success. In smaller streams, with depths less than 2 meters, one of the more difficult variables to map at high-resolution is bathymetry. In larger rivers, bathymetry can be measured with instruments like multi-beam sonar, bathymetric airborne LiDAR, or acoustic doppler current profilers (ADCP). However, these systems are often limited by their minimum operating depths, which makes them ineffective in shallow water. Remote sensing offers several potential solutions for collecting bathymetry, spectral depth mapping and photogrammetric measurement (e.g. Structure-from-Motion (SfM) multi-view photogrammetry). In this case study, we use SfM to produce both high-resolution above water topography and below water bathymetry for two reaches of a stream restoration project on the Middle Fork of the John Day River in eastern Oregon and one reach on the White River in Vermont. We collected low-allitude multispectral (RGB+NIR) aerial photography at all of the sites at altitudes of 30 to 50 meters. The SfM survey was georeferenced with RTK-GPS ground control points and the bathymetry was refraction-corrected using additional RTK-GPS sample points. The resulting raster data products have horizontal resolutions of ~4-8 centimeters for the topography and ~8-15 cm for the bathymetry. This methodology, like many fluvial remote sensing methods, will only work under ideal conditions (e.g. clear water), but it provides an additional tool for collecting high-resolution bathymetric datasets for geomorphic monitoring efforts.

  15. High-resolution genetic maps of Eucalyptus improve Eucalyptus grandis genome assembly.

    PubMed

    Bartholomé, Jérôme; Mandrou, Eric; Mabiala, André; Jenkins, Jerry; Nabihoudine, Ibouniyamine; Klopp, Christophe; Schmutz, Jeremy; Plomion, Christophe; Gion, Jean-Marc

    2015-06-01

    Genetic maps are key tools in genetic research as they constitute the framework for many applications, such as quantitative trait locus analysis, and support the assembly of genome sequences. The resequencing of the two parents of a cross between Eucalyptus urophylla and Eucalyptus grandis was used to design a single nucleotide polymorphism (SNP) array of 6000 markers evenly distributed along the E. grandis genome. The genotyping of 1025 offspring enabled the construction of two high-resolution genetic maps containing 1832 and 1773 markers with an average marker interval of 0.45 and 0.5 cM for E. grandis and E. urophylla, respectively. The comparison between genetic maps and the reference genome highlighted 85% of collinear regions. A total of 43 noncollinear regions and 13 nonsynthetic regions were detected and corrected in the new genome assembly. This improved version contains 4943 scaffolds totalling 691.3 Mb of which 88.6% were captured by the 11 chromosomes. The mapping data were also used to investigate the effect of population size and number of markers on linkage mapping accuracy. This study provides the most reliable linkage maps for Eucalyptus and version 2.0 of the E. grandis genome. PMID:25385325

  16. A High Resolution Genetic Map Anchoring Scaffolds of the Sequenced Watermelon Genome

    PubMed Central

    Kou, Qinghe; Jiang, Jiao; Guo, Shaogui; Zhang, Haiying; Hou, Wenju; Zou, Xiaohua; Sun, Honghe; Gong, Guoyi; Levi, Amnon; Xu, Yong

    2012-01-01

    As part of our ongoing efforts to sequence and map the watermelon (Citrullus spp.) genome, we have constructed a high density genetic linkage map. The map positioned 234 watermelon genome sequence scaffolds (an average size of 1.41 Mb) that cover about 330 Mb and account for 93.5% of the 353 Mb of the assembled genomic sequences of the elite Chinese watermelon line 97103 (Citrullus lanatus var. lanatus). The genetic map was constructed using an F8 population of 103 recombinant inbred lines (RILs). The RILs are derived from a cross between the line 97103 and the United States Plant Introduction (PI) 296341-FR (C. lanatus var. citroides) that contains resistance to fusarium wilt (races 0, 1, and 2). The genetic map consists of eleven linkage groups that include 698 simple sequence repeat (SSR), 219 insertion-deletion (InDel) and 36 structure variation (SV) markers and spans ∼800 cM with a mean marker interval of 0.8 cM. Using fluorescent in situ hybridization (FISH) with 11 BACs that produced chromosome-specifc signals, we have depicted watermelon chromosomes that correspond to the eleven linkage groups constructed in this study. The high resolution genetic map developed here should be a useful platform for the assembly of the watermelon genome, for the development of sequence-based markers used in breeding programs, and for the identification of genes associated with important agricultural traits. PMID:22247776

  17. Internet-enabled high-resolution brain mapping and virtual microscopy.

    PubMed

    Mikula, Shawn; Trotts, Issac; Stone, James M; Jones, Edward G

    2007-03-01

    Virtual microscopy involves the conversion of histological sections mounted on glass microscope slides to high-resolution digital images. Virtual microscopy offers several advantages over traditional microscopy, including remote viewing and data sharing, annotation, and various forms of data mining. We describe a method utilizing virtual microscopy for generation of internet-enabled, high-resolution brain maps and atlases. Virtual microscopy-based digital brain atlases have resolutions approaching 100,000 dpi, which exceeds by three or more orders of magnitude resolutions obtainable in conventional print atlases, MRI, and flat-bed scanning. Virtual microscopy-based digital brain atlases are superior to conventional print atlases in five respects: (1) resolution, (2) annotation, (3) interaction, (4) data integration, and (5) data mining. Implementation of virtual microscopy-based digital brain atlases is located at BrainMaps.org, which is based on more than 10 million megapixels (35 terabytes) of scanned images of serial sections of primate and non-primate brains with a resolution of 0.46 microm/pixel (55,000 dpi). The method can be replicated by labs seeking to increase accessibility and sharing of neuroanatomical data. Online tools offer the possibility of visualizing and exploring completely digitized sections of brains at a sub-neuronal level and can facilitate large-scale connectional tracing, histochemical, and stereological analyses. PMID:17229579

  18. Exploring for subtle traps with high-resolution paleogeographic maps: Reklaw 1 interval (Eocene), south Texas

    SciTech Connect

    Bulling, T.P.; Breyer, J.A.

    1989-01-01

    High-resolution paleogeographic maps depicting the depositional history of the Reklaw 1 interval provide a basis for prospecting for subtle traps in the updip Reklaw trend in south Texas. The Reklaw 1 interval began with sand being carried southwestward by longshore currents to form the barrier bar that became Atkinson field. The hydrocarbons were trapped by the updip pinch-out of barrier-bar sand into lagoonal mud. Stratigraphic traps similar to Atkinson field could be present along depositional strike if the sand in the field were part of an extensive barrier-bar system. After the barrier bar formed, distributary mouth bars prograded seaward, depositing the bar-finger sands that became the Hysaw and Flax fields. Subtle structural traps could be present today where small up-to-the-coast faults associated with the sample fault system cut the bar-finger sands downdip from established production. Farther down paleoslope, the distributary channels began to bifurcate and the distributary mouth bars coalesced to form a broad delta-front sheet sand. Burnell, Hondo Creek, and Runge West fields produce from this sheet sand at the unstable shelf margin. A rapid rise in relative sea level terminated the Reklaw 1 interval. Many of the oil and gas fields still to be discovered in the US are in mature petroleum provinces where much of the remaining oil and gas probably resides in subtle traps. High-resolution paleogeographic maps are the key to finding these subtle traps. 11 figures, 2 tables.

  19. Transfer of Technology for Cadastral Mapping in Tajikistan Using High Resolution Satellite Data

    NASA Astrophysics Data System (ADS)

    Kaczynski, R.

    2012-07-01

    European Commission funded project entitled: "Support to the mapping and certification capacity of the Agency of Land Management, Geodesy and Cartography" in Tajikistan was run by FINNMAP FM-International and Human Dynamics from Nov. 2006 to June 2011. The Agency of Land Management, Geodesy and Cartography is the state agency responsible for development, implementation, monitoring and evaluation of state policies on land tenure and land management, including the on-going land reform and registration of land use rights. The specific objective was to support and strengthen the professional capacity of the "Fazo" Institute in the field of satellite geodesy, digital photogrammetry, advanced digital satellite image processing of high resolution satellite data and digital cartography. Lectures and on-the-job trainings for the personnel of "Fazo" and Agency in satellite geodesy, digital photogrammetry, cartography and the use of high resolution satellite data for cadastral mapping have been organized. Standards and Quality control system for all data and products have been elaborated and implemented in the production line. Technical expertise and trainings in geodesy, photogrammetry and satellite image processing to the World Bank project "Land Registration and Cadastre System for Sustainable Agriculture" has also been completed in Tajikistan. The new map projection was chosen and the new unclassified geodetic network has been established for all of the country in which all agricultural parcel boundaries are being mapped. IKONOS, QuickBird and WorldView1 panchromatic data have been used for orthophoto generation. Average accuracy of space triangulation of non-standard (long up to 90km) satellite images of QuickBird Pan and IKONOS Pan on ICPs: RMSEx = 0.5m and RMSEy = 0.5m have been achieved. Accuracy of digital orthophoto map is RMSExy = 1.0m. More then two and half thousands of digital orthophoto map sheets in the scale of 1:5000 with pixel size 0.5m have been produced

  20. USGS advances in integrated, high-resolution sea-floor mapping: inner continental shelf to estuaries

    USGS Publications Warehouse

    Denny, J.F.; Schwab, W.C.; Twichell, D.C.; O'Brien, T.F.; Danforth, W.W.; Foster, D.S.; Bergeron, E.; Worley, C.W.; Irwin, B.J.; Butman, B.; Valentine, P.C.; Baldwin, W.E.; Morton, R.A.; Thieler, E.R.; Nichols, D.R.; Andrews, B.D.

    2007-01-01

    The U.S. Geological Survey (USGS) has been involved in geological mapping of the sea floor for the past thirty years. Early geophysical and acoustic mapping efforts using GLORIA (Geologic LOng Range Inclined ASDIC) a long-range sidescan-sonar system, provided broad-scale imagery of deep waters within the U.S. Exclusive Economic Zone (EEZ). In the early 1990's, research emphasis shifted from deep- to shallow-water environments to address pertinent coastal research and resource management issues. Use of shallow-water, high-resolution geophysical systems has enhanced our understanding of the processes shaping shallow marine environments. However, research within these shallow-water environments continues to present technological challenges.

  1. Towards construction of a high resolution map of the mouse genome using PCR-analysed microsatellites.

    PubMed Central

    Love, J M; Knight, A M; McAleer, M A; Todd, J A

    1990-01-01

    Fifty sequences from the mouse genome database containing simple sequence repeats or microsatellites have been analysed for size variation using the polymerase chain reaction and gel electrophoresis. 88% of the sequences, most of which contain the dinucleotide repeat, CA/GT, showed size variations between different inbred strains of mice and the wild mouse, Mus spretus. 62% of sequences had 3 or more alleles. GA/CT and AT/TA-containing sequences were also variable. About half of these size variants were detectable by agarose gel electrophoresis. This simple approach is extremely useful in linkage and genome mapping studies and will facilitate construction of high resolution maps of both the mouse and human genomes. Images PMID:2377456

  2. Rockfall susceptibility mapping of Yosemite Valley (USA) using a high-resolution digital elevation model

    NASA Astrophysics Data System (ADS)

    Pannatier, A.; Oppikofer, T.; Jaboyedoff, M.; Stock, G. M.

    2009-04-01

    In Yosemite National Park (California, USA) rockfalls from the steep valley flanks are frequent (>600 documented events in 150 years) and threaten infrastructure in this popular tourist area. This study focuses on a methodology to map the susceptibility to rockfall initiation based on a high-resolution digital elevation model (HRDEM) obtained from aerial laser scanning (1 meter cell size). This methodology is based on geometric factors derived from the HRDEM, i.e., the steepness of the topography, the presence of joints or fractures enabling either a planar or a wedge failure mechanism, and a high denudation potential. The slope angle histogram computed using standard GIS routines was simulated using Gaussian distributions, which were attributed to different parts of the topography, i.e., the cliffs, the valley flanks and the valley floor. Slopes steeper than 36° are found to form cliffs and thus potentially lead to rockfalls. A morpho-structural analysis of the HRDEM was performed in Coltop3D software to determine the major discontinuity sets that shape the topography. Kinematic analyses were made for each of these 7 discontinuity sets in order to determine the HRDEM cells that fulfil the geometric criteria for a planar or wedge failure mechanism. Most of the cliffs in Yosemite Valley enable one or both of these failure mechanisms. The denudation potential was assessed using the sloping local base level (SLBL) concept. The SLBL defines a basal erosion surface and the above lying rock masses (up to 400 m in some of the vertical cliffs) are susceptible to erosion by mass wasting. A thickness of 20 m above the SLBL surface was chosen as lower limit for the denudation potential criterion. The HRDEM cells that satisfy 1, 2 or all 3 criteria are considered having low, moderate and high susceptibility to rockfall initiation. The areas with highest susceptibility (El Capitan, Glacier Point, Yosemite Falls and Half Dome) coincide well with post-glacial talus accumulations

  3. The need for sustained and integrated high-resolution mapping of dynamic coastal environments

    USGS Publications Warehouse

    Stockdon, Hilary F.; Lillycrop, Jeff W.; Howd, Peter A.; Wozencraft, Jennifer M.

    2007-01-01

    The evolution of the United States' coastal zone response to both human activities and natural processes is dynamic. Coastal resource and population protection requires understanding, in detail, the processes needed for change as well as the physical setting. Sustained coastal area mapping allows change to be documented and baseline conditions to be established, as well as future behavior to be predicted in conjunction with physical process models. Hyperspectral imagers and airborne lidars, as well as other recent mapping technology advances, allow rapid national scale land use information and high-resolution elevation data collection. Coastal hazard risk evaluation has critical dependence on these rich data sets. A fundamental storm surge model parameter in predicting flooding location, for example, is coastal elevation data, and a foundation in identifying the most vulnerable populations and resources is land use maps. A wealth of information for physical change process study, coastal resource and community management and protection, and coastal area hazard vulnerability determination, is available in a comprehensive national coastal mapping plan designed to take advantage of recent mapping technology progress and data distribution, management, and collection.

  4. Geostatistical evaluation of satellite radar altimetry for high-resolution mapping of Lambert Glacier, Antarctica

    NASA Technical Reports Server (NTRS)

    Herzfeld, Ute C.; Lingle, Craig S.; Lee, Li-Her

    1993-01-01

    The potential of satellite radar altimetry for high-resolution mapping of Antarctic ice streams is evaluated, using retracked and slope-corrected data from the Lambert Glacier and Amery Ice Shelf area, East Antarctica, acquired by Geosat during the Exact Repeat Mission (ERM), 1986-89. The map area includes lower Lambert Glacier north of 72.18 deg S, the southern Amery Ice Shelf, and the grounded inland ice sheet on both sides. The Geosat ERM altimetry is found to provide substantially more complete coverage than the 1978 Seasat altimetry, due to improved tracking. Variogram methods are used to estimate the noise levels in the data as a function of position throughout the map area. The spatial structure in the data is quantified by constructing experimental variograms using altimetry from the area of the grounding zone of Lambert Glacier, which is the area chiefly of interest in this topographically complex region. Kriging is employed to invert the along-track height measurements onto a fine-scale 3 km grid. The unsmoothed along-track Geosat ERM altimetry yields spatially continuous maps showing the main topographic features of lower Lambert Glacier, upper Amery Ice Shelf and the adjacent inland ice sheet. The probable position of the grounding line of Lambert Glacier is identified from a break in slope at the grounded ice/floating ice transition. The approximate standard error of the kriged map is inferred from the data noise levels.

  5. High-resolution mapping of the 1998 lava flows at Axial Seamount

    NASA Astrophysics Data System (ADS)

    Chadwick, B.; Clague, D. A.; Embley, R. W.; Caress, D. W.; Paduan, J. B.; Sasnett, P.

    2011-12-01

    Axial Seamount (an active hotspot volcano on the Juan de Fuca Ridge) last erupted in 1998 and produced two lava flows (a "northern" and a "southern" flow) along the upper south rift zone separated by a distance of 4 km. Geologic mapping of the 1998 lava flows has been carried out with a combination of visual observations from multiple submersible dives since 1998, and with high-resolution bathymetry, most recently collected with the MBARI mapping AUV (the D. Allan B.) since 2007. The new mapping results revise and update the previous preliminary flow outlines, areas, and volumes. The high-resolution bathymetry (1-m grid cell size) allows eruptive fissures fine-scale morphologic features to be resolved with new and remarkable clarity. The morphology of both lava flows can be interpreted as a consequence of a specific sequence of events during their emplacement. The northern sheet flow is long (4.6 km) and narrow (500 m), and erupted in the SE part of Axial caldera, where it temporarily ponded and inflated on relatively flat terrain before draining out southward toward steeper slopes. The inflation and drain-out of this sheet flow by ~ 3.5 m over 2.5 hours was previously documented by a monitoring instrument that was caught in the lava flow. Our geologic mapping shows that the morphology of the northern sheet flow varies along its length primarily due to gradients in the underlying slope and processes active during flow emplacement. The original morphology of the sheet flow where it ponded is lobate, with pillows near the margins, whereas the central axis of drain-out and collapse is floored with lineated, ropy, and jumbled lava morphologies. The southern lava flow, in contrast, is mostly pillow lava where it cascaded down the steep slope on the east flank of the south rift zone, but also has a major area of collapse where lava ponded temporarily near the rift axis. These results show that submarine lava flows have more subsurface hydraulic connectivity than has

  6. A new ant based distributed framework for urban road map updating from high resolution satellite imagery

    NASA Astrophysics Data System (ADS)

    Zarrinpanjeh, Nima; Samadzadegan, Farhad; Schenk, Toni

    2013-04-01

    Receiving updated information about the network of roads from high resolution satellite imagery is a crucially important issue in continuously changing developing urban regions. Considering experiences in road extraction and also exploiting distributed evolutionary computational approaches, in this paper a new framework for road map updating from remotely sensed data is proposed. Three main computational entities of ant-agent, seed extractor and algorithm library are designed and road map updating is performed through three main stages of verification of the old map, extraction of possible roads and grouping of the results of both stages. Extracting corresponding pixels to each road element in the map, an object level supervised classification or any available road verification algorithm from the library capable of producing a road likeliness value is applied. Since road extraction is a simple and also a complex problem, more comprehensive algorithms are chosen from library iteratively by ant-agents so the decision about verification and rejection of each road element is finally made. Ant-agents facilitate choosing road elements and moving of ant agents via stigmergic communication by pheromone cast and evaporation. The proposed method is developed and tested using GeoEye-1 pan-sharpen imagery and 1:2000 corresponding digital vector map of the region. As observed, the results are satisfactory in terms of detection, verification and extraction of roads and generation of the updated map specifically in case of inspection of main roads. Besides, some missed road items are reported in case of inspection of bystreets and alleys specially when situated at the margin of the image. Completeness, correctness and quality measures are computed for evaluation of the initial and the resulted updated maps. The computed measures verify the improvement of the updated map.

  7. Endoscopic fluorescence mapping of the left atrium: A novel experimental approach for high resolution endocardial mapping in the intact heart

    PubMed Central

    Kalifa, Jérôme; Klos, Matthew; Zlochiver, Sharon; Mironov, Sergey; Tanaka, Kazuhiko; Ulahannan, Netha; Yamazaki, Masatoshi; Jalife, José; Berenfeld, Omer

    2007-01-01

    Background Despite availability of several mapping technologies to investigate the electrophysiological mechanisms of atrial fibrillation (AF), an experimental tool enabling high resolution mapping of electrical impulse on the endocardial surface of the left atrium is still lacking. Objective To present a new optical mapping approach implementing a steerable cardio-endoscope in isolated hearts. Methods The system consists of a direct or side-view endoscope coupled to a 532 nm excitation Laser for illumination, and to a CCD camera for imaging of potentiometric dye fluorescence (DI-4-ANEPPS, 80×80 pixels, 200–800 frames/sec). The cardio-endoscope was aimed successively at diverse posterior left atrial (PLA) locations to obtain high resolution movies of electrical wave propagation, as well as detailed endocardial anatomical features, in the presence and the absence of atrial stretch. Results We present several examples of high resolution endoscopic PLA recordings of wave propagation patterns during both sinus rhythm and AF with signal-to-noise ratio similar to conventional optical mapping systems. We demonstrate the endoscope’s ability to visualize highly organized AF sources (rotors) at specific locations on the PLA and PLA-pulmonary vein junctions, and present video images of waves emanating from such sources as they propagate into pectinate muscles in the LA appendage. In particular, we demonstrate this approach to be ideally suited for studying the effects of atrial stretch on AF dynamics. Conclusions In isolated hearts, cardio-endoscopic optical mapping of electrical activity should enable comprehensive evaluation of atrial fibrillatory activity in the PLA, of the role of the local anatomy on AF dynamics and of the efficacy of pharmacological and ablative interventions. PMID:17599678

  8. Towards a minimally invasive sampling tool for high resolution tissue analytical mapping

    NASA Astrophysics Data System (ADS)

    Gottardi, R.

    2015-09-01

    Multiple spatial mapping techniques of biological tissues have been proposed over the years, but all present limitations either in terms of resolution, analytical capacity or invasiveness. Ren et al (2015 Nanotechnology 26 284001) propose in their most recent work the use of a picosecond infrared laser (PIRL) under conditions of ultrafast desorption by impulsive vibrational excitation (DIVE) to extract small amounts of cellular and molecular components, conserving their viability, structure and activity. The PIRL DIVE technique would then work as a nanobiopsy with minimal damage to the surrounding tissues, which could potentially be applied for high resolution local structural characterization of tissues in health and disease with the spatial limit determined by the laser focus.

  9. BrainMaps.org - Interactive High-Resolution Digital Brain Atlases and Virtual Microscopy.

    PubMed

    Mikula, Shawn; Stone, James M; Jones, Edward G

    2008-01-01

    BrainMaps.org is an interactive high-resolution digital brain atlas and virtual microscope that is based on over 20 million megapixels of scanned images of serial sections of both primate and non-primate brains and that is integrated with a high-speed database for querying and retrieving data about brain structure and function over the internet. Complete brain datasets for various species, including Homo sapiens, Macaca mulatta, Chlorocebus aethiops, Felis catus, Mus musculus, Rattus norvegicus, and Tyto alba, are accessible online. The methods and tools we describe are useful for both research and teaching, and can be replicated by labs seeking to increase accessibility and sharing of neuroanatomical data. These tools offer the possibility of visualizing and exploring completely digitized sections of brains at a sub-neuronal level, and can facilitate large-scale connectional tracing, histochemical and stereological analyses. PMID:19129928

  10. Exploiting crowdsourced observations: High-resolution mapping of real-time urban air quality throughout Europe

    NASA Astrophysics Data System (ADS)

    Schneider, Philipp; Castell, Nuria; Vallejo, Islen; van den Bossche, Joris; Lahoz, William; Bartonova, Alena

    2016-04-01

    With the technology of air quality sensors improving rapidly in recent years and with an increasing number of initiatives for collecting air quality information being established worldwide, there is a rapidly increasing amount of information on air quality. Such datasets can provide unprecedented spatial detail and thus exhibit a significant potential for allowing to create observation-based high-resolution maps of air quality in the urban environment. However, most datasets of observations made within a citizen science or crowdsourcing framework tend to have highly variable characteristics in terms of quantity, accuracy, measured parameters, and representativeness, and many more. It is therefore currently unknown how to best exploit this information for mapping purposes. In order to address this challenge we present a novel approach for combining crowdsourced observations of urban air quality with model information, allowing us to produce near-real-time, high-resolution maps of air quality in the urban environment. The approach is based on data fusion techniques, which allow for combining observations with model data in a mathematically objective way and therefore provide a means of adding value to both the observations and the model. The observations are improved by filling spatio-temporal gaps in the data and the model is improved by constraining it with observations. The model further provides detailed spatial patterns in areas where no observations are available. As such, data fusion of observations from high-density low-cost sensor networks together with air quality models can contribute to significantly improving urban-scale air quality mapping. The system has been implemented to run in an automated fashion in near real-time (once every hour) for several cities in Europe. Evaluation of the methodology is being carried out using the leave-one-out cross validation technique and simulated datasets. We present case studies demonstrating the methodology for

  11. High-resolution aeromagnetic mapping of volcanic terrain, Yellowstone National Park

    USGS Publications Warehouse

    Finn, C.A.; Morgan, L.A.

    2002-01-01

    High-resolution aeromagnetic data acquired over Yellowstone National Park (YNP) show contrasting patterns reflecting differences in rock composition, types and degree of alteration, and crustal structures that mirror the variable geology of the Yellowstone Plateau. The older, Eocene, Absaroka Volcanic Supergroup, a series of mostly altered, andesitic volcanic and volcaniclastic rocks partially exposed in mountains on the eastern margin of YNP, produces high-amplitude, positive magnetic anomalies, strongly contrasting with the less magnetic, younger, latest Cenozoic, Yellowstone Plateau Group, primarily a series of fresh and variably altered rhyolitic rocks covering most of YNP. The Yellowstone caldera is the centerpiece of the Yellowstone Plateau; part of its boundary can be identified on the aeromagnetic map as a series of discontinuous, negative magnetic anomalies that reflect faults or zones along which extensive hydrothermal alteration is localized. The large-volume rhyolitic ignimbrite deposits of the 0.63-Ma Lava Creek Tuff and the 2.1-Ma Huckleberry Ridge Tuff, which are prominent lithologies peripheral to the Yellowstone caldera, produce insignificant magnetic signatures. A zone of moderate amplitude positive anomalies coincides with the mapped extent of several post-caldera rhyolitic lavas. Linear magnetic anomalies reflect the rectilinear fault systems characteristic of resurgent domes in the center of the caldera. Peripheral to the caldera, the high-resolution aeromagnetic map clearly delineates flow unit boundaries of pre- and post-caldera basalt flows, which occur stratigraphically below the post-caldera rhyolitic lavas and are not exposed extensively at the surface. All of the hot spring and geyser basins, such as Norris, Upper and Lower Geyser Basins, West Thumb, and Gibbon, are associated with negative magnetic anomalies, reflecting hydrothermal alteration that has destroyed the magnetic susceptibility of minerals in the volcanic rocks. Within

  12. High-Resolution Thermal Inertia Mapping from the Mars Global Surveyor Thermal Emission Spectrometer

    USGS Publications Warehouse

    Mellon, M.T.; Jakosky, B.M.; Kieffer, H.H.; Christensen, P.R.

    2000-01-01

    High-resolution thermal inertia mapping results are presented, derived from Mars Global Surveyor (MGS) Thermal Emission Spectrometer (TES) observations of the surface temperature of Mars obtained during the early portion of the MGS mapping mission. Thermal inertia is the key property controlling the diurnal surface temperature variations, and is dependent on the physical character of the top few centimeters of the surface. It represents a complex combination of particle size, rock abundance, exposures of bedrock, and degree of induration. In this work we describe the derivation of thermal inertia from TES data, present global scale analysis, and place these results into context with earlier work. A global map of nighttime thermal-bolometer-based thermal inertia is presented at 14?? per pixel resolution, with approximately 63% coverage between 50??S and 70??N latitude. Global analysis shows a similar pattern of high and low thermal inertia as seen in previous Viking low-resolution mapping. Significantly more detail is present in the high-resolution TES thermal inertia. This detail represents horizontal small-scale variability in the nature of the surface. Correlation with albedo indicates the presence of a previously undiscovered surface unit of moderate-to-high thermal inertia and intermediate albedo. This new unit has a modal peak thermal inertia of 180-250 J m-2 K-1 s-12 and a narrow range of albedo near 0.24. The unit, covering a significant fraction of the surface, typically surrounds the low thermal inertia regions and may comprise a deposit of indurated fine material. Local 3-km-resolution maps are also presented as examples of eolian, fluvial, and volcanic geology. Some impact crater rims and intracrater dunes show higher thermal inertias than the surrounding terrain; thermal inertia of aeolian deposits such as intracrater dunes may be related to average particle size. Outflow channels and valleys consistently show higher thermal inertias than the

  13. High-resolution aeromagnetic mapping of volcanic terrain, Yellowstone National Park

    NASA Astrophysics Data System (ADS)

    Finn, Carol A.; Morgan, Lisa A.

    2002-06-01

    High-resolution aeromagnetic data acquired over Yellowstone National Park (YNP) show contrasting patterns reflecting differences in rock composition, types and degree of alteration, and crustal structures that mirror the variable geology of the Yellowstone Plateau. The older, Eocene, Absaroka Volcanic Supergroup, a series of mostly altered, andesitic volcanic and volcaniclastic rocks partially exposed in mountains on the eastern margin of YNP, produces high-amplitude, positive magnetic anomalies, strongly contrasting with the less magnetic, younger, latest Cenozoic, Yellowstone Plateau Group, primarily a series of fresh and variably altered rhyolitic rocks covering most of YNP. The Yellowstone caldera is the centerpiece of the Yellowstone Plateau; part of its boundary can be identified on the aeromagnetic map as a series of discontinuous, negative magnetic anomalies that reflect faults or zones along which extensive hydrothermal alteration is localized. The large-volume rhyolitic ignimbrite deposits of the 0.63-Ma Lava Creek Tuff and the 2.1-Ma Huckleberry Ridge Tuff, which are prominent lithologies peripheral to the Yellowstone caldera, produce insignificant magnetic signatures. A zone of moderate amplitude positive anomalies coincides with the mapped extent of several post-caldera rhyolitic lavas. Linear magnetic anomalies reflect the rectilinear fault systems characteristic of resurgent domes in the center of the caldera. Peripheral to the caldera, the high-resolution aeromagnetic map clearly delineates flow unit boundaries of pre- and post-caldera basalt flows, which occur stratigraphically below the post-caldera rhyolitic lavas and are not exposed extensively at the surface. All of the hot spring and geyser basins, such as Norris, Upper and Lower Geyser Basins, West Thumb, and Gibbon, are associated with negative magnetic anomalies, reflecting hydrothermal alteration that has destroyed the magnetic susceptibility of minerals in the volcanic rocks. Within

  14. Comparative Analysis of two Methods for High-Resolution Differential Conductance Measurement

    NASA Astrophysics Data System (ADS)

    Cusick, David; Naito, Michio; Ramos, Roberto

    We compare two methods of differential conductance measurement. The first is a traditional method in which current and voltage data is acquired via four-wire measurement, then averaged and differentiated numerically. The second method calculates dI / dV in real time by superimposing a small DC signal dI on the input step function, alternating between addition and subtraction of the signal with each step, then averaging the small signal voltage response over three steps to obtain dV . This requires two instruments: a DC current source and a high-resolution voltmeter. Keithley Instruments has commercially promoted the Keithley 622x current source and 2182A nanovoltmeter as means to achieve this measurement; we therefore refer to it as the Keithley method. We compare the two methods by performing high-resolution measurements of the energy gap of MgB2 thin film Josephson junctions. We show that the Keithley method has advantages of cleaner data, easier implementation, and overall faster data collection, but may lack the traditional method's high resolution. R.C.R. acknowledges support from National Science Foundation Grant # DMR-1555775.

  15. High-resolution Mapping of Linear Antibody Epitopes Using Ultrahigh-density Peptide Microarrays*

    PubMed Central

    Buus, Søren; Rockberg, Johan; Forsström, Björn; Nilsson, Peter; Uhlen, Mathias; Schafer-Nielsen, Claus

    2012-01-01

    Antibodies empower numerous important scientific, clinical, diagnostic, and industrial applications. Ideally, the epitope(s) targeted by an antibody should be identified and characterized, thereby establishing antibody reactivity, highlighting possible cross-reactivities, and perhaps even warning against unwanted (e.g. autoimmune) reactivities. Antibodies target proteins as either conformational or linear epitopes. The latter are typically probed with peptides, but the cost of peptide screening programs tends to prohibit comprehensive specificity analysis. To perform high-throughput, high-resolution mapping of linear antibody epitopes, we have used ultrahigh-density peptide microarrays generating several hundred thousand different peptides per array. Using exhaustive length and substitution analysis, we have successfully examined the specificity of a panel of polyclonal antibodies raised against linear epitopes of the human proteome and obtained very detailed descriptions of the involved specificities. The epitopes identified ranged from 4 to 12 amino acids in size. In general, the antibodies were of exquisite specificity, frequently disallowing even single conservative substitutions. In several cases, multiple distinct epitopes could be identified for the same target protein, suggesting an efficient approach to the generation of paired antibodies. Two alternative epitope mapping approaches identified similar, although not necessarily identical, epitopes. These results show that ultrahigh-density peptide microarrays can be used for linear epitope mapping. With an upper theoretical limit of 2,000,000 individual peptides per array, these peptide microarrays may even be used for a systematic validation of antibodies at the proteomic level. PMID:22984286

  16. Quantitative analysis of anthropogenic relief features: automated mapping of charcoal kiln sites from high-resolution ALS data

    NASA Astrophysics Data System (ADS)

    Schneider, Anna; Takla, Melanie; Nicolay, Alexander; Raab, Alexandra; Raab, Thomas

    2014-05-01

    High-resolution digital elevation data from airborne laser scanning (ALS) allow for identification and mapping of so far unknown small-scale relief features that are hidden by forest cover. Especially as a result of historic land use, small anthropogenic landforms can occur, e.g., remains of charcoal kilns on sites that were used for charcoal production or ridge and furrow systems in former farmland areas. Mapping such relief features and analyzing their spatial distribution patterns can help to understand past land-use systems and their effects on landscapes. To efficiently detect and quantify small-scale relief features from high-resolution DEMs for larger areas, (semi-) automated mapping routines are required. In order to describe the number and spatial distribution of historic charcoal kiln sites in the area around Cottbus, Germany, we developed a GIS-based routine for the detection and mapping of kiln remnants from ALS elevation models with a resolution of 1 or 2 meters. The method is based on a template matching algorithm, using a combination of morphometric parameters, and is implemented within ArcGIS. The mapping results could be validated against a comprehensive database of kiln sites and diameters recorded from archaeological excavations in the forefield of the opencast mine Jänschwalde and from manual digitization of kiln remnants from Shaded Relief maps for the Jänschwalder Heide and the Tauersche Forst, north of Cottbus. A considerably high number of charcoal kiln sites could be detected in ALS data, and the diameters of the identified charcoal kilns are remarkable large in the area. For the Jänschwalder Heide, more than 5000 kiln sites in an area of 32 km2 were detected by manual digitization, with 1355 kiln sites that are wider than 12 m. These relatively large kiln sites could be mapped with detection rates that are close to those of manual digitization using the automated mapping routine. Detection quality was improved by the combination of

  17. Calculating High Resolution CWSI Maps for Entire Growing Season of a Cultivated Barley Field with UAV-Collected Surface Temperatures.

    NASA Astrophysics Data System (ADS)

    Hoffmann, H.; Jensen, R.; Nieto Solana, H.; Friborg, T.; Thomsen, A.

    2015-12-01

    With agriculture as the largest consumer of freshwater and an overall increasing pressure on water resources, developing more efficient irrigation systems is important. Combining the crop water stress index (CWSI) with unmanned aerial vehicles (UAVs) enables detection of which specific areas within a cultivated field that requires irrigation to ensure healthy growing plants. In this study remotely sensed, high resolution surface temperatures are collected with a thermal camera onboard an UAV. Temperatures are used to calculate spatially distributed, high resolution CWSI maps over a barley field during growing seasons 2014 and 2015. In early stages of the barley growing season, surface temperatures are an ensemble of both soil and canopy temperatures. Canopy temperatures are extracted using leaf area index and the two source energy balance modelling scheme. This approach enables CWSI calculations for homogeneous and evenly distributed crops (such as barley) during early as well as late stages of a growing season. CWSI maps are calculated using both an empirical and an analytical approach and are compared and validated against modelled canopy conductance and transpiration rates.

  18. High-resolution geologic mapping of the inner continental shelf: Boston Harbor and approaches, Massachusetts

    USGS Publications Warehouse

    Ackerman, Seth D.; Butman, Bradford; Barnhardt, Walter A.; Danforth, William W.; Crocker, James M.

    2006-01-01

    This report presents the surficial geologic framework data and information for the sea floor of Boston Harbor and Approaches, Massachusetts (fig. 1.1). This mapping was conducted as part of a cooperative program between the U.S. Geological Survey (USGS), the Massachusetts Office of Coastal Zone Management (CZM), and the National Oceanic and Atmospheric Administration (NOAA). The primary objective of this project was to provide sea floor geologic information and maps of Boston Harbor to aid resource management, scientific research, industry and the public. A secondary objective was to test the feasibility of using NOAA hydrographic survey data, normally collected to update navigation charts, to create maps of the sea floor suitable for geologic and habitat interpretations. Defining sea-floor geology is the first steps toward managing ocean resources and assessing environmental changes due to natural or human activity. The geophysical data for these maps were collected as part of hydrographic surveys carried out by NOAA in 2000 and 2001 (fig. 1.2). Bottom photographs, video, and samples of the sediments were collected in September 2004 to help in the interpretation of the geophysical data. Included in this report are high-resolution maps of the sea floor, at a scale of 1:25,000; the data used to create these maps in Geographic Information Systems (GIS) format; a GIS project; and a gallery of photographs of the sea floor. Companion maps of sea floor to the north Boston Harbor and Approaches are presented by Barnhardt and others (2006) and to the east by Butman and others (2003a,b,c). See Butman and others (2004) for a map of Massachusetts Bay at a scale of 1:125,000. The sections of this report are listed in the navigation bar along the left-hand margin of this page. Section 1 (this section) introduces the report. Section 2 presents the large-format map sheets. Section 3 describes data collection, processing, and analysis. Section 4 summarizes the geologic history of

  19. MinMap: An imaging spectrometer for high resolution compositional mapping of the Moon

    NASA Technical Reports Server (NTRS)

    Pieters, C. M.; Head, James W.; Mccord, T. B.

    1993-01-01

    MinMap has been selected by the Lunar Scout program to characterize and map the mineral composition of the Moon. The instrument will be built as a collaborative effort between Brown University, SETS Technology Inc., and Ball Aerospace Corp. MinMap is a visible to near-infrared imaging spectrometer that contains 192 spectral channels from 0.35-2.4 microns with signal to noise greater than 200 and 256 cross-track spatial elements. The spectrometer design has a 6 deg field of view (FOV) and utilizes grating dispersive elements and two dimensional detectors (no moving parts). An 'image cube' of data is produced that contains two dimensions of spatial information and one dimension of spectral information. All spectral channels and cross-track spatial elements are recorded simultaneously with spacecraft motion scanning the second spatial dimension. The high spectral resolution and continuous spectral range of MinMap are designed to measure the diagnostic absorption features of principal lunar minerals and their lithologic mixtures. Since the optical properties of lunar materials change in a regular manner upon exposure to the space environment, this spectral range is also quite sensitive to variations in exposure history (soil maturity). Nominal measurement stragegy is to obtain full global data of the Moon at 180 m/pixel from a 450 km polar orbit during the first month or two of operation. A 100 km orbit is anticipated for the remaining part of a 1 year mission allowing higher resolution data (approx. 80 m/pixel) to be obtained for targeted regions. MinMap exceeds LE x SWG's measurement recommendations and will provide the highest spatial resolution compositional map of lunar rocks and soils currently planned for orbital missions. Since all spectral channels are co-registered and obtained simultaneously, 'image cube' data swaths will be available for analysis almost immediately.

  20. Estimation of Stand Height and Forest Volume Using High Resolution Stereo Photography and Forest Type Map

    NASA Astrophysics Data System (ADS)

    Kim, K. M.

    2016-06-01

    Traditional field methods for measuring tree heights are often too costly and time consuming. An alternative remote sensing approach is to measure tree heights from digital stereo photographs which is more practical for forest managers and less expensive than LiDAR or synthetic aperture radar. This work proposes an estimation of stand height and forest volume(m3/ha) using normalized digital surface model (nDSM) from high resolution stereo photography (25cm resolution) and forest type map. The study area was located in Mt. Maehwa model forest in Hong Chun-Gun, South Korea. The forest type map has four attributes such as major species, age class, DBH class and crown density class by stand. Overlapping aerial photos were taken in September 2013 and digital surface model (DSM) was created by photogrammetric methods(aerial triangulation, digital image matching). Then, digital terrain model (DTM) was created by filtering DSM and subtracted DTM from DSM pixel by pixel, resulting in nDSM which represents object heights (buildings, trees, etc.). Two independent variables from nDSM were used to estimate forest stand volume: crown density (%) and stand height (m). First, crown density was calculated using canopy segmentation method considering live crown ratio. Next, stand height was produced by averaging individual tree heights in a stand using Esri's ArcGIS and the USDA Forest Service's FUSION software. Finally, stand volume was estimated and mapped using aerial photo stand volume equations by species which have two independent variables, crown density and stand height. South Korea has a historical imagery archive which can show forest change in 40 years of successful forest rehabilitation. For a future study, forest volume change map (1970s-present) will be produced using this stand volume estimation method and a historical imagery archive.

  1. High-resolution linkage map in the vicinity of the Lp locus

    SciTech Connect

    Mullick, A.; Gros, P.; Trasler, D.

    1995-04-10

    Looptail (Lp) is a mutation that profoundly affects neurulation in mouse and is characterized by craniorachischisis, an open neural tube extending from the midbrain to the tail in embryos homozygous for the mutation. Lp maps to the distal portion of mouse chromosome 1, and as part of a positional cloning approach, we have generated a high-resolution linkage map of the Lp chromosomal region. For this, we have carried out extensive segregation analysis in a total of 706 backcross mice informative for Lp and derived from two crosses, (Lp/ + X SJL/J)F1 X SJL/J and (Lp/ + X SWR/J)F1 X SWR/J. In addition, 269 mice from a (Mus spretus X C57BL/6J)F1 X C57BL/6J interspecific backcross were also used to order marker loci and calculate intergene distances for this region. With these mice, a total of 28 DNA markers corresponding to either cloned genes or anonymous markers of the SSLP or SSCP-types were mapped within a 5-cM interval overlapping the Lp region, with the following locus order and interlocus distances (in cM): centromere-D1Mit110 / Atp1{beta}1 / Cd3{zeta} /Cd3{eta} / D1Mit145 - D1Hun14 /D1Mit15 - D1Mit111 / D1Mit112 - D1Mit114 - D1Mit148 / D1Mit205/ D1Mit36 / D1Mit146 / D1Mit147 / D1Mit149 / Spnal1/Fcer1{alpha}-Eph1-Hlx1/D1Mit62. These studies have allowed the delineation of a maximum genetic interval for Lp of 0.5 cM, a size amenable to physical mapping techniques. 58 refs., 4 figs., 2 tabs.

  2. High-resolution entrainment mapping of gastric pacing: a new analytical tool.

    PubMed

    O'Grady, Gregory; Du, Peng; Lammers, Wim J E P; Egbuji, John U; Mithraratne, Pulasthi; Chen, Jiande D Z; Cheng, Leo K; Windsor, John A; Pullan, Andrew J

    2010-02-01

    Gastric pacing has been investigated as a potential treatment for gastroparesis. New pacing protocols are required to improve symptom and motility outcomes; however, research progress has been constrained by a limited understanding of the effects of electrical stimulation on slow-wave activity. This study introduces high-resolution (HR) "entrainment mapping" for the analysis of gastric pacing and presents four demonstrations. Gastric pacing was initiated in a porcine model (typical amplitude 4 mA, pulse width 400 ms, period 17 s). Entrainment mapping was performed using flexible multielectrode arrays (mapped in HR, revealing an ectopic slow-wave focus and uncoupled propagations. In the fourth demonstration, differences were observed between paced and native slow-wave amplitudes (0.24 +/- 0.08 vs. 0.38 +/- 0.14 mV; P < 0.001), velocities (6.2 +/- 2.8 vs. 11.5 +/- 4.7 mm/s; P < 0.001), and activated areas (20.6 +/- 1.9 vs. 32.8 +/- 2.6 cm(2); P < 0.001). Entrainment mapping enables an accurate quantification of the effects of gastric pacing on slow-wave activity, offering an improved method to assess whether pacing protocols are likely to achieve physiologically and clinically useful outcomes. PMID:19926815

  3. Applying modified high resolution airborne LiDAR DTM for floodplain mapping

    NASA Astrophysics Data System (ADS)

    Vetter, M.; Jochem, A.; Franke, M.; Schöberl, F.; Stötter, J.; Werthmann, M.

    2009-04-01

    Today, airborne LiDAR derived digital terrain models (DTM) are used in the research context and various scientific disciplines. In hydrology such high resolution DTMs are used for computing flood simulations, calculating roughness maps, floodplain mapping, etc. The presented approach outlines the strength of a LiDAR derived DTM (1m) in comparison to a photogrammetric derived DTM (10m). By implementing an interpolated river bed model, which is derived by using terrestrial measured river cross sections and hence modifying the high resolution DTM for hydraulic task floodplain mapping and modeling routines, could be improved. The river bed interpolation routine includes an automatic bridge detection algorithm to delete bridge pillars in the relevant river cross sections. Furthermore, the position of riverbanks, which are a contributing factor in the field of hydraulic modeling and influence the results of the hydraulic simulations, can be detected. Once the DTM is modified, river cross profiles can be extracted directly on each position along the river axis and can be used as input for hydraulic models. In this study the software HEC-RAS is used to calculate different floodplain areas on the basis of the HQ30, HQ100 and HQ200 flood scenarios, which are calibrated on key data of the flood in August 2005. The comparison of the floodplain area in the city of Innsbruck (Tyrol, Austria), modeled on the basis of a modified LiDAR derived DTM, with those from the HORA study (Hochwasserrisikozonierung Austria), shows remarkable differences. These differences result from (i) the different hydraulic modeling methods and (ii) the used DTMs, which HORA does not consider flood protection measures. The results show that the resolution of the used DTM is the determining factor for modeling adequate floodplain areas whereas the applied hydraulic model has secondary effects. The grade of accuracy attained by this approach is reflected by the numbers ,of flooding affected buildings (e

  4. Mapping evapotranspiration with high resolution aircraft imagery over vineyards using one and two source modeling schemes

    NASA Astrophysics Data System (ADS)

    Xia, T.; Kustas, W. P.; Anderson, M. C.; Alfieri, J. G.; Gao, F.; McKee, L.; Prueger, J. H.; Geli, H. M. E.; Neale, C. M. U.; Sanchez, L.; Mar Alsina, M.; Wang, Z.

    2015-11-01

    Thermal and multispectral remote sensing data from low-altitude aircraft can provide high spatial resolution necessary for sub-field (≤ 10 m) and plant canopy (≤ 1m) scale evapotranspiration (ET) monitoring. In this study, high resolution aircraft sub-meter scale thermal infrared and multispectral shortwave data are used to map ET over vineyards in central California with the Two Source Energy Balance (TSEB) model and with a simple model called DATTUTDUT (Deriving Atmosphere Turbulent Transport Useful To Dummies Using Temperature) which uses contextual information within the image to scale between radiometric land surface temperature (TR) values representing hydrologic limits of potential ET and a non-evaporative surface. Imagery from five days throughout the growing season is used for mapping ET at the sub-field scale. The performance of the two models is evaluated using tower-based energy flux measurements of sensible (H) and latent heat (LE) or ET. The comparison indicates that TSEB was able to derive reasonable ET estimates under varying conditions, likely due to the physically based treatment of the energy and the surface temperature partitioning between the soil/cover crop inter-row and vine canopy elements. On the other hand, DATTUTDUT performance was somewhat degraded presumably because the simple scaling scheme does not consider differences in the two sources (vine and inter-row) of heat and temperature contributions or the effect of surface roughness on the efficiency of heat exchange. Maps of the evaporative fraction (EF = LE/(H + LE)) from the two models had similar spatial patterns but different magnitudes in some areas within the fields on certain days. Large EF discrepancies between the models were found on two of the five days (DOY 162 and 219) when there were significant differences with the tower-based ET measurements, particularly using the DATTUTDUT model. These differences in EF between the models translate to significant variations in

  5. High resolution mapping of dust sources in Central Asia using MODIS imagery

    NASA Astrophysics Data System (ADS)

    Nobakht, Mohamad; Shahgedanova, Maria; White, Kevin

    2015-04-01

    Dust impacts the energy balance of the Earth via absorption and scattering of radiation in the atmosphere and through the mechanism by which aerosols modify the optical properties of clouds and land surfaces. It is now established that the deposition of mineral dust significantly affects high-altitude environments, including both snow pack and glacier ice. Central Asia is a region where large deserts are located in close proximity to the mountains whose extensive glaciers and snow pack provide runoff supporting agriculture in the densely populated foothills. More than 75% of the territory in Central Asia is desert lowland varying from sandy to stony, salt, and clay deserts. Significant amounts of wind-blown desert dust, originating from these deserts, are deposited on glaciers of Tian Shan Mountains in Central Asia. Satellite remote sensing using optical imagery has provided us with a powerful tool for identification and characterization of dust emission sources. In this study we investigated the spatial distribution and seasonal pattern of dust emissions in surrounding lowlands of the Tian Shan Mountains using Moderate Resolution Imaging Spectroradiometer (MODIS) imagery. Seasonality of dust emission is studied by analyzing MODIS Deep Blue aerosol optical depth, acquired over a period of 12 years from January 2003 to December 2014. We analyzed the spatial distribution and frequency of occurrence of dust optical depth to identify the main dust sources in this region. In order to produce a detailed map of dust emission sources, we also employed a dust enhancement algorithm to obtain high resolution (1km) dust enhancement products from MODIS imageries. The high resolution of MODIS dust enhancement products enabled us to identify several small, eroding point sources within the dust source areas. Different seasonal patterns of dust emissions were observed in northern, western and southern deserts around the Tian Shan Mountains and their relation to climatological

  6. Mapping of Geographically Isolated Wetlands of Western Siberia Using High Resolution Space Images

    NASA Astrophysics Data System (ADS)

    Dyukarev, E.; Pologova, N.; Dyukarev, A.; Lane, C.; Autrey, B. C.

    2014-12-01

    Using the remote sensing data for integrated study of natural objects is actual for investigation of difficult to access areas of West Siberia. The research of this study focuses on determining the extent and spectral signatures of isolated wetlands within Ob-Tom Interfluve area using Landsat and Quickbird space images. High-resolution space images were carefully examined and wetlands were manually delineated. Wetlands have clear visible signs at the high resolution space images. 567 wetlands were recognized as isolated wetlands with the area about 10 000 ha (of 2.5% of the study area). Isolated wetlands with area less 2 ha are the most frequent. Half of the total amount of wetlands has area less than 6.4 ha. The largest isolated wetland occupies 797 ha, and only 5% have area more than 50 ha. The Landsat 7 ETM+ data were used for analysis of vegetation structure and spectral characteristics of wetlands. The masked isolated wetlands image was classified into 12 land cover classes using ISODATA unsupervised classification. The attribution of unsupervised classification results allowed us to clearly recognize 7 types of wetlands: tall, low and sparse ryams (Pine-Shrub-Sphagnum community), open wetlands with shrub, moss or sedge cover, and open water objects. Analysis of spectral profiles for all classes has shown that Landsat spectral bands 4 and 5 have higher variability. These bands allow to separate wetland classed definitely. Accuracy assessment of isolated wetland map shows a good agreement with expert field data. The work was supported by grants ISTC № 4079.

  7. Acoustic force mapping in a hybrid acoustic-optical micromanipulation device supporting high resolution optical imaging.

    PubMed

    Thalhammer, Gregor; McDougall, Craig; MacDonald, Michael Peter; Ritsch-Marte, Monika

    2016-04-21

    Many applications in the life-sciences demand non-contact manipulation tools for forceful but nevertheless delicate handling of various types of sample. Moreover, the system should support high-resolution optical imaging. Here we present a hybrid acoustic/optical manipulation system which utilizes a transparent transducer, making it compatible with high-NA imaging in a microfluidic environment. The powerful acoustic trapping within a layered resonator, which is suitable for highly parallel particle handling, is complemented by the flexibility and selectivity of holographic optical tweezers, with the specimens being under high quality optical monitoring at all times. The dual acoustic/optical nature of the system lends itself to optically measure the exact acoustic force map, by means of direct force measurements on an optically trapped particle. For applications with (ultra-)high demand on the precision of the force measurements, the position of the objective used for the high-NA imaging may have significant influence on the acoustic force map in the probe chamber. We have characterized this influence experimentally and the findings were confirmed by model simulations. We show that it is possible to design the chamber and to choose the operating point in such a way as to avoid perturbations due to the objective lens. Moreover, we found that measuring the electrical impedance of the transducer provides an easy indicator for the acoustic resonances. PMID:27025398

  8. High-resolution mapping of glacial landforms in the North Alpine Foreland, Austria

    NASA Astrophysics Data System (ADS)

    Salcher, Bernhard C.; Hinsch, Ralph; Wagreich, Michael

    2010-10-01

    In this study results from traditional field mapping were merged with precise elevation information from airborne LiDAR (Light detection and ranging) surveys. Morphological and sedimentological data provide new results from the Austrian (eastern) part of the Salzach piedmont glacier during times of and shortly after the Last Glacial Maximum (LGM). The variations in meltwater discharge had a major impact on the development of glacial landforms. In areas with high meltwater supply erosional or debris reworking processes play a major role, represented by drainage channels, drumlins and kettled, low relief hummocky moraine with low slope angles. Low discharge areas are associated with distinct depositional forms such as high relief end moraines (up to 30 m) and hummocky moraine (averaging 20 m) with high slope angles. Isolated conical kames may reach heights up to 45 m. Fluvial activity is supposed to rise towards the end of the glacial cycle causing high melting rates and comprehensive debris reworking. The formation of terminal lakes and associated widespread, inorganic lake clays are the last deposits within the study area before the Salzach Glacier completely receded to its main valley. The survey of glacial landforms through the combination of field mapping and high-resolution DEM derived from airborne LiDAR missions gives precise information on transport and deposition during the last glacial cycle of the eastern Salzach Glacier piedmont lobe.

  9. Combination of AUV high resolution mapping and submersible visual observations on the Guaymas Hydrothermal Fields (Southern Trough Ridge)

    NASA Astrophysics Data System (ADS)

    Ondreas, H.; Fouquet, Y.; Normand, A.; Rouxel, O.; Godfroy, A.

    2011-12-01

    The BIG cruise -leg I- was carried out on the Guaymas basin in June 2010 on board the French research vessel L'Atalante. An AUV high-resolution survey was made on the southern trough ridge to gather fine-scale bathymetry and acoustic imagery data. The results of the high resolution survey were used, the next days, to explore the vent's area during several Nautile dives. The southern trough hydrothermal fields of the Guaymas basin have often been studied. However, the local geological context was not really well-defined. During the AUV surveys, maps at 70 m above the seafloor were done over the hydrothermal area. The data were gridded at 2 m spacing. During the same cruise, Nautile dives help us to compare the field observations and the geological features revealed by the high resolution mapping and to investigate the fine-scale relationships between the vents and their geological environment. Integration of these data is made easier by the use of the GIS software technology. It helps us perpetuate data, undertake comparisons, combine different types of data, realize fine-scale geological mapping. Even if some problems are recurrent (precision of positioning, integration of old data...), such combinations of high resolution mapping and visual observations and sampling have changed our vision of hydrothermal geological context. In the Guaymas sedimented spreading axis, our new data show that major hydrothermal sites, in the south part of the southern trough only, are located inside or at the border of 100 to 250 m long, 60 to 150 m wide, 6 to 12 m deep small collapsed sub-circular depressions. The direction of the collapse is variable. Curved faults at the outer border of these depressions control the largest and mature edifices. Smaller, possibly younger, immature chimneys are located at the centre of some depressions. The mature hydrothermal structures appear as mounds up to 80 m in diameter, 20 m in high, each hydrothermal edifice being very-well identified on the

  10. Comparison of Methods to Map and Measure River Terraces using High-Resolution Airborne LiDAR Data

    NASA Astrophysics Data System (ADS)

    Hopkins, A. J.; Snyder, N. P.

    2013-12-01

    Fluvial terraces are important recorders of land-use, climate, and tectonic history that form in both erosional and depositional landscapes and consist of a flat surface bounded by valley walls and a steep-sloping scarp adjacent to the river channel. Combining these defining characteristics with high-resolution digital elevation models (DEMs) derived from airborne light detection and ranging (lidar) surveys, several methods have been developed to identify and map terraces. The goals of this research are to compare some of these existing techniques and develop an objective approach to map terraces over entire watersheds using lidar DEMs. Additionally, we aim to quantify the thickness and volume of fill terrace deposits. Our preliminary application is to the Sheepscot River watershed, Maine, where strath and fill terraces are present and record Pleistocene deglaciation, Holocene eustatic forcing, and Anthropocene land-use change. We identify terraces along the longitudinal profile using an algorithm developed by Finnegan and Balco (2013), that computes the elevation frequency distribution at regularly spaced cross-sections normal to the channel. Next, we delineate terrace spatial extent using three separate methodologies: (1) image processing using Matlab, (2) feature classification algorithms developed by Wood (1996), and (3) image interpretation using manually placed points on known terraces to construct interpolated surfaces (Walter and Merritts, 2008). Lastly, we determine the thickness and volume of fill terrace sediments by subtracting an interpolated, adjacent water surface elevation from the defined terrace points. We compare our LiDAR-based results with field mapping, stratigraphic columns of terrace landforms, and ground penetrating radar over terrace surfaces. These findings suggest powerful new ways to rapidly analyze landscape history over large regions using high-resolution lidar DEMs, with less reliance on detailed and costly field data collection.

  11. Machine Learning Approaches for High-resolution Urban Land Cover Classification: A Comparative Study

    SciTech Connect

    Vatsavai, Raju; Chandola, Varun; Cheriyadat, Anil M; Bright, Eddie A; Bhaduri, Budhendra L; Graesser, Jordan B

    2011-01-01

    The proliferation of several machine learning approaches makes it difficult to identify a suitable classification technique for analyzing high-resolution remote sensing images. In this study, ten classification techniques were compared from five broad machine learning categories. Surprisingly, the performance of simple statistical classification schemes like maximum likelihood and Logistic regression over complex and recent techniques is very close. Given that these two classifiers require little input from the user, they should still be considered for most classification tasks. Multiple classifier systems is a good choice if the resources permit.

  12. High-resolution Pleiades DEMs and improved mapping methods for the E-Corinth marine terraces

    NASA Astrophysics Data System (ADS)

    de Gelder, Giovanni; Fernández-Blanco, David; Delorme, Arthur; Jara-Muñoz, Julius; Melnick, Daniel; Lacassin, Robin; Armijo, Rolando

    2016-04-01

    The newest generation of satellite imagery provides exciting new possibilities for highly detailed mapping, with ground resolution of sub-metric pixels and absolute accuracy within a few meters. This opens new venues for the analysis of geologic and geomorphic landscape features, especially since photogrammetric methods allow the extraction of detailed topographic information from these satellite images. We used tri-stereo imagery from the Pleiades platform of the CNES in combination with Euclidium software for image orientation, and Micmac software for dense matching, to develop state-of-the-art, 2m-resolution digital elevation models (DEMs) for eight areas in Greece. Here, we present our mapping results for an area in the eastern Gulf of Corinth, which contains one of the most extensive and well-preserved flights of marine terraces world-wide. The spatial extent of the terraces has been determined by an iterative combination of an automated surface classification model for terrain slope and roughness, and qualitative assessment of satellite imagery, DEM hillshade maps, slope maps, as well as detailed topographic analyses of profiles and contours. We determined marine terrace shoreline angles by means of swath profiles that run perpendicularly to the paleo-seacliffs, using the graphical interface TerraceM. Our analysis provided us with a minimum and maximum estimate of the paleoshoreline location on ~750 swath profiles, by using the present-day cliff slope as an approximation for its paleo-cliff counterpart. After correlating the marine terraces laterally we obtained 16 different terrace-levels, recording Quaternary sea-level highstands of both major interglacial and several interstadial periods. Our high-resolution Pleiades-DEMs and improved method for paleoshoreline determination allowed us to produce a marine terrace map of unprecedented detail, containing more terrace sub-levels than hitherto. Our mapping demonstrates that we are no longer limited by the

  13. The interaction of high-resolution electrophoresis and computational analysis in genome mapping

    SciTech Connect

    Carrano, A.V.; Branscomb, E.W.; de Jong, P.J.; Mohrenweiser, H.; Olsen, A.; Slezak, T.

    1990-07-26

    The construction of physical maps and the determination of the DNA sequence of chromosome-size segments of the human genome is a complex, multidisciplinary undertaking. The approach we have taken to construct a physical map and sequence of human chromosome 19 typifies these interactions. We exploit the power of both acrylamide and agarose gel electrophoresis to provide a simple and versatile method for DNA fingerprinting and the creation of contigs or sets of overlapping genomic clones. Cosmid libraries are constructed from Yeast Artificial Chromosomes (YAC) clones or from flow-sorted chromosomes. Cosmid DNA isolated from the screened library array is cut with a combination of five restriction enzymes and the fragment ends labeled with one of four different fluorochromes. Our approach to contig construction uses a robotic system to label restriction fragments from cosmids with fluorochromes, use of an automated DNA sequencer to capture fragment mobility data in a high resolution multiplex mode processes the mobility data to determine fragment length and provide a statistical measure of overlap among cosmids; and display the contigs and underlying cosmids for operator interaction and access to a database. Data analyses and interactions are conducted over a network of SUN workstations using a set of software tools that we developed and coupled to a commercially available database. Applying these methods, we have analyzed 5154 cosmid clones and assembled 515 contigs for chromosome 19. Some of these contigs have been identified with known genes and many have been mapped to the chromosome by fluorescence in situ hybridization. Existing contigs are being extended by a combination of walking and fingerprinting. 21 refs., 2 figs.

  14. High resolution wetland mapping in West Siberian taiga zone for methane emission inventory

    NASA Astrophysics Data System (ADS)

    Terentieva, I. E.; Glagolev, M. V.; Lapshina, E. D.; Sabrekov, A. F.; Maksyutov, S. S.

    2015-12-01

    High latitude wetlands are important for understanding climate change risks because these environments sink carbon and emit methane. Fine scale heterogeneity of wetland landscapes pose challenges for producing the greenhouse gas flux inventories based on point observations. To reduce uncertainties at the regional scale, we mapped wetlands and water bodies in the taiga zone of West Siberia on a scene-by-scene basis using a supervised classification of Landsat imagery. The training dataset was based on high-resolution images and field data that were collected at 28 test areas. Classification scheme was aimed at methane inventory applications and included 7 wetland ecosystem types composing 9 wetland complexes in different proportions. Accuracy assessment based on 1082 validation polygons of 10 × 10 pixels indicated an overall map accuracy of 79 %. The total area of the wetlands and water bodies was estimated to be 52.4 Mha or 4-12 % of the global wetland area. Ridge-hollow complexes prevail in WS's taiga, occupying 33 % of the domain, followed by forested bogs or "ryams" (23 %), ridge-hollow-lake complexes (16 %), open fens (8 %), palsa complexes (7 %), open bogs (5 %), patterned fens (4 %), and swamps (4 %). Various oligotrophic environments are dominant among the wetland ecosystems, while fens cover only 14 % of the area. Because of the significant update in the wetland ecosystem coverage, a considerable revaluation of the total CH4 emissions from the entire region is expected. A new Landsat-based map of WS's taiga wetlands provides a benchmark for validation of coarse-resolution global land cover products and wetland datasets in high latitudes.

  15. A hybrid CPU-GPU accelerated framework for fast mapping of high-resolution human brain connectome.

    PubMed

    Wang, Yu; Du, Haixiao; Xia, Mingrui; Ren, Ling; Xu, Mo; Xie, Teng; Gong, Gaolang; Xu, Ningyi; Yang, Huazhong; He, Yong

    2013-01-01

    Recently, a combination of non-invasive neuroimaging techniques and graph theoretical approaches has provided a unique opportunity for understanding the patterns of the structural and functional connectivity of the human brain (referred to as the human brain connectome). Currently, there is a very large amount of brain imaging data that have been collected, and there are very high requirements for the computational capabilities that are used in high-resolution connectome research. In this paper, we propose a hybrid CPU-GPU framework to accelerate the computation of the human brain connectome. We applied this framework to a publicly available resting-state functional MRI dataset from 197 participants. For each subject, we first computed Pearson's Correlation coefficient between any pairs of the time series of gray-matter voxels, and then we constructed unweighted undirected brain networks with 58 k nodes and a sparsity range from 0.02% to 0.17%. Next, graphic properties of the functional brain networks were quantified, analyzed and compared with those of 15 corresponding random networks. With our proposed accelerating framework, the above process for each network cost 80∼150 minutes, depending on the network sparsity. Further analyses revealed that high-resolution functional brain networks have efficient small-world properties, significant modular structure, a power law degree distribution and highly connected nodes in the medial frontal and parietal cortical regions. These results are largely compatible with previous human brain network studies. Taken together, our proposed framework can substantially enhance the applicability and efficacy of high-resolution (voxel-based) brain network analysis, and have the potential to accelerate the mapping of the human brain connectome in normal and disease states.

  16. A Hybrid CPU-GPU Accelerated Framework for Fast Mapping of High-Resolution Human Brain Connectome

    PubMed Central

    Ren, Ling; Xu, Mo; Xie, Teng; Gong, Gaolang; Xu, Ningyi; Yang, Huazhong; He, Yong

    2013-01-01

    Recently, a combination of non-invasive neuroimaging techniques and graph theoretical approaches has provided a unique opportunity for understanding the patterns of the structural and functional connectivity of the human brain (referred to as the human brain connectome). Currently, there is a very large amount of brain imaging data that have been collected, and there are very high requirements for the computational capabilities that are used in high-resolution connectome research. In this paper, we propose a hybrid CPU-GPU framework to accelerate the computation of the human brain connectome. We applied this framework to a publicly available resting-state functional MRI dataset from 197 participants. For each subject, we first computed Pearson’s Correlation coefficient between any pairs of the time series of gray-matter voxels, and then we constructed unweighted undirected brain networks with 58 k nodes and a sparsity range from 0.02% to 0.17%. Next, graphic properties of the functional brain networks were quantified, analyzed and compared with those of 15 corresponding random networks. With our proposed accelerating framework, the above process for each network cost 80∼150 minutes, depending on the network sparsity. Further analyses revealed that high-resolution functional brain networks have efficient small-world properties, significant modular structure, a power law degree distribution and highly connected nodes in the medial frontal and parietal cortical regions. These results are largely compatible with previous human brain network studies. Taken together, our proposed framework can substantially enhance the applicability and efficacy of high-resolution (voxel-based) brain network analysis, and have the potential to accelerate the mapping of the human brain connectome in normal and disease states. PMID:23675425

  17. High-Resolution Regional Biomass Map of Siberia from Glas, Palsar L-Band Radar and Landsat Vcf Data

    NASA Astrophysics Data System (ADS)

    Sun, G.; Ranson, K.; Montesano, P.; Zhang, Z.; Kharuk, V.

    2015-12-01

    N to 75oN, and 80oE to 145oE. The spatial patterns of the new biomass map is much better than the previous maps due to spatially specific mapping in high resolution. The uncertainties of field/GLAS and GLAS/imagery models were investigated using bootstrap procedure, and the final biomass map was compared with previous maps.

  18. Vegetation mapping from high-resolution satellite images in the heterogeneous arid environments of Socotra Island (Yemen)

    NASA Astrophysics Data System (ADS)

    Malatesta, Luca; Attorre, Fabio; Altobelli, Alfredo; Adeeb, Ahmed; De Sanctis, Michele; Taleb, Nadim M.; Scholte, Paul T.; Vitale, Marcello

    2013-01-01

    Socotra Island (Yemen), a global biodiversity hotspot, is characterized by high geomorphological and biological diversity. In this study, we present a high-resolution vegetation map of the island based on combining vegetation analysis and classification with remote sensing. Two different image classification approaches were tested to assess the most accurate one in mapping the vegetation mosaic of Socotra. Spectral signatures of the vegetation classes were obtained through a Gaussian mixture distribution model, and a sequential maximum a posteriori (SMAP) classification was applied to account for the heterogeneity and the complex spatial pattern of the arid vegetation. This approach was compared to the traditional maximum likelihood (ML) classification. Satellite data were represented by a RapidEye image with 5 m pixel resolution and five spectral bands. Classified vegetation relevés were used to obtain the training and evaluation sets for the main plant communities. Postclassification sorting was performed to adjust the classification through various rule-based operations. Twenty-eight classes were mapped, and SMAP, with an accuracy of 87%, proved to be more effective than ML (accuracy: 66%). The resulting map will represent an important instrument for the elaboration of conservation strategies and the sustainable use of natural resources in the island.

  19. Predictive mapping of soil properties at high resolution by component wise gradient boosting

    NASA Astrophysics Data System (ADS)

    Nussbaum, Madlene; Papritz, Andreas; Fraefel, Marielle; Baltensweiler, Andri; Keller, Armin

    2015-04-01

    Accurate spatial information on soils is crucial for sustainable usage of the resource soil. Spatial planning, agriculture, forestry or natural hazards management need high resolution maps of potentials of soils for particular functions (e. g. water storage, nutrient supply). Soil functions are derived from basic soil properties like soil organic carbon or soil texture. For many regions precise maps of basic soil properties are missing. Hence, as a prerequisite for digital soil function mapping, maps of soil properties must be created with the desired resolution. A wide range of statistical approaches (linear and additive models, external drift kriging, Random Forest) were used for this in the past. When numerous environmental covariates (e. g. hyper-spectral remote sensing data) are available the selection of the model with best predictive power is challenging. Besides the issue of covariate selection, one should allow for non-linear effects of covariates on soil properties. To handle these difficulties we used a gradient boosting approach that included besides categorical covariates linear and smooth non-linear terms of continuous covariates as base learners. Residual auto-correlation and non-stationary relationships were modeled by smooth spatial surfaces. Gradient boosting of this flavor selects relevant covariates in a slow learning procedure and inherently models non-linear dependencies on covariates during the fitting process. The restriction to linear and smoothing spline base learners retains the interpretability of the fitted predictive models. The number of boosting iterations is the main tuning parameter and was determined by tenfold cross validation. To explore the feasibility of the gradient boosting approach we mapped pH of forest topsoils in Canton of Zurich, Switzerland, at high (50 m) spatial resolution. Legacy pH measurements were available from 1200 sites in the in the forests of Canton of Zurich. Gradient boosting selected a sparse model with

  20. High-resolution mapping of elemental abundances of the lunar regolith

    NASA Astrophysics Data System (ADS)

    Wöhler, Christian; Berezhnoy, Alexey; Evans, Richard

    comparably large deviations from the three-endmember plane in Al-Fe-Mg space of 1 wt percent and more. These anomalous basalts have low ages of 1.7-2.8 Ga [7]. They are characterised by secondary absorption features near 1100 nm and high 2000/1500 spectral ratios, indicating a high olivine content. Anomalous material in lunar craters is generally interpreted as being excavated during crater formation from the lower lunar crust or upper mantle (cf. e.g. [8]). For the highland crater Tycho, our method reveals mafic units in the northern crater wall and in the central peaks and Mg-rich rock in the southwestern crater wall and distributed throughout the crater floor. This material is interpreted in [9] as anorthositic gabbro with a low Fe content and a mafic mineral assemblage dominated by high-Ca pyroxene. Our petrographic map of Copernicus shows the central peaks as small regions composed of the mare basalt endmember (interpreted as gabbroic material) with admixed troctolite (western peak) and mainly troctolite (eastern peak), respectively [8]. For the central peaks of the crater Bullialdus, our technique clearly reveals the Mg-rich rock component, which is interpreted as norite in [10]. We present very high resolution petrographic maps derived from newly released Selene multi-spectral data of the central peaks of Copernicus and Bullialdus. For the pyroclastic deposits (LPDs) on the floor of Alphonsus, our technique indicates high Mg/Al ratios between 1.4 (eastern LPDs) and 2.5 (western LPD) [11]. The secondary absorption near 1100 nm and the high 2000/1500 ratio suggest the presence of a major olivine component. As a general result, we show that our regression-based elemental abundance estimation method allows the detection of the main lunar terrain classes and rock types on small spatial scales based on multispectral imagery in the visible and near-infrared domain. [1] Lucey et al. (2000), JGR 105(E8), 20297-20306. [2] Wühler et al. (2009), EPSC 2009, 263. [3] Evans et al

  1. Subsurface Feature Mapping of Mars using a High Resolution Ground Penetrating Radar System

    NASA Astrophysics Data System (ADS)

    Wu, T. S.; Persaud, D. M.; Preudhomme, M. A.; Jurg, M.; Smith, M. K.; Buckley, H.; Tarnas, J.; Chalumeau, C.; Lombard-Poirot, N.; Mann, B.

    2015-12-01

    As the closest Earth-like, potentially life-sustaining planet in the solar system, Mars' future of human exploration is more a question of timing than possibility. The Martian surface remains hostile, but its subsurface geology holds promise for present or ancient astrobiology and future habitation, specifically lava tube (pyroduct) systems, whose presence has been confirmed by HiRISE imagery.The location and characterization of these systems could provide a basis for understanding the evolution of the red planet and long-term shelters for future manned missions on Mars. To detect and analyze the subsurface geology of terrestrial bodies from orbit, a novel compact (smallsat-scale) and cost-effective approach called the High-resolution Orbiter for Mapping gEology by Radar (HOMER) has been proposed. Adapting interferometry techniques with synthetic aperture radar (SAR) to a ground penetrating radar system, a small satellite constellation is able to achieve a theoretical resolution of 50m from low-Mars orbit (LMO). Alongside this initial prototype design of HOMER, proposed data processing methodology and software and a Mars mission design are presented. This project was developed as part of the 2015 NASA Ames Academy for Space Exploration.

  2. High-resolution mapping of transcription factor binding sites on native chromatin

    PubMed Central

    Kasinathan, Sivakanthan; Orsi, Guillermo A.; Zentner, Gabriel E.; Ahmad, Kami; Henikoff, Steven

    2014-01-01

    Sequence-specific DNA-binding proteins including transcription factors (TFs) are key determinants of gene regulation and chromatin architecture. Formaldehyde cross-linking and sonication followed by Chromatin ImmunoPrecipitation (X-ChIP) is widely used for profiling of TF binding, but is limited by low resolution and poor specificity and sensitivity. We present a simple protocol that starts with micrococcal nuclease-digested uncross-linked chromatin and is followed by affinity purification of TFs and paired-end sequencing. The resulting ORGANIC (Occupied Regions of Genomes from Affinity-purified Naturally Isolated Chromatin) profiles of Saccharomyces cerevisiae Abf1 and Reb1 provide highly accurate base-pair resolution maps that are not biased toward accessible chromatin, and do not require input normalization. We also demonstrate the high specificity of our method when applied to larger genomes by profiling Drosophila melanogaster GAGA Factor and Pipsqueak. Our results suggest that ORGANIC profiling is a widely applicable high-resolution method for sensitive and specific profiling of direct protein-DNA interactions. PMID:24336359

  3. High-resolution Xist binding maps reveal 2-step spreading during X-inactivation

    PubMed Central

    Sarma, Kavitha; Rutenberg-Schoenberg, Michael; Bowman, Sarah K.; Kesner, Barry A.; Maier, Verena K.; Kingston, Robert E.; Lee, Jeannie T.

    2014-01-01

    The Xist long noncoding RNA (lncRNA) is essential for X-chromosome inactivation (XCI), the process by which mammals compensate for unequal numbers of sex chromosomes1-3. During XCI, Xist coats the future inactive X (Xi)4 and recruits Polycomb Repressive Complex 2 (PRC2) to the X-inactivation center (Xic)5. How Xist spreads silencing on a 150 Mb scale is unclear. Here we generate high-resolution maps of Xist binding on the X chromosome across a developmental time course using CHART-seq. In female cells undergoing XCI de novo, Xist follows a two-step mechanism, initially targeting gene-rich islands before spreading to intervening gene-poor domains. Xist is depleted from genes that escape XCI but may concentrate near escapee boundaries. Xist binding is linearly proportional to PRC2 density and H3 lysine 27 trimethylation (H3K27me3), suggesting co-migration of Xist and PRC2. Interestingly, when the Xi is acutely stripped off Xist in post-XCI cells, Xist recovers quickly within both gene-rich and -poor domains on a time-scale of hours instead of days, suggesting a previously primed Xi chromatin state. We conclude that Xist spreading takes distinct stage-specific forms: During initial establishment, Xist follows a two-step mechanism, but during maintenance, Xist spreads rapidly to both gene-rich and -poor regions. PMID:24162848

  4. ATLAS: an airborne active linescan system for high-resolution topographic mapping

    NASA Astrophysics Data System (ADS)

    Willetts, David V.; Kightley, Peter J.; Mole, S. G.; Pearson, Guy N.; Pearson, P.; Coffey, Adrian S.; Stokes, Tim J.; Tapster, Paul R.; Westwood, M.

    2004-12-01

    High resolution ground mapping is of interest for survey and management of long linear features such as roads, railways and pipelines, and for georeferencing of areas such as flood plains for hydrological purposes. ATLAS (Airborne Topographic Laser System) is an active linescan system operating at the eyesafe wavelength of 1.5μm. Built for airborne survey, it is currently certified for use on a Twin Squirrel helicopter for operation from low levels to heights above 500 feet allowing commercial survey in built up areas. The system operates at a pulse repetition frequency of 56kHz with a line completed in 15ms, giving 36 points/m2 at the surface at the design flight speed. At each point the range to the ground is measured together with the scan angle of the system. This data is combined with a system attitude measurement from an integrated inertial navigation system and with system position derived from differential GPS data aboard the platform. A recording system captures the data with a synchronised time-stamp to enable post-processed reconstruction of a cloud of data points that will give a three-dimensional representation of the terrain, allowing the points to be located with respect to absolute Earth referenced coordinates to a precision of 5cm in three axes. This paper summarises the design, harmonisation, evaluation and performance of the system, and shows examples of survey data.

  5. Grapevine powdery mildew resistance and susceptibility loci identified on a high-resolution SNP map.

    PubMed

    Barba, Paola; Cadle-Davidson, Lance; Harriman, James; Glaubitz, Jeffrey C; Brooks, Siraprapa; Hyma, Katie; Reisch, Bruce

    2014-01-01

    Improved efficacy and durability of powdery mildew resistance can be enhanced via knowledge of the genetics of resistance and susceptibility coupled with the development of high-resolution maps to facilitate the stacking of multiple resistance genes and other desirable traits. We studied the inheritance of powdery mildew (Erysiphe necator) resistance and susceptibility of wild Vitis rupestris B38 and cultivated V. vinifera 'Chardonnay', finding evidence for quantitative variation. Molecular markers were identified using genotyping-by-sequencing, resulting in 16,833 single nucleotide polymorphisms (SNPs) based on alignment to the V. vinifera 'PN40024' reference genome sequence. With an average density of 36 SNPs/Mbp and uniform coverage of the genome, this 17K set was used to identify 11 SNPs on chromosome 7 associated with a resistance locus from V. rupestris B38 and ten SNPs on chromosome 9 associated with a locus for susceptibility from 'Chardonnay' using single marker association and linkage disequilibrium analysis. Linkage maps for V. rupestris B38 (1,146 SNPs) and 'Chardonnay' (1,215 SNPs) were constructed and used to corroborate the 'Chardonnay' locus named Sen1 (Susceptibility to Erysiphe necator 1), providing the first insight into the genetics of susceptibility to powdery mildew from V. vinifera. The identification of markers associated with a susceptibility locus in a V. vinifera background can be used for negative selection among breeding progenies. This work improves our understanding of the nature of powdery mildew resistance in V. rupestris B38 and 'Chardonnay', while applying next-generation sequencing tools to advance grapevine genomics and breeding.

  6. High-resolution mapping of combustion processes and implications for CO2 emissions

    NASA Astrophysics Data System (ADS)

    Wang, R.; Tao, S.; Ciais, P.; Shen, H. Z.; Huang, Y.; Chen, H.; Shen, G. F.; Wang, B.; Li, W.; Zhang, Y. Y.; Lu, Y.; Zhu, D.; Chen, Y. C.; Liu, X. P.; Wang, W. T.; Wang, X. L.; Liu, W. X.; Li, B. G.; Piao, S. L.

    2013-05-01

    High-resolution mapping of fuel combustion and CO2 emission provides valuable information for modeling pollutant transport, developing mitigation policy, and for inverse modeling of CO2 fluxes. Previous global emission maps included only few fuel types, and emissions were estimated on a grid by distributing national fuel data on an equal per capita basis, using population density maps. This process distorts the geographical distribution of emissions within countries. In this study, a sub-national disaggregation method (SDM) of fuel data is applied to establish a global 0.1° × 0.1° geo-referenced inventory of fuel combustion (PKU-FUEL) and corresponding CO2 emissions (PKU-CO2) based upon 64 fuel sub-types for the year 2007. Uncertainties of the emission maps are evaluated using a Monte Carlo method. It is estimated that CO2 emission from combustion sources including fossil fuel, biomass, and solid wastes in 2007 was 11.2 Pg C yr-1 (9.1 Pg C yr-1 and 13.3 Pg C yr-1 as 5th and 95th percentiles). Of this, emission from fossil fuel combustion is 7.83 Pg C yr-1, which is very close to the estimate of the International Energy Agency (7.87 Pg C yr-1). By replacing national data disaggregation with sub-national data in this study, the average 95th minus 5th percentile ranges of CO2 emission for all grid points can be reduced from 417 to 68.2 Mg km-2 yr-1. The spread is reduced because the uneven distribution of per capita fuel consumptions within countries is better taken into account by using sub-national fuel consumption data directly. Significant difference in per capita CO2 emissions between urban and rural areas was found in developing countries (2.08 vs. 0.598 Mg C/(cap. × yr)), but not in developed countries (3.55 vs. 3.41 Mg C/(cap. × yr)). This implies that rapid urbanization of developing countries is very likely to drive up their emissions in the future.

  7. Pan-Tropical Forest Mapping by Exploiting Textures of Multi-Temporal High Resolution SAR Data

    NASA Astrophysics Data System (ADS)

    Knuth, R.; Eckardt, R.; Richter, N.; Schmullius, C.

    2012-12-01

    radar images were processed using an operational processing chain that includes radiometric transformation, noise reduction, and georeferencing of the SAR data. In places with pronounced topography both satellites were used as single pass interferometer to derive a digital surface model in order to perform an orthorectification followed by a topographic normalization of the SAR backscatter values. As prescribed by the FAO, the final segment-based classification algorithm was fed by multi-temporal backscatter information, a set of textural features, and information on the degree of coherence between the multi-temporal acquisitions. Validation with available high resolution optical imagery suggests that the produced forest maps possess an overall accuracy of 75 percent or higher.

  8. A High-Resolution SNP Array-Based Linkage Map Anchors a New Domestic Cat Draft Genome Assembly and Provides Detailed Patterns of Recombination.

    PubMed

    Li, Gang; Hillier, LaDeana W; Grahn, Robert A; Zimin, Aleksey V; David, Victor A; Menotti-Raymond, Marilyn; Middleton, Rondo; Hannah, Steven; Hendrickson, Sher; Makunin, Alex; O'Brien, Stephen J; Minx, Pat; Wilson, Richard K; Lyons, Leslie A; Warren, Wesley C; Murphy, William J

    2016-01-01

    High-resolution genetic and physical maps are invaluable tools for building accurate genome assemblies, and interpreting results of genome-wide association studies (GWAS). Previous genetic and physical maps anchored good quality draft assemblies of the domestic cat genome, enabling the discovery of numerous genes underlying hereditary disease and phenotypes of interest to the biomedical science and breeding communities. However, these maps lacked sufficient marker density to order thousands of shorter scaffolds in earlier assemblies, which instead relied heavily on comparative mapping with related species. A high-resolution map would aid in validating and ordering chromosome scaffolds from existing and new genome assemblies. Here, we describe a high-resolution genetic linkage map of the domestic cat genome based on genotyping 453 domestic cats from several multi-generational pedigrees on the Illumina 63K SNP array. The final maps include 58,055 SNP markers placed relative to 6637 markers with unique positions, distributed across all autosomes and the X chromosome. Our final sex-averaged maps span a total autosomal length of 4464 cM, the longest described linkage map for any mammal, confirming length estimates from a previous microsatellite-based map. The linkage map was used to order and orient the scaffolds from a substantially more contiguous domestic cat genome assembly (Felis catus v8.0), which incorporated ∼20 × coverage of Illumina fragment reads. The new genome assembly shows substantial improvements in contiguity, with a nearly fourfold increase in N50 scaffold size to 18 Mb. We use this map to report probable structural errors in previous maps and assemblies, and to describe features of the recombination landscape, including a massive (∼50 Mb) recombination desert (of virtually zero recombination) on the X chromosome that parallels a similar desert on the porcine X chromosome in both size and physical location. PMID:27172201

  9. A High-Resolution SNP Array-Based Linkage Map Anchors a New Domestic Cat Draft Genome Assembly and Provides Detailed Patterns of Recombination.

    PubMed

    Li, Gang; Hillier, LaDeana W; Grahn, Robert A; Zimin, Aleksey V; David, Victor A; Menotti-Raymond, Marilyn; Middleton, Rondo; Hannah, Steven; Hendrickson, Sher; Makunin, Alex; O'Brien, Stephen J; Minx, Pat; Wilson, Richard K; Lyons, Leslie A; Warren, Wesley C; Murphy, William J

    2016-06-01

    High-resolution genetic and physical maps are invaluable tools for building accurate genome assemblies, and interpreting results of genome-wide association studies (GWAS). Previous genetic and physical maps anchored good quality draft assemblies of the domestic cat genome, enabling the discovery of numerous genes underlying hereditary disease and phenotypes of interest to the biomedical science and breeding communities. However, these maps lacked sufficient marker density to order thousands of shorter scaffolds in earlier assemblies, which instead relied heavily on comparative mapping with related species. A high-resolution map would aid in validating and ordering chromosome scaffolds from existing and new genome assemblies. Here, we describe a high-resolution genetic linkage map of the domestic cat genome based on genotyping 453 domestic cats from several multi-generational pedigrees on the Illumina 63K SNP array. The final maps include 58,055 SNP markers placed relative to 6637 markers with unique positions, distributed across all autosomes and the X chromosome. Our final sex-averaged maps span a total autosomal length of 4464 cM, the longest described linkage map for any mammal, confirming length estimates from a previous microsatellite-based map. The linkage map was used to order and orient the scaffolds from a substantially more contiguous domestic cat genome assembly (Felis catus v8.0), which incorporated ∼20 × coverage of Illumina fragment reads. The new genome assembly shows substantial improvements in contiguity, with a nearly fourfold increase in N50 scaffold size to 18 Mb. We use this map to report probable structural errors in previous maps and assemblies, and to describe features of the recombination landscape, including a massive (∼50 Mb) recombination desert (of virtually zero recombination) on the X chromosome that parallels a similar desert on the porcine X chromosome in both size and physical location.

  10. A High-Resolution SNP Array-Based Linkage Map Anchors a New Domestic Cat Draft Genome Assembly and Provides Detailed Patterns of Recombination

    PubMed Central

    Li, Gang; Hillier, LaDeana W.; Grahn, Robert A.; Zimin, Aleksey V.; David, Victor A.; Menotti-Raymond, Marilyn; Middleton, Rondo; Hannah, Steven; Hendrickson, Sher; Makunin, Alex; O’Brien, Stephen J.; Minx, Pat; Wilson, Richard K.; Lyons, Leslie A.; Warren, Wesley C.; Murphy, William J.

    2016-01-01

    High-resolution genetic and physical maps are invaluable tools for building accurate genome assemblies, and interpreting results of genome-wide association studies (GWAS). Previous genetic and physical maps anchored good quality draft assemblies of the domestic cat genome, enabling the discovery of numerous genes underlying hereditary disease and phenotypes of interest to the biomedical science and breeding communities. However, these maps lacked sufficient marker density to order thousands of shorter scaffolds in earlier assemblies, which instead relied heavily on comparative mapping with related species. A high-resolution map would aid in validating and ordering chromosome scaffolds from existing and new genome assemblies. Here, we describe a high-resolution genetic linkage map of the domestic cat genome based on genotyping 453 domestic cats from several multi-generational pedigrees on the Illumina 63K SNP array. The final maps include 58,055 SNP markers placed relative to 6637 markers with unique positions, distributed across all autosomes and the X chromosome. Our final sex-averaged maps span a total autosomal length of 4464 cM, the longest described linkage map for any mammal, confirming length estimates from a previous microsatellite-based map. The linkage map was used to order and orient the scaffolds from a substantially more contiguous domestic cat genome assembly (Felis catus v8.0), which incorporated ∼20 × coverage of Illumina fragment reads. The new genome assembly shows substantial improvements in contiguity, with a nearly fourfold increase in N50 scaffold size to 18 Mb. We use this map to report probable structural errors in previous maps and assemblies, and to describe features of the recombination landscape, including a massive (∼50 Mb) recombination desert (of virtually zero recombination) on the X chromosome that parallels a similar desert on the porcine X chromosome in both size and physical location. PMID:27172201

  11. Will it Blend? Visualization and Accuracy Evaluation of High-Resolution Fuzzy Vegetation Maps

    NASA Astrophysics Data System (ADS)

    Zlinszky, A.; Kania, A.

    2016-06-01

    Instead of assigning every map pixel to a single class, fuzzy classification includes information on the class assigned to each pixel but also the certainty of this class and the alternative possible classes based on fuzzy set theory. The advantages of fuzzy classification for vegetation mapping are well recognized, but the accuracy and uncertainty of fuzzy maps cannot be directly quantified with indices developed for hard-boundary categorizations. The rich information in such a map is impossible to convey with a single map product or accuracy figure. Here we introduce a suite of evaluation indices and visualization products for fuzzy maps generated with ensemble classifiers. We also propose a way of evaluating classwise prediction certainty with "dominance profiles" visualizing the number of pixels in bins according to the probability of the dominant class, also showing the probability of all the other classes. Together, these data products allow a quantitative understanding of the rich information in a fuzzy raster map both for individual classes and in terms of variability in space, and also establish the connection between spatially explicit class certainty and traditional accuracy metrics. These map products are directly comparable to widely used hard boundary evaluation procedures, support active learning-based iterative classification and can be applied for operational use.

  12. Single-pass Airborne InSAR for Wide-swath, High-Resolution Cryospheric Surface Topography Mapping

    NASA Astrophysics Data System (ADS)

    Moller, D.; Hensley, S.; Wu, X.; Muellerschoen, R.

    2014-12-01

    In May 2009 a mm-wave single-pass interferometric synthetic aperture radar (InSAR) for the first time demonstrated ice surface topography swath-mapping in Greenland. This was achieved with the airborne Glacier and Ice Surface Topography Interferometer (GLISTIN-A). Ka-band (35.6GHz) was chosen for high-precision topographic mapping from a compact sensor with minimal surface penetration. In recent years, the system was comprehensively upgraded for improved performance, stability and calibration. In April 2013, after completing the upgrades, GLISTIN-A flew a brief campaign to Alaska. The primary purpose was to demonstrate the InSAR's ability to generate high-precision, high resolution maps of ice surface topography with swaths in excess of 10km. Comparison of GLISTIN-A's elevations over glacial ice with lidar verified the precision requirements and established elevation accuracies to within 2 m without tie points. Feature tracking of crevasses on Columbia Glacier using data acquired with a 3-day separation exhibit an impressive velocity mapping capability. Furthermore, GLISTIN-A flew over the Beaufort sea to determine if we could not only map sea ice, but also measure freeboard. Initial analysis has established we can measure sea-ice freeboard using height differences from the top of the sea-ice and the sea surface in open leads. In the future, a campaign with lidar is desired for a quantitative validation. Another proof-of-concept collection mapped snow-basins for hydrology. Snow depth measurements using summer and winter collections in the Sierras were compared with lidar measurements. Unsurprisingly when present, trees complicate the interpretation, but additional filtering and processing is in work. For each application, knowledge of the interferometric penetration is important for scientific interpretation. We present analytical predictions and experimental data to upper bound the elevation bias of the InSAR measurements over snow and snow-covered ice.

  13. Mapping Urban Tree Canopy Coverage and Structure using Data Fusion of High Resolution Satellite Imagery and Aerial Lidar

    NASA Astrophysics Data System (ADS)

    Elmes, A.; Rogan, J.; Williams, C. A.; Martin, D. G.; Ratick, S.; Nowak, D.

    2015-12-01

    Urban tree canopy (UTC) coverage is a critical component of sustainable urban areas. Trees provide a number of important ecosystem services, including air pollution mitigation, water runoff control, and aesthetic and cultural values. Critically, urban trees also act to mitigate the urban heat island (UHI) effect by shading impervious surfaces and via evaporative cooling. The cooling effect of urban trees can be seen locally, with individual trees reducing home HVAC costs, and at a citywide scale, reducing the extent and magnitude of an urban areas UHI. In order to accurately model the ecosystem services of a given urban forest, it is essential to map in detail the condition and composition of these trees at a fine scale, capturing individual tree crowns and their vertical structure. This paper presents methods for delineating UTC and measuring canopy structure at fine spatial resolution (<1m). These metrics are essential for modeling the HVAC benefits from UTC for individual homes, and for assessing the ecosystem services for entire urban areas. Such maps have previously been made using a variety of methods, typically relying on high resolution aerial or satellite imagery. This paper seeks to contribute to this growing body of methods, relying on a data fusion method to combine the information contained in high resolution WorldView-3 satellite imagery and aerial lidar data using an object-based image classification approach. The study area, Worcester, MA, has recently undergone a large-scale tree removal and reforestation program, following a pest eradication effort. Therefore, the urban canopy in this location provides a wide mix of tree age class and functional type, ideal for illustrating the effectiveness of the proposed methods. Early results show that the object-based classifier is indeed capable of identifying individual tree crowns, while continued research will focus on extracting crown structural characteristics using lidar-derived metrics. Ultimately

  14. High-resolution AUV mapping and lava flow ages at Axial Seamount

    NASA Astrophysics Data System (ADS)

    Clague, D. A.; Paduan, J. B.; Dreyer, B. M.; Caress, D. W.; Martin, J.

    2011-12-01

    Mapping along mid-ocean ridges, as on land, requires identification of flow boundaries and sequence, and ages of some flows to understand eruption history. Multibeam sonars on autonomous underwater vehicles (AUV) now generate 1-m resolution maps that resolve lava pillars, internal flow structures and boundaries, and lava flow emplacement sequences using crosscutting relations and abundance of fissures. MBARI has now mapped the summit caldera floor and rims and the upper south rift zone on Axial Seamount on the Juan de Fuca Ridge. With the advent of the high-resolution bathymetry and the ability to observe flow contacts to determine superposition using ROVs and submersibles, the missing component has been determining absolute ages of the flows. We used the MBARI ROV Doc Ricketts to collect short push cores (<30 cm) of the thin sediment nestled between pillow lava lobes and sieve and then hand-pick planktic foraminifera from the base of the cores to date by AMS 14C. Ages of planktic foraminifera are marine-calibrated in years before present, and provide minimum ages for the underlying flows, as there is probably some basal sediment that is not recovered. 14C ages have been determined for 10 cores near the summit of Axial Seamount and for 6 from the lowermost south rift. Ages of nearby samples commonly yield statistically identical ages, and 2 cores near the center of the caldera had multiple layers dated. These ages systematically increase with depth, indicating that redistribution of sediment by bottom currents does not significantly affect the stratigraphy. We will expand these collections in summer 2011. The coring is accompanied by collection of flow samples for chemistry and video observations to confirm contact locations and flow superposition inferred from the mapping data. Six ages from the lowermost part of the south rift of Axial Seamount include samples on a cone with deep summit crater that is ~16,580 aBP and on 5 flows between 950 and 1510 aBP. Two

  15. Comparing Event-records of cryospheric change to high-resolution climate records

    NASA Astrophysics Data System (ADS)

    Schaefer, J. M.; Denton, G.; Putnam, A. E.; Kaplan, M. R.; Barrell, D.; Schluechter, C.; Rupper, S.; Finkel, R. C.; Schwartz, R.

    2012-12-01

    Evaluation of ongoing Cryospheric Change is a forefront challenge of earth sciences, because it directly impacts societies by sea level rise and changing river run-off pattern in densely populated areas. Robust predictions of future cryospheric change require quantitative understanding of the coupling between the climate and cryosphere systems. One promising approach to do so is to compare paleo-climate and paleo-cryosphere records. However, the terrestrial cryospheric record, including morphologies such as moraines and proglacial bedrock, represents an 'event record' that is by definition non-continuous. The most important climate proxy records such as polar ice-cores, marine sediment cores and speleothems are continuous, high-resolution proxy records. Meaningful comparison of the two requires detailed and accurate chronologies of the cryospheric record. Over the last years, the sensitivity of the method of surface exposure dating has considerably improved, increasing precision and size of data set. Now, we are in the position to compare, geomorphic records of former glacier and ice-sheet positions with continuous and high resolution climate records, and in turn, perform the experiment described above. Here we will compare extensive mountain glacier moraine chronologies from both hemispheres with relevant climate records, including tree-ring records, ice core proxy and gas records, and marine sediment records. We show that glacier fluctuations in New Zealand show remarkable general consistency to summer temperature and atmospheric greenhouse gas records, but also find second order distinctions between different glacier fluctuation records and the climate records on shorter time-scales. We focus on the time periods of (i) the last ice age termination and subsequent deglaciation (20-10 ka) and (ii) the late Holocene, including the last millennium and the Little Ice Age Period (CE 1300-1850).

  16. aMAP is a validated pipeline for registration and segmentation of high-resolution mouse brain data.

    PubMed

    Niedworok, Christian J; Brown, Alexander P Y; Jorge Cardoso, M; Osten, Pavel; Ourselin, Sebastien; Modat, Marc; Margrie, Troy W

    2016-01-01

    The validation of automated image registration and segmentation is crucial for accurate and reliable mapping of brain connectivity and function in three-dimensional (3D) data sets. While validation standards are necessarily high and routinely met in the clinical arena, they have to date been lacking for high-resolution microscopy data sets obtained from the rodent brain. Here we present a tool for optimized automated mouse atlas propagation (aMAP) based on clinical registration software (NiftyReg) for anatomical segmentation of high-resolution 3D fluorescence images of the adult mouse brain. We empirically evaluate aMAP as a method for registration and subsequent segmentation by validating it against the performance of expert human raters. This study therefore establishes a benchmark standard for mapping the molecular function and cellular connectivity of the rodent brain. PMID:27384127

  17. aMAP is a validated pipeline for registration and segmentation of high-resolution mouse brain data

    PubMed Central

    Niedworok, Christian J.; Brown, Alexander P. Y.; Jorge Cardoso, M.; Osten, Pavel; Ourselin, Sebastien; Modat, Marc; Margrie, Troy W.

    2016-01-01

    The validation of automated image registration and segmentation is crucial for accurate and reliable mapping of brain connectivity and function in three-dimensional (3D) data sets. While validation standards are necessarily high and routinely met in the clinical arena, they have to date been lacking for high-resolution microscopy data sets obtained from the rodent brain. Here we present a tool for optimized automated mouse atlas propagation (aMAP) based on clinical registration software (NiftyReg) for anatomical segmentation of high-resolution 3D fluorescence images of the adult mouse brain. We empirically evaluate aMAP as a method for registration and subsequent segmentation by validating it against the performance of expert human raters. This study therefore establishes a benchmark standard for mapping the molecular function and cellular connectivity of the rodent brain. PMID:27384127

  18. High-resolution mapping of biomass burning emissions in tropical regions across three continents

    NASA Astrophysics Data System (ADS)

    Shi, Yusheng; Matsunaga, Tsuneo; Saito, Makoto

    2015-04-01

    Biomass burning emissions from open vegetation fires (forest fires, savanna fires, agricultural waste burning), human waste and biofuel combustion contain large amounts of trace gases (e.g., CO2, CH4, and N2O) and aerosols (BC and OC), which significantly impact ecosystem productivity, global atmospheric chemistry, and climate . With the help of recently released satellite products, biomass density based on satellite and ground-based observation data, and spatial variable combustion factors, this study developed a new high-resolution emissions inventory for biomass burning in tropical regions across three continents in 2010. Emissions of trace gases and aerosols from open vegetation burning are estimated from burned areas, fuel loads, combustion factors, and emission factors. Burned areas were derived from MODIS MCD64A1 burned area product, fuel loads were mapped from biomass density data sets for herbaceous and tree-covered land based on satellite and ground-based observation data. To account for spatial heterogeneity in combustion factors, global fractional tree cover (MOD44B) and vegetation cover maps (MCD12Q1) were introduced to estimate the combustion factors in different regions by using their relationship with tree cover under less than 40%, between 40-60% and above 60% conditions. For emission factors, the average values for each fuel type from field measurements are used. In addition to biomass burning from open vegetation fires, the emissions from human waste (residential and dump) burning and biofuel burning in 2010 were also estimated for 76 countries in tropical regions across the three continents and then allocated into each pixel with 1 km grid based on the population density (Gridded Population of the World v3). Our total estimates for the tropical regions across the three continents in 2010 were 17744.5 Tg CO2, 730.3 Tg CO, 32.0 Tg CH4, 31.6 Tg NOx, 119.2 Tg NMOC, 6.3 Tg SO2, 9.8 NH3 Tg, 81.8 Tg PM2.5, 48.0 Tg OC, and 5.7 Tg BC, respectively. Open

  19. High Resolution Map of Water Supply and Demand for North East United States

    NASA Astrophysics Data System (ADS)

    Ehsani, N.; Vorosmarty, C. J.; Fekete, B. M.

    2012-12-01

    Accurate estimates of water supply and demand are crucial elements in water resources management and modeling. As part of our NSF-funded EaSM effort to build a Northeast Regional Earth System Model (NE-RESM) as a framework to improve our understanding and capacity to forecast the implications of planning decisions on the region's environment, ecosystem services, energy and economic systems through the 21st century, we are producing a high resolution map (3' x 3' lat/long) of estimated water supply and use for the north east region of United States. Focusing on water demand, results from this study enables us to quantify how demand sources affect the hydrology and thermal-chemical water pollution across the region. In an attempt to generate this 3-minute resolution map in which each grid cell has a specific estimated monthly domestic, agriculture, thermoelectric and industrial water use. Estimated Use of Water in the United States in 2005 (Kenny et al., 2009) is being coupled to high resolution land cover and land use, irrigation, power plant and population data sets. In addition to water demands, we tried to improve estimates of water supply from the WBM model by improving the way it controls discharge from reservoirs. Reservoirs are key characteristics of the modern hydrologic system, with a particular impact on altering the natural stream flow, thermal characteristics, and biogeochemical fluxes of rivers. Depending on dam characteristics, watershed characteristics and the purpose of building a dam, each reservoir has a specific optimum operating rule. It means that literally 84,000 dams in the National Inventory of Dams potentially follow 84,000 different sets of rules for storing and releasing water which must somehow be accounted for in our modeling exercise. In reality, there is no comprehensive observational dataset depicting these operating rules. Thus, we will simulate these rules. Our perspective is not to find the optimum operating rule per se but to find

  20. High resolution mapping of oxygen reduction reaction kinetics at polycrystalline platinum electrodes.

    PubMed

    Chen, Chang-Hui; Meadows, Katherine E; Cuharuc, Anatolii; Lai, Stanley C S; Unwin, Patrick R

    2014-09-14

    The scanning droplet-based technique, scanning electrochemical cell microscopy (SECCM), combined with electron backscatter diffraction (EBSD), is demonstrated as a powerful approach for visualizing surface structure effects on the rate of the oxygen reduction reaction (ORR) at polycrystalline platinum electrodes. Elucidating the effect of electrode structure on the ORR is of major interest in connection to electrocatalysis for energy-related applications. The attributes of the approach herein stem from: (i) the ease with which the polycrystalline substrate electrode can be prepared; (ii) the wide range of surface character open to study; (iii) the possibility of mapping reactivity within a particular facet (or grain), in a pseudo-single-crystal approach, and acquiring a high volume of data as a consequence; (iv) the ready ability to measure the activity at grain boundaries; and (v) an experimental arrangement (SECCM) that mimics the three-phase boundary in low temperature fuel cells. The kinetics of the ORR was analyzed and a finite element method model was developed to explore the effect of the three-phase boundary, in particular to examine pH variations in the droplet and the differential transport rates of the reactants and products. We have found a significant variation of activity across the platinum substrate, inherently linked to the crystallographic orientation, but do not detect any enhanced activity at grain boundaries. Grains with (111) and (100) contributions exhibit considerably higher activity than those with (110) and (100) contributions. These results, which can be explained by reference to previous single-crystal measurements, enhance our understanding of ORR structure-activity relationships on complex high-index platinum surfaces, and further demonstrate the power of high resolution flux imaging techniques to visualize and understand complex electrocatalyst materials.

  1. High resolution mapping of oxygen reduction reaction kinetics at polycrystalline platinum electrodes.

    PubMed

    Chen, Chang-Hui; Meadows, Katherine E; Cuharuc, Anatolii; Lai, Stanley C S; Unwin, Patrick R

    2014-09-14

    The scanning droplet-based technique, scanning electrochemical cell microscopy (SECCM), combined with electron backscatter diffraction (EBSD), is demonstrated as a powerful approach for visualizing surface structure effects on the rate of the oxygen reduction reaction (ORR) at polycrystalline platinum electrodes. Elucidating the effect of electrode structure on the ORR is of major interest in connection to electrocatalysis for energy-related applications. The attributes of the approach herein stem from: (i) the ease with which the polycrystalline substrate electrode can be prepared; (ii) the wide range of surface character open to study; (iii) the possibility of mapping reactivity within a particular facet (or grain), in a pseudo-single-crystal approach, and acquiring a high volume of data as a consequence; (iv) the ready ability to measure the activity at grain boundaries; and (v) an experimental arrangement (SECCM) that mimics the three-phase boundary in low temperature fuel cells. The kinetics of the ORR was analyzed and a finite element method model was developed to explore the effect of the three-phase boundary, in particular to examine pH variations in the droplet and the differential transport rates of the reactants and products. We have found a significant variation of activity across the platinum substrate, inherently linked to the crystallographic orientation, but do not detect any enhanced activity at grain boundaries. Grains with (111) and (100) contributions exhibit considerably higher activity than those with (110) and (100) contributions. These results, which can be explained by reference to previous single-crystal measurements, enhance our understanding of ORR structure-activity relationships on complex high-index platinum surfaces, and further demonstrate the power of high resolution flux imaging techniques to visualize and understand complex electrocatalyst materials. PMID:25072300

  2. A new Concept for High Resolution Benthic Mapping and Data Aquisition: MANSIO-VIATOR

    NASA Astrophysics Data System (ADS)

    Flögel, S.

    2015-12-01

    Environmental conditions within sensitive seafloor ecosystems such as cold-seep provinces or cold-water coral reef communities vary temporally and spatially over a wide range of scales. Some of these are regularly monitored via short periods of intense shipborne activity or low resolution, fixed location studies by benthic lander systems. Long term measurements of larger areas and volumes are ususally coupled to costly infrastructure investments such as cabled observatories. In space exploration, a combination of fixed and mobile systems working together are commonly used, e.g. lander systems coupled to rovers, to tackle observational needs that are very similar to deep-sea data aquisition. The analogies between space and deep-sea research motivated the German Helmholtz Association to setup the joint research program ROBEX (Robotic Exploration under extreme conditions). The program objectives are to identify, develop and verify technological synergies between the robotic exploration of e.g. the moon and the deep-sea. Within ROBEX, the mobility of robots is a vital element for research missions due to valuable scientifice return potential from different sites as opposed to static landers. Within this context, we developed a new mobile crawler system (VIATOR, latin for traveller) and a fixed lander component for energy and data transfer (MANSIO, latin for housing/shelter). This innovative MANSIO-VIATOR system has been developed during the past 2.5 years. The caterpillar driven component is developed to conduct high resolution opitcal mapping and repeated monitoring of physical and biogeochemical parameters along transects. The system operates fully autonomously including navigational components such as camera and laser scanners, as well as marker based near-field navigation used in space technology. This new concept of data aquisition by a submarine crawler in combination with a fixed lander further opens up marine exploration possibilities.

  3. High-Resolution, Semi-Automatic Fault Mapping Using Umanned Aerial Vehicles and Computer Vision: Mapping from an Armchair

    NASA Astrophysics Data System (ADS)

    Micklethwaite, S.; Vasuki, Y.; Turner, D.; Kovesi, P.; Holden, E.; Lucieer, A.

    2012-12-01

    Our ability to characterise fractures depends upon the accuracy and precision of field techniques, as well as the quantity of data that can be collected. Unmanned Aerial Vehicles (UAVs; otherwise known as "drones") and photogrammetry, provide exciting new opportunities for the accurate mapping of fracture networks, over large surface areas. We use a highly stable, 8 rotor, UAV platform (Oktokopter) with a digital SLR camera and the Structure-from-Motion computer vision technique, to generate point clouds, wireframes, digital elevation models and orthorectified photo mosaics. Furthermore, new image analysis methods such as phase congruency are applied to the data to semiautomatically map fault networks. A case study is provided of intersecting fault networks and associated damage, from Piccaninny Point in Tasmania, Australia. Outcrops >1 km in length can be surveyed in a single 5-10 minute flight, with pixel resolution ~1 cm. Centimetre scale precision can be achieved when selected ground control points are measured using a total station. These techniques have the potential to provide rapid, ultra-high resolution mapping of fracture networks, from many different lithologies; enabling us to more accurately assess the "fit" of observed data relative to model predictions, over a wide range of boundary conditions.igh resolution DEM of faulted outcrop (Piccaninny Point, Tasmania) generated using the Oktokopter UAV (inset) and photogrammetric techniques.

  4. Isotropic diffusion weighting for measurement of a high-resolution apparent diffusion coefficient map using a single radial scan in MRI

    NASA Astrophysics Data System (ADS)

    Seo, Hyunseok; Choi, Joonsung; Oh, Changheun; Han, Yeji; Park, HyunWook

    2014-10-01

    This work proposes an isotropic diffusion weighting method for a high-resolution diffusion-weighted image and for a high-resolution apparent diffusion coefficient (ADC) map using a single radial scan in MRI. By using a conventional radial imaging technique, a high-resolution diffusion-weighted (DW) image can be obtained at the cost of a long imaging time. To reduce the imaging time, the proposed method acquires a DW image by altering the diffusion gradient directions for each radial spoke. The acquisition order and directions of the diffusion gradients for an accurate DW image and an ADC map are also proposed by modifying the golden angle ratio in 3D space. In addition, an individual-direction diffusion-weighted (id-DW) image can also be obtained by a diffusion gradient direction, which is one of the multiple directions used in isotropic diffusion weighting. Computer simulations and experiment results show that the proposed method is more accurate and faster than the conventional radial diffusion-weighted imaging. This study suggests that the proposed isotropic diffusion-weighted imaging can be used to obtain a DW image and a high-resolution ADC map accurately in a single radial scan, while reducing the artifacts caused by the diffusion anisotropy, compared to the diffusion-weighted echo-planar-imaging.

  5. Marker development, saturation mapping, and high-resolution mapping of the Septoria nodorum blotch susceptibility gene Snn3-B1 in wheat.

    PubMed

    Shi, Gongjun; Zhang, Zengcui; Friesen, Timothy L; Bansal, Urmil; Cloutier, Sylvie; Wicker, Thomas; Rasmussen, Jack B; Faris, Justin D

    2016-02-01

    Septoria nodorum blotch (SNB), caused by Parastagonospora nodorum, is a severe foliar and glume disease on durum and common wheat. Pathogen-produced necrotrophic effectors (NEs) are the major determinants for SNB on leaves. One such NE is SnTox3, which evokes programmed cell death and leads to disease when recognized by the wheat Snn3-B1 gene. Here, we developed saturated genetic linkage maps of the Snn3-B1 region using two F2 populations derived from the SnTox3-sensitive line Sumai 3 crossed with different SnTox3-insensitive lines. Markers were identified and/or developed from various resources including previously mapped simple sequence repeats, bin-mapped expressed sequence tags, single nucleotide polymorphisms, and whole genome survey sequences. Subsequent high-resolution mapping of the Snn3-B1 locus in 5600 gametes delineated the gene to a 1.5 cM interval. Analysis of micro-colinearity of the Snn3-B1 region indicated that it was highly disrupted compared to rice and Brachypodium distachyon. The screening of a collection of durum and common wheat cultivars with tightly linked markers indicated they are not diagnostic for the presence of Snn3-B1, but can be useful for marker-assisted selection if the SnTox3 reactions of lines are first determined. Finally, we developed an ethyl methanesulfonate-induced mutant population of Sumai 3 where the screening of 408 M2 families led to the identification of 17 SnTox3-insensitive mutants. These mutants along with the markers and high-resolution map developed in this research provide a strong foundation for the map-based cloning of Snn3-B1, which will broaden our understanding of the wheat-P. nodorum system and plant-necrotrophic pathogen interactions in general. PMID:26187026

  6. Self-Powered High-Resolution and Pressure-Sensitive Triboelectric Sensor Matrix for Real-Time Tactile Mapping.

    PubMed

    Wang, Xiandi; Zhang, Hanlu; Dong, Lin; Han, Xun; Du, Weiming; Zhai, Junyi; Pan, Caofeng; Wang, Zhong Lin

    2016-04-20

    A triboelectric sensor matrix (TESM) can accurately track and map 2D tactile sensing. A self-powered, high-resolution, pressure-sensitive, flexible and durable TESM with 16 × 16 pixels is fabricated for the fast detection of single-point and multi-point touching. Using cross-locating technology, a cross-type TESM with 32 × 20 pixels is developed for more rapid tactile mapping, which significantly reduces the addressing lines from m × n to m + n.

  7. High resolution scanning near field mapping of enhancement on SERS substrates: comparison with photoemission electron microscopy.

    PubMed

    Awada, C; Plathier, J; Dab, C; Charra, F; Douillard, L; Ruediger, A

    2016-04-14

    The need for a dedicated spectroscopic technique with nanoscale resolution to characterize SERS substrates pushed us to develop a proof of concept of a functionalized tip-surface enhanced Raman scattering (FTERS) technique. We have been able to map hot spots on semi-continuous gold films; in order to validate our approach we compare our results with photoemission electron microscopy (PEEM) data, the complementary electron microscopy tool to map hot spots on random metallic surfaces. Enhanced Raman intensity maps at high spatial resolution reveal the localisation of hotspots at gaps for many neighboring nanostructures. Finally, we compare our findings with theoretical simulations of the enhancement factor distribution, which confirms a dimer effect as the dominant origin of hot spots. PMID:26979589

  8. Fine-scale mapping of vector habitats using very high resolution satellite imagery: a liver fluke case-study.

    PubMed

    De Roeck, Els; Van Coillie, Frieke; De Wulf, Robert; Soenen, Karen; Charlier, Johannes; Vercruysse, Jozef; Hantson, Wouter; Ducheyne, Els; Hendrickx, Guy

    2014-01-01

    The visualization of vector occurrence in space and time is an important aspect of studying vector-borne diseases. Detailed maps of possible vector habitats provide valuable information for the prediction of infection risk zones but are currently lacking for most parts of the world. Nonetheless, monitoring vector habitats from the finest scales up to farm level is of key importance to refine currently existing broad-scale infection risk models. Using Fasciola hepatica, a parasite liver fluke, as a case in point, this study illustrates the potential of very high resolution (VHR) optical satellite imagery to efficiently and semi-automatically detect detailed vector habitats. A WorldView2 satellite image capable of <5m resolution was acquired in the spring of 2013 for the area around Bruges, Belgium, a region where dairy farms suffer from liver fluke infections transmitted by freshwater snails. The vector thrives in small water bodies (SWBs), such as ponds, ditches and other humid areas consisting of open water, aquatic vegetation and/or inundated grass. These water bodies can be as small as a few m2 and are most often not present on existing land cover maps because of their small size. We present a classification procedure based on object-based image analysis (OBIA) that proved valuable to detect SWBs at a fine scale in an operational and semi-automated way. The classification results were compared to field and other reference data such as existing broad-scale maps and expert knowledge. Overall, the SWB detection accuracy reached up to 87%. The resulting fine-scale SWB map can be used as input for spatial distribution modelling of the liver fluke snail vector to enable development of improved infection risk mapping and management advice adapted to specific, local farm situations.

  9. Modeling Foliar Uptake in Colocasia Esculenta Using High Resolution Maps of Leaf Water Isotopes

    NASA Astrophysics Data System (ADS)

    Sinkler, C. J.; Gerlein-Safdi, C.; Caylor, K. K.

    2014-12-01

    The uptake of carbon dioxide by vegetation is a major sink of CO2 and a factor that will determine future climate. Some studies predict a decrease in CO2 uptake from vegetation because of a general drying of the Amazon Basin. Because of the tight linkage between water availability and plant carbon uptake, a comprehensive model of plant water use at the individual scale is necessary to build a complete carbon budget at the global scale. Foliar uptake of non-meteoric water is a common process used by plants to alleviate water stress. However the occurrence of this process in tropical ecosystems, as well as its interaction with other physiological parameters, is not well understood. We present a model of leaf water balance that includes foliar uptake. The isotopic composition of the different sources as well as the leaf water are also included. The model is tested against a series of experiments on Colocasia esculenta, under two different water availability conditions: drought and artificial dew. The artificial dew is spiked with stable isotopes of water (δ18O = 8.56 permil, δ2H = 709.7 permil) that allow us to trace the partition of dew uptake within a leaf. We create high-resolution maps of the distribution of isotopes in one half of each leaf using a Picarro IM-CRDS. The maps show a clear enrichment due to foliar uptake for the artificial dew treatment. The water in the second half of the leaf is extracted by cryogenic extraction and analyzed using both IRIS and IRMS for quality control of the IM-CRDS data. Soil water is collected for isotope analysis and water content measurement. Finally, stomatal conductance data collected every two days shows no significant decrease due to either treatment over the course of the experiment. We conclude that foliar uptake of dew water is an important water acquisition mechanism for C. esculenta, even under high soil water content conditions, and we propose guidelines for further improvement of models of leaf-scale water

  10. High-resolution linkage map in the proximity of the host resistance locus Cmv1

    SciTech Connect

    Depatie, C.; Muise, E.; Gros, P.

    1997-01-15

    The mouse chromosome 6 locus Cmv1 controls replication of mouse Cytomegalovirus (MCMV) in the spleen of the infected host. In our effort to clone Cmv1, we have constructed a high-resolution genetic linkage map in the proximity of the gene. For this, a total of 45 DNA markers corresponding to either cloned genes or microsatellites were mapped within a 7.9-cM interval overlapping the Cmv1 region. We have followed the cosegregation of these markers with respect to Cmv1 in a total of 2248 backcross mice from a preexisting interspecific backcross panel of 281 (Mus spretus X C57BL/6J)F1 X C57BL/6J and 2 novel panels of 989 (A/J X C57BL6)F1 X A/J and 978 (BALB/c X C57BL/6J)F1 X BALB/c segregating Cmv1. Combined pedigree analysis allowed us to determine the following gene order and intergene distances (in cM) on the distal region of mouse chromosome 6: D6Mit216-(1.9)-D6Mit336-(2.2)-D6Mit218-(1.0)-D6Mit52-(0.5)-D6Mit194-(0.2)-Nkrp1/D6Mit61/135/257/289/338-(0.4)-Cmv1/Ly49A/D6Mit370-(0.3)-Prp/Kap/D6Mit13/111/219-(0.3)-Tel/D6Mit374/290/220/196/195/110-(1.1)-D6Mit25. Therefore, the minimal genetic interval for Cmv1 of 0.7 cM is defined by 13 tightly linked markers including 2 markers, Ly49A and D6Mit370, that did not show recombination with Cmv1 in 1967 meioses analyzed; the proximal limit of the Cmv1 domain was defined by 8 crossovers between Nkrp1/D6Mit61/135/257/289/338 and Cmv1/Ly49A/D6Mit370, and the distal limit was defined by 5 crossovers between Cmv1/Ly49A/D6Mit370 and Prp/Kap/D6Mit13/111/219. This work demonstrates tight linkage between Cmv1 and genes from the natural killer complex (NKC), such as Nkrp1 and Ly49A suggesting that Cmv1 may represent an NK cell recognition structure encoded in the NKC region. 54 refs., 4 figs., 2 tabs.

  11. High-Resolution Mapping of Myeloarchitecture In Vivo: Localization of Auditory Areas in the Human Brain.

    PubMed

    De Martino, Federico; Moerel, Michelle; Xu, Junqian; van de Moortele, Pierre-Francois; Ugurbil, Kamil; Goebel, Rainer; Yacoub, Essa; Formisano, Elia

    2015-10-01

    The precise delineation of auditory areas in vivo remains problematic. Histological analysis of postmortem tissue indicates that the relation of areal borders to macroanatomical landmarks is variable across subjects. Furthermore, functional parcellation schemes based on measures of, for example, frequency preference (tonotopy) remain controversial. Here, we propose a 7 Tesla magnetic resonance imaging method that enables the anatomical delineation of auditory cortical areas in vivo and in individual brains, through the high-resolution visualization (0.6 × 0.6 × 0.6 mm(3)) of intracortical anatomical contrast related to myelin. The approach combines the acquisition and analysis of images with multiple MR contrasts (T1, T2*, and proton density). Compared with previous methods, the proposed solution is feasible at high fields and time efficient, which allows collecting myelin-related and functional images within the same measurement session. Our results show that a data-driven analysis of cortical depth-dependent profiles of anatomical contrast allows identifying a most densely myelinated cortical region on the medial Heschl's gyrus. Analyses of functional responses show that this region includes neuronal populations with typical primary functional properties (single tonotopic gradient and narrow frequency tuning), thus indicating that it may correspond to the human homolog of monkey A1. PMID:24994817

  12. High resolution synoptic salinity mapping to identify groundwater--surface water discharges in lowland rivers.

    PubMed

    Pai, Henry; Villamizar, Sandra R; Harmon, Thomas C

    2015-04-21

    Quantifying distributed lateral groundwater contributions to surface water (GW-SW discharges) is a key aspect of tracking nonpoint-source pollution (NPSP) within a watershed. In this study, we characterized distributed GW-SW discharges and associated salt loading using elevated GW specific conductance (SC) as a tracer along a 38 km reach of the Lower Merced River in Central California. High resolution longitudinal surveys for multiple flows (1.3-150 m(3) s(-1)) revealed river SC gradients that mainly decreased with increasing flow, suggesting a dilution effect and/or reduced GW-SW discharges due to hydraulic gradient reductions. However, exceptions occurred (gradients increasing with increasing flow), pointing to complex spatiotemporal influences on GW-SW dynamics. The surveys revealed detailed variability in salinity gradients, from which we estimated distributed GW-SW discharge and salt loading using a simple mixing model. Modeled cumulative GW discharges for two surveys unaffected by ungauged SW discharges were comparable in magnitude to differential gauging-based discharge estimates and prior GW-SW studies along the same river reach. Ungauged lateral inlets and sparse GW data limited the study, and argue for enhancing monitoring efforts. Our approach provides a rapid and economical method for characterizing NPSP for gaining rivers in the context of integrated watershed modeling and management.

  13. Using high-resolution digital aerial imagery to map land cover

    USGS Publications Warehouse

    Dieck, J.J.; Robinson, Larry

    2014-01-01

    The Upper Midwest Environmental Sciences Center (UMESC) has used aerial photography to map land cover/land use on federally owned and managed lands for over 20 years. Until recently, that process used 23- by 23-centimeter (9- by 9-inch) analog aerial photos to classify vegetation along the Upper Mississippi River System, on National Wildlife Refuges, and in National Parks. With digital aerial cameras becoming more common and offering distinct advantages over analog film, UMESC transitioned to an entirely digital mapping process in 2009. Though not without challenges, this method has proven to be much more accurate and efficient when compared to the analog process.

  14. High Speed High Resolution Current Comparator and its Application to Analog to Digital Converter

    NASA Astrophysics Data System (ADS)

    Sridhar, Ranjana; Pandey, Neeta; Bhattacharyya, Asok; Bhatia, Veepsa

    2016-06-01

    This paper introduces a high speed high resolution current comparator which includes the current differencing stage and employs non linear feedback in the gain stage. The usefulness of the proposed comparator is demonstrated by implementing a 3-bit current mode flash analog-to-digital converter (ADC). Simulation program with integrated circuit emphasis (SPICE) simulations have been carried out to verify theoretical proposition and performance parameters of both comparator and ADC are obtained using TSMC 0.18 µm CMOS technology parameters. The current comparator shows a resolution of ±5 nA and a delay of 0.86 ns for current difference of ±1 µA. The impact of process variation on proposed comparator propagation delay has been studied through Monte Carlo simulation and it is found that percentage change in propagation delay in best case is 1.3 % only and in worst case is 9 % only. The ADC exhibits an offset, gain error, differential nonlinearity (DNL) and integral nonlinearity (INL) of 0.102 µA, 0.99, -0.34 LSB and 0.0267 LSB, respectively. The impact of process variation on ADC has also been studied at different process corners.

  15. High-resolution seafloor mapping surveys over the San Gregorio-Palo Colorado Fault

    NASA Astrophysics Data System (ADS)

    Paull, C. K.; Caress, D. W.; Thomas, H.; Lundsten, E.; Anderson, K.; Gwiazda, R.

    2011-12-01

    The San Gregorio-Palo Colorado Fault (SGPCF) is mapped as traversing the outer end of Monterey Bay and crossing Monterey Canyon near its intersection with Carmel Canyon. The location of the fault is based on offsets in seismic reflection profiles, lineations in the bathymetry, and locations of epicenters associated with small earthquakes. However, much of the offshore area where the trace of the SGPCF is postulated to be located is sediment bare, making it difficult to determine if there has been recent movement along this segment of the fault. High-resolution multibeam bathymetry (vertical precision of 0.15 m and horizontal resolution of 1.0 m) and 1-4.5 kHz chirp seismic reflection profiles have recently been collected in up to 1.6 km water depths on the northern flank of Monterey Canyon where the SGPCF is thought to cut across the canyon wall. The objective of these surveys was to look for indications of recent deformation associated with the SGPCF where accumulations of sediments could provide evidence of seafloor displacement along this segment of the fault since these sediments have been deposited. The surveys were conducted using an autonomous underwater vehicle (AUV) during two 17.5-hour-long dives. An inertial navigation system combined with a Doppler velocity sonar allowed the AUV to fly pre-programmed grids at 3 knots while maintaining an altitude of 50 m above the seafloor. These surveys are in addition to other recently published AUV surveys of the floor of Monterey Canyon extending out to 2.2 km water depths and including the zone where the SGPCF is mapped to cross the canyon floor. The lack of clear evidence of fault deformation along the SGPCF trace on the canyon floor is easily attributable to frequent sediment transport events within the canyon's channel, which would presumably overwrite sediment deformation associated with the SGPCF. The surveys presented here extend above the active canyon floor and cover the northern flank of Monterey Canyon

  16. High Resolution Mapping of the Lunar South Pole-Aitken Basin Interior

    NASA Astrophysics Data System (ADS)

    Archinal, B. A.; Gaddis, L. R.; Hare, T. M.; Rosiek, M.; Howington-Kraus, E.; Lee, E.; Weller, L.; Kirk, R. L.; Edmundson, K.; Becker, T.; Jolliff, B. L.; Tran, T.; Robinson, M.; LROC Science Team

    2010-12-01

    We are making geodetically controlled high-resolution digital terrain models (DTMs) and image orthomosaics of the Constellation (Cx) Program region of interest (ROI) in the lunar South Pole-Aitken Basin interior (“SAB”) (center at 200.06° E, 60.00° S). This work is part of the Lunar Mapping and Modeling Program (LMMP), a NASA-funded effort to create useful cartographic products from past and current lunar datasets and to serve them on a web portal. The SAB is one of 50 ROIs chosen by Cx as potential sites for future robotic or human landings or analogs thereof. Source data for our products includes publically released ~50 cm/pixel Lunar Reconnaissance Orbiter Camera (LROC) Narrow Angle Camera images and Lunar Orbiter Laser Altimeter (LOLA) spot elevation measurements and preliminary global 16 posts/° DTM. Products generated so far include: a) a preliminary stereo DTM covering ~25% of the center 20 km square area of the ROI, with post spacing (resolution) of 1.5 m and ~86x10^6 posts; b) a preliminary mosaic of 90% of the 40 km square ROI, with a resolution of 2 m, orthorectified with LOLA data or, where possible, the stereo DTM; c) preliminary DTMs generated via the use of photoclinometry (“shape from shading”), covering small areas with post spacing of 50 cm; and d) slope and roughness maps derived from a and c. All products are in the lunar mean Earth/polar axis coordinate system and the preliminary global reference frame of the current LOLA DTM. The absolute accuracy of these products is limited by the horizontal and vertical accuracy of the LOLA DTM, to which they are tied (DTMs and mosaics) or on which they are projected (mosaics). The expected vertical precision of the stereo DTM is ~20 cm. The products will soon be publically available via the LMMP portal and also via the USGS planetary GIS site, http://webgis.wr.usgs.gov/. Final versions tied to the LOLA nominal mission global DTM will be available in 2011 October. Preliminary analyses of these

  17. Mapping Sub-Antarctic Cushion Plants Using Random Forests to Combine Very High Resolution Satellite Imagery and Terrain Modelling

    PubMed Central

    Bricher, Phillippa K.; Lucieer, Arko; Shaw, Justine; Terauds, Aleks; Bergstrom, Dana M.

    2013-01-01

    Monitoring changes in the distribution and density of plant species often requires accurate and high-resolution baseline maps of those species. Detecting such change at the landscape scale is often problematic, particularly in remote areas. We examine a new technique to improve accuracy and objectivity in mapping vegetation, combining species distribution modelling and satellite image classification on a remote sub-Antarctic island. In this study, we combine spectral data from very high resolution WorldView-2 satellite imagery and terrain variables from a high resolution digital elevation model to improve mapping accuracy, in both pixel- and object-based classifications. Random forest classification was used to explore the effectiveness of these approaches on mapping the distribution of the critically endangered cushion plant Azorellamacquariensis Orchard (Apiaceae) on sub-Antarctic Macquarie Island. Both pixel- and object-based classifications of the distribution of Azorella achieved very high overall validation accuracies (91.6–96.3%, κ = 0.849–0.924). Both two-class and three-class classifications were able to accurately and consistently identify the areas where Azorella was absent, indicating that these maps provide a suitable baseline for monitoring expected change in the distribution of the cushion plants. Detecting such change is critical given the threats this species is currently facing under altering environmental conditions. The method presented here has applications to monitoring a range of species, particularly in remote and isolated environments. PMID:23940805

  18. High-resolution mapping of dust via extinction in the M31 bulge

    NASA Astrophysics Data System (ADS)

    Dong, Hui; Li, Zhiyuan; Wang, Q. D.; Lauer, Tod R.; Olsen, Knut A. G.; Saha, Abhijit; Dalcanton, Julianne J.; Groves, Brent A.

    2016-06-01

    We map the dust distribution in the central 180 arcsec (˜680 pc) region of the M31 bulge, based on HST WFC3 and ACS observations in ten bands from near-ultraviolet (2700 Å) to near-infrared (1.5 μm). This large wavelength coverage gives us great leverage to detect not only dense dusty clumps, but also diffuse dusty molecular gas. We fit a pixel-by-pixel spectral energy distributions to construct a high-dynamic-range extinction map with unparalleled angular resolution (˜0.5 arcsec, i.e. ˜2 pc) and sensitivity (the extinction uncertainty, δAV ˜ 0.05). In particular, the data allow to directly fit the fractions of starlight obscured by individual dusty clumps, and hence their radial distances in the bulge. Most of these clumps seem to be located in a thin plane, which is tilted with respect to the M31 disc and appears face-on. We convert the extinction map into a dust mass surface density map and compare it with that derived from the dust emission as observed by Herschel. The dust masses in these two maps are consistent with each other, except in the low-extinction regions, where the mass inferred from the extinction tends to be underestimated. Further, we use simulations to show that our method can be used to measure the masses of dusty clumps in Virgo cluster early-type galaxies to an accuracy within a factor of ˜2.

  19. Using High Resolution Aeromagnetic Data to Map Pervasive Folding in the Lithologically Indistinct Franciscan Coastal Belt

    NASA Astrophysics Data System (ADS)

    Phelps, G. A.; McLaughlin, R. J.; Jachens, R. C.; Wentworth, C. M.

    2008-12-01

    We use high-resolution aeromagnetic data to map magnetic bodies of graywacke of limited exposure that are either interbedded or structurally emplaced within broader areas of non-magnetic graywacke within the Franciscan Complex Coastal belt in northern California, which is bounded by the San Andreas Fault on the west and the Franciscan Complex Central belt on the south and east. Previous work has not extensively subdivided the Coastal belt because of the poor exposure and the fact that the exposed lithology is primarily graywacke indistinguishable in outcrop and hand sample and is thus difficult to map in the field. A hand-held magnetic susceptibility meter, however, in combination with thin-section analysis, reveals that some Coastal belt graywackes are magnetic. The thin-section analysis shows that the magnetic samples have a significant component of andesitic grains, whereas the non-magnetic samples do not. Further, the locations of these magnetic rocks correspond to elongate regions of high magnetic intensity (magnetic anomalies) kilometers to tens of kilometers in length. Previous 2D modeling showed that the bodies of magnetic graywacke can be modeled as a folded sheet, with antiformal limbs near or exposed at the surface and synformal limbs reaching a depth of about 1 km. Locations of edges of magnetic source bodies can be extracted from their magnetic anomalies. Near surface, steeply dipping edges lie beneath local maxima in the horizontal gradient of the magnetic potential surface. The edges are demarcated by locating discrete points along the local maxima. We connected these points, using an algorithm with a specific set of parameters, to delineate the edges of the magnetic graywacke bodies. Together with the previous 2D modeling, the anomalies and their edges show that the Coastal belt contains antiformal structures 5 to 20 km in length and 1.5 km in width, with a wavelength approximately 1.5 km. The modal direction of elongation is oriented approximately

  20. VERITAS: A Mission Concept for the High Resolution Topographic Mapping and Imaging of Venus

    NASA Astrophysics Data System (ADS)

    Hensley, S.; Smrekar, S. E.; Pollard, B.

    2012-12-01

    Magellan, a NASA mission to Venus in the early 1990's, mapped nearly the entire surface of Venus with an S-band (12 cm) synthetic aperture radar and microwave radiometer and made radar altimeter measurements of the topography. These measurements revolutionized our understanding of the geomorphology, geology and geophysical processes that have shaped the evolution of the surface of Venus. The Magellan spacecraft had an elliptical orbit with an apoapsis of approximately 8000 km and a periapsis of 257 km and an orbital inclination of 86°. In this way the radar was able to collect long strips of data approximately 10000 km in length running north to south with altitudes varying from 3000 km to 257 km. During the remainder of the orbit the collected data was down linked to earth. The SAR mode operated in burst mode fashion whereby it transmitted a small string of pulses up to a couple of hundred pulses in length followed by a quiescent period when the radar ceased transmission and allowed interleaved operation of the altimeter and radiometer modes. This mode of operation allowed for a significant reduction in downlinked SAR imaging data at the expense of azimuth (i.e. along-track) resolution. However, the lack of finer resolution imagery and topography of the surface than that obtained by the Magellan mission has hampered the definitive answer to key questions concerning the processes and evolution of the surface of Venus. The Venus Emissivity, Radio Science, InSAR Topography And Spectroscopy (VERITAS) Mission is a proposed mission to Venus designed to obtain high resolution imagery and topography of the surface using an X-band radar configured as a single pass radar interferometer coupled with a multispectral NIR emissivity mapping capability. VERITAS would map surface topography with a spatial resolution of 250 m and 5 m vertical accuracy and generate radar imagery with 30 m spatial resolution. These capabilities represent an order of magnitude or better improvement

  1. Comparison of High Resolution Topographic Data Sources (SAR, IfSAR, and LiDAR) for Storm Surge Hazard Maps

    NASA Astrophysics Data System (ADS)

    Suarez, J. K. B.; Santiago, J. T.; Muldong, T. M. M.; Lagmay, A. M. A.; Caro, C. V.; Ramos, M.

    2014-12-01

    As an archipelagic country, the Philippines has experienced multiple storm surge threats. Moreover, the country's location, adjacent to the Pacific Ocean, results in an average of eight to nine typhoons that make landfall in a year. Storm surge hazard maps require high resolution topographic data to illustrate water inflow in the event of storm surges in vulnerable coastal areas and for accurate boundaries and coastline. Furthermore, potential hazard areas tend to be generalized in lower resolution data. The objective of this research is to compare three sources where accurate and quality storm surge hazard maps will draw bases from. For this purpose, the researcher used and compared SAR, IfSAR and LiDAR. The study involved comparing maps from different topographic data sources in Tacloban, in the province of Leyte. This area was one of the most heavily stricken areas during typhoon Haiyan where more than 6,000 people died and P34.37 billion worth of property was destroyed. In the comparison of the three sources, the following had be taken into consideration: cost of acquiring data, processing time, purpose, and the results. The research learned the following: Synthetic Aperture Radar or SAR produces data with a 30 meter resolution, while Interferometric Synthetic Aperture Radar (IfSAR) offers a resolution of 5 meters. Light Detection and Ranging (LiDAR) has the highest resolution of the three with 1 meter. In addition, higher costs are paid for more detailed topographic data. Also, processing time takes longer for finer details due to the memory of the computer units used for modelling. The sources were also evaluated on the necessity of the scale at which the maps are needed for specific purposes such as practicality and direct disaster response. Results from the maps have been validated through interviews with the locals on the experience of actual storm surges. Through this study, the researcher concluded that although LiDAR can offer a more detailed and

  2. Mapping human brain capillary water lifetime: high-resolution metabolic neuroimaging.

    PubMed

    Rooney, William D; Li, Xin; Sammi, Manoj K; Bourdette, Dennis N; Neuwelt, Edward A; Springer, Charles S

    2015-06-01

    Shutter-speed analysis of dynamic-contrast-agent (CA)-enhanced normal, multiple sclerosis (MS), and glioblastoma (GBM) human brain data gives the mean capillary water molecule lifetime (τ(b)) and blood volume fraction (v(b); capillary density-volume product (ρ(†)V)) in a high-resolution (1)H2O MRI voxel (40 μL) or ROI. The equilibrium water extravasation rate constant, k(po) (τ(b)(-1)), averages 3.2 and 2.9 s(-1) in resting-state normal white matter (NWM) and gray matter (NGM), respectively (n = 6). The results (italicized) lead to three major conclusions. (A) k(po) differences are dominated by capillary water permeability (P(W)(†)), not size, differences. NWM and NGM voxel k(po) and v(b) values are independent. Quantitative analyses of concomitant population-averaged k(po), v(b) variations in normal and normal-appearing MS brain ROIs confirm P(W)(†) dominance. (B) P(W)(†) is dominated (>95%) by a trans(endothelial)cellular pathway, not the P(CA)(†) paracellular route. In MS lesions and GBM tumors, P(CA)(†) increases but P(W)(†) decreases. (C) k(po) tracks steady-state ATP production/consumption flux per capillary. In normal, MS, and GBM brain, regional k(po) correlates with literature MRSI ATP (positively) and Na(+) (negatively) tissue concentrations. This suggests that the P(W)(†) pathway is metabolically active. Excellent agreement of the relative NGM/NWM k(po)v(b) product ratio with the literature (31)PMRSI-MT CMR(oxphos) ratio confirms the flux property. We have previously shown that the cellular water molecule efflux rate constant (k(io)) is proportional to plasma membrane P-type ATPase turnover, likely due to active trans-membrane water cycling. With synaptic proximities and synergistic metabolic cooperativities, polar brain endothelial, neuroglial, and neuronal cells form "gliovascular units." We hypothesize that a chain of water cycling processes transmits brain metabolic activity to k(po), letting it report neurogliovascular unit Na

  3. Application of high resolution aeromagnetic data for basement topography mapping of Siluko and environs, southwestern Nigeria

    NASA Astrophysics Data System (ADS)

    Osinowo, Olawale O.; Akanji, Adesoji O.; Olayinka, Abel I.

    2014-11-01

    The discovery of hydrocarbon in commercial quantity in the Niger Delta, southern Nigeria, has since the early fifties shifted the attention of exploration/active geological studies from the Dahomey basin and the adjacent basement terrain in south-western Nigeria towards the south and this has left some gaps in information required for the discovery and exploitation of the economic potential of the region. This study mapped the Siluko transition zone in south-western Nigeria in terms of structures, geometry and basement topography with the object of providing requisite geological information that will engender interest in the exploration and exploitation of the numerous economic potentials of south-western part of Nigeria. Acquired high resolution aeromagnetic data were filtered, processed and enhanced, the resultant data were subjected to qualitative and quantitative magnetic interpretation, depth weighting analyses and modelling to generate the subsurface basement topography across the study area. The obtained results indicate regions of high and low magnetic anomalies with residual magnetic intensity values ranging from -100.8 nT to 100.9 nT. Euler Deconvolution indicates generally undulating basement topography with depth range of 125-1812 m. The basement relief is generally gentle and flat lying within the basement terrain with depth ranging from 125 to 500 m. However the sedimentary terrain is undulating and generally steeps south, down the basin with depth range of 300-1812 m. A basement topography model of the magnetic data constrained by Euler solutions correlate positively with the geology of the study area and indicates a generally increasing sedimentary deposits' thickness southward toward the western part of Dahomey basin. The revealed basement topography and structures as well as the delineated direction of continuous increase in thickness of sedimentary deposit provide insight to the controlling factor responsible for tar sand deposit and bitumen

  4. Mapping Human Brain Capillary Water Lifetime: High-Resolution Metabolic Neuromaging

    PubMed Central

    Rooney, William D.; Li, Xin; Sammi, Manoj K.; Bourdette, Dennis N.; Neuwelt, Edward A.; Springer, Charles S.

    2016-01-01

    Shutter-speed analysis of Dynamic-Contrast-Agent-(CA)-Enhanced normal, multiple sclerosis [MS], and glioblastoma [GBM] human brain data gives the mean capillary water molecule lifetime [τb] and blood volume fraction [vb; capillary density·volume product (′†·V)] in a high-resolution 1H2O MRI voxel [40 μL] or ROI. The equilibrium water extravasation rate constant, kpo [τb−1], averages 3.2 and 2.9 s−1 in resting-state normal white matter [NWM] and gray matter [NGM], respectively [n = 6]. The results {parenthesized} lead to three major conclusions. A) kpo differences are dominated by capillary water permeability [PW†], not size, differences. {NWM and NGM voxel kpo and vb values are independent. Quantitative analyses of concomitant population-averaged kpo,vb variations in normal and normal-appearing MS brain ROIs confirm PW† dominance.} B) PW† is dominated [> 95%] by a trans[endothelial]cellular pathway, not the PCA† para-cellular route. {In MS lesions and GBM tumors, PCA† increases but PW† decreases.} C) kpo tracks steady-state ATP production/consumption flux per capillary. {In normal, MS, and GBM brain, regional kpo correlates with literature MRSI ATP [positively] and Na+ [negatively] tissue concentrations. These suggest the PW† pathway is metabolically active. Excellent agreement of the relative NGM/NWM kpo·vb product ratio with the literature 31PMRSI-MT CMRoxphos ratio confirms the flux property.} We have previously shown the cellular water molecule efflux rate constant [kio] is proportional to plasma membrane P-type ATPase turnover, likely due to active trans-membrane water cycling. With synaptic proximities and synergistic metabolic co-operativities, polar brain endothelial, neuroglial, and neuronal cells form “gliovascular units.” We hypothesize a chain of water cycling processes transmits brain metabolic activity to kpo, letting it report neurogliovascular unit Na+,K+-ATPase activity. Cerebral kpo maps represent metabolic

  5. High resolution mapping of Normalized Difference Vegetation Indices (NDVI) of biological soil crusts

    NASA Astrophysics Data System (ADS)

    Fischer, T.; Veste, M.; Eisele, A.; Bens, O.; Spyra, W.; Hüttl, R. F.

    2012-04-01

    Normalized Difference Vegetation Indices (NDVI) are typically determined using satellite or airborne remote sensing, or field portable spectrometers, which give an averaged signal on centimetre to meter scale plots. Biological soil crust (BSC) patches may have smaller sizes, and ecophysiological, hydrological as well as pedological processes may be heterogeneously distributed within this level of resolution. A ground-based NDVI imaging procedure using low-cost equipment (Olympus Camedia 5000z digital camera equipped with a Hoya R72 infrared filter) was developed in this study to fill this gap at the level of field research, where carrying costly and bulky equipment to remote locations is often the limiting factor for data collection. A commercially available colour rendition chart (GretagMacbeth ColorChecker®) with known red (600-700 nm) and NIR (800-900 nm) reflectances was placed into each scene and used for calibration purposes on a per-image basis. Generation of NDVI images involved (i) determination of red and NIR reflectances from the pixel values of the red and NIR channels, respectively, and (ii) calculation and imaging of the NDVI, where NDVI values of -1 to +1 were mapped to grey values of 0 to 255. The correlation between NDVI values retrieved from these images and NDVI values determined using conventional field spectrometry (ASD FieldSpec 3 portable spectroradiometer) was close (r2 =0.91), the 95% confidence interval amounted to 0.10 NDVI units. The pixel resolution was 0.8 mm in the field and 0.2 mm in the laboratory, but can still be improved significantly with closer distance to the crust or with higher camera resolution. Geostatistical analysis revealed that both spatial variability as well as size of individual objects characterized by the NDVI increased with crust development. The latter never exceeded 4 mm in the investigated crusts, which points to the necessity of high resolution imaging for linking remote sensing with ecophysiology

  6. Mapping human brain capillary water lifetime: high-resolution metabolic neuroimaging.

    PubMed

    Rooney, William D; Li, Xin; Sammi, Manoj K; Bourdette, Dennis N; Neuwelt, Edward A; Springer, Charles S

    2015-06-01

    Shutter-speed analysis of dynamic-contrast-agent (CA)-enhanced normal, multiple sclerosis (MS), and glioblastoma (GBM) human brain data gives the mean capillary water molecule lifetime (τ(b)) and blood volume fraction (v(b); capillary density-volume product (ρ(†)V)) in a high-resolution (1)H2O MRI voxel (40 μL) or ROI. The equilibrium water extravasation rate constant, k(po) (τ(b)(-1)), averages 3.2 and 2.9 s(-1) in resting-state normal white matter (NWM) and gray matter (NGM), respectively (n = 6). The results (italicized) lead to three major conclusions. (A) k(po) differences are dominated by capillary water permeability (P(W)(†)), not size, differences. NWM and NGM voxel k(po) and v(b) values are independent. Quantitative analyses of concomitant population-averaged k(po), v(b) variations in normal and normal-appearing MS brain ROIs confirm P(W)(†) dominance. (B) P(W)(†) is dominated (>95%) by a trans(endothelial)cellular pathway, not the P(CA)(†) paracellular route. In MS lesions and GBM tumors, P(CA)(†) increases but P(W)(†) decreases. (C) k(po) tracks steady-state ATP production/consumption flux per capillary. In normal, MS, and GBM brain, regional k(po) correlates with literature MRSI ATP (positively) and Na(+) (negatively) tissue concentrations. This suggests that the P(W)(†) pathway is metabolically active. Excellent agreement of the relative NGM/NWM k(po)v(b) product ratio with the literature (31)PMRSI-MT CMR(oxphos) ratio confirms the flux property. We have previously shown that the cellular water molecule efflux rate constant (k(io)) is proportional to plasma membrane P-type ATPase turnover, likely due to active trans-membrane water cycling. With synaptic proximities and synergistic metabolic cooperativities, polar brain endothelial, neuroglial, and neuronal cells form "gliovascular units." We hypothesize that a chain of water cycling processes transmits brain metabolic activity to k(po), letting it report neurogliovascular unit Na

  7. High-Resolution Sequence-Function Mapping of Full-Length Proteins

    PubMed Central

    Kowalsky, Caitlin A.; Klesmith, Justin R.; Stapleton, James A.; Kelly, Vince; Reichkitzer, Nolan; Whitehead, Timothy A.

    2015-01-01

    Comprehensive sequence-function mapping involves detailing the fitness contribution of every possible single mutation to a gene by comparing the abundance of each library variant before and after selection for the phenotype of interest. Deep sequencing of library DNA allows frequency reconstruction for tens of thousands of variants in a single experiment, yet short read lengths of current sequencers makes it challenging to probe genes encoding full-length proteins. Here we extend the scope of sequence-function maps to entire protein sequences with a modular, universal sequence tiling method. We demonstrate the approach with both growth-based selections and FACS screening, offer parameters and best practices that simplify design of experiments, and present analytical solutions to normalize data across independent selections. Using this protocol, sequence-function maps covering full sequences can be obtained in four to six weeks. Best practices introduced in this manuscript are fully compatible with, and complementary to, other recently published sequence-function mapping protocols. PMID:25790064

  8. Global High Resolution Mapping and Assimilation of Soil Moisture Observations for the SMAP Radar and Radiometer

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The Soil Moisture Active and Passive (SMAP) mission is being developed by NASA for launch in 2015. The primary science objectives of SMAP are to enhance understanding of land surface controls on the water, energy and carbon cycles, and to determine their linkages. Moreover, SMAP high-resolution so...

  9. Mapping evapotranspiration with high resolution aircraft imagery over vineyards using one and two source modeling schemes

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Thermal and multispectral remote sensing data from low-altitude aircraft can provide high spatial resolution necessary for sub-field (= 10 m) and plant canopy (= 1 m) scale evapotranspiration (ET) monitoring. In this study, high resolution aircraft sub-meter scale thermal infrared and multispectral...

  10. Mapping of an ophiolite complex by high-resolution visible-infrared spectrometry

    NASA Astrophysics Data System (ADS)

    Combe, Jean-Philippe; Launeau, Patrick; Pinet, Patrick; Despan, Daniela; Harris, Esther; Ceuleneer, Georges; Sotin, Christophe

    2006-08-01

    The Sumail massif of the Oman peridotite has been surveyed by the high spectral resolution imager HyMap. The field measurements have been taken simultaneously to the HyMap campaign with a GER 3700 spectrometer. To compare the two data sets, further calibration and atmospheric correction are made through empirical line corrections. A continuum removal by a modified Gaussian model on reflectance is then performed for each pixel to minimize atmospheric scattering and shadowing effects. Classification from spectral distance is established using field observations and comparisons at full spectral resolution to identify peridotite subunits (harzburgites and dunites) and to distinguish plagioclase-wehrlites from gabbros. Detections of hydrothermal transformations of olivine in serpentines and their alteration in carbonates along fracture networks, characterized by narrow spectral signatures, validate the classification. This demonstrates the utility of the high spectral resolution and the development of appropriate processing methods for geological identifications.

  11. Gaussian Multiple Instance Learning Approach for Mapping the Slums of the World Using Very High Resolution Imagery

    SciTech Connect

    Vatsavai, Raju

    2013-01-01

    In this paper, we present a computationally efficient algo- rithm based on multiple instance learning for mapping infor- mal settlements (slums) using very high-resolution remote sensing imagery. From remote sensing perspective, infor- mal settlements share unique spatial characteristics that dis- tinguish them from other urban structures like industrial, commercial, and formal residential settlements. However, regular pattern recognition and machine learning methods, which are predominantly single-instance or per-pixel classi- fiers, often fail to accurately map the informal settlements as they do not capture the complex spatial patterns. To overcome these limitations we employed a multiple instance based machine learning approach, where groups of contigu- ous pixels (image patches) are modeled as generated by a Gaussian distribution. We have conducted several experi- ments on very high-resolution satellite imagery, represent- ing four unique geographic regions across the world. Our method showed consistent improvement in accurately iden- tifying informal settlements.

  12. Expert system designed to assist in the interpretation and evaluation of thoracic surface maps produced by high-resolution electrocardiography

    SciTech Connect

    Johnson, J.K.

    1988-01-01

    An expert system is an artificial intelligence program that relies on a knowledge base composed of information derived from an expert and is designed to perform a difficult task. The system is usually domain specific and provides an interactive consultation with the user in problem solving. High-resolution electrocardiography is a technique for acquiring information about the heart's electrical activity with the use of multilead electrodes. Thoracic surface maps are presented at precise intervals during the depolarization/repolarization stages of a heartbeat. Cardiologists have determined methods for relating the thoracic maps to the actual tissue condition of the heart giving a basis for diagnoses. This work shows the anatomy of the heart, techniques for measuring that activity, and in detail, the techniques used with High Resolution Electrocardiography. The field of artificial intelligence is explored with an emphasis on expert systems. An expert system developed to diagnose the HRE record is presented.

  13. A New Method for High-Resolution Apparent Thermal Inertia Mapping of Mars: Application to Valles Marineris

    NASA Astrophysics Data System (ADS)

    Kubiak, M.; Mège, D.; Gurgurewicz, J.; Ciążela, J.

    2014-12-01

    The minerals absorb and reflect thermal infrared (TIR) light of the different wavelengths depending on their composition and structure. Thus, every rock absorbs and reflects different wavelengths in TIR and has its own spectral signature. The TIR images are used in the thermal inertia mapping and in its approximation called apparent thermal inertia (ATI). We present the methodology and the high-resolution apparent thermal inertia maps for selected parts of Valles Marineris (Mars). ATI was calculated from surface albedo (A) and diurnal temperature difference (∆T) following the equation: ATI = (1 - A) / ∆T. Albedo was computed by dividing reflected radiation (IR) by incident radiation (II): A = IR / II. After introducing: II = F • cosIA, where F stands for solar constant and IA for incident angle (°), it develops to: A = IR / (F • cosIA). This formula allows us to calculate A on a horizontal surface. Calculating A on an inclined surface requires corrections of IA against relief characteristics (slopes, aspects): IAC = (IA - arctan(tans • cos(e + t • 15° - 180°))), where s is slope (°), e - aspect (°) and t - local solar time (h). A correction was made also for ∆T. The calibration process was more complex because it involved changes in incident radiation (II) over a given time interval (∆T = T13:00 - T6:00). II is a function of: Martian tilt, eccentricity, perihelium longitude, solar longitude (Ls, in °), latitude (φ, in °), local solar time and relief characteristics. Total II, integrated over the time interval, can be calculated following the equation [1]. The results were compared to the existing thermal inertia maps of Mars.

  14. Magellan radar image compared to high resolution Earth-based image of Venus

    NASA Technical Reports Server (NTRS)

    1990-01-01

    A strip of a Magellan radar image (left) is compared to a high resolution Earth-based radar image of Venus, obtained by the U.S. National Astronomy and Ionosphere Center's Arecibo Observatory in Puerto Rico. The small white box in the Arecibo image corresponds to the Magellan image. This portion of the Magellan imagery shows a small region on the east flank of a major volcanic upland called Beta Regio. The image is centered at 23 degrees north latitude and 286.7 degrees east longitude. The ridge and valley network in the middle part of the image is formed by intersecting faults which have broken the Venusian crust into a complex deformed type of surface called tessera, the Latin word for tile. The parallel mountains and valleys resemble the Basin and Range Province in the western United States. The irregular dark patch near the top of the image is a smooth surface, probably formed, according to scientists, by lava flows in a region about 10 kilometers (6 miles) across. Similar dark sur

  15. Mapping the electrostatic force field of single molecules from high-resolution scanning probe images

    PubMed Central

    Hapala, Prokop; Švec, Martin; Stetsovych, Oleksandr; van der Heijden, Nadine J.; Ondráček, Martin; van der Lit, Joost; Mutombo, Pingo; Swart, Ingmar; Jelínek, Pavel

    2016-01-01

    How electronic charge is distributed over a molecule determines to a large extent its chemical properties. Here, we demonstrate how the electrostatic force field, originating from the inhomogeneous charge distribution in a molecule, can be measured with submolecular resolution. We exploit the fact that distortions typically observed in high-resolution atomic force microscopy images are for a significant part caused by the electrostatic force acting between charges of the tip and the molecule of interest. By finding a geometrical transformation between two high-resolution AFM images acquired with two different tips, the electrostatic force field or potential over individual molecules and self-assemblies thereof can be reconstructed with submolecular resolution. PMID:27230940

  16. Mapping trees outside forests using high-resolution aerial imagery: a comparison of pixel- and object-based classification approaches.

    PubMed

    Meneguzzo, Dacia M; Liknes, Greg C; Nelson, Mark D

    2013-08-01

    Discrete trees and small groups of trees in nonforest settings are considered an essential resource around the world and are collectively referred to as trees outside forests (ToF). ToF provide important functions across the landscape, such as protecting soil and water resources, providing wildlife habitat, and improving farmstead energy efficiency and aesthetics. Despite the significance of ToF, forest and other natural resource inventory programs and geospatial land cover datasets that are available at a national scale do not include comprehensive information regarding ToF in the United States. Additional ground-based data collection and acquisition of specialized imagery to inventory these resources are expensive alternatives. As a potential solution, we identified two remote sensing-based approaches that use free high-resolution aerial imagery from the National Agriculture Imagery Program (NAIP) to map all tree cover in an agriculturally dominant landscape. We compared the results obtained using an unsupervised per-pixel classifier (independent component analysis-[ICA]) and an object-based image analysis (OBIA) procedure in Steele County, Minnesota, USA. Three types of accuracy assessments were used to evaluate how each method performed in terms of: (1) producing a county-level estimate of total tree-covered area, (2) correctly locating tree cover on the ground, and (3) how tree cover patch metrics computed from the classified outputs compared to those delineated by a human photo interpreter. Both approaches were found to be viable for mapping tree cover over a broad spatial extent and could serve to supplement ground-based inventory data. The ICA approach produced an estimate of total tree cover more similar to the photo-interpreted result, but the output from the OBIA method was more realistic in terms of describing the actual observed spatial pattern of tree cover.

  17. Mapping trees outside forests using high-resolution aerial imagery: a comparison of pixel- and object-based classification approaches.

    PubMed

    Meneguzzo, Dacia M; Liknes, Greg C; Nelson, Mark D

    2013-08-01

    Discrete trees and small groups of trees in nonforest settings are considered an essential resource around the world and are collectively referred to as trees outside forests (ToF). ToF provide important functions across the landscape, such as protecting soil and water resources, providing wildlife habitat, and improving farmstead energy efficiency and aesthetics. Despite the significance of ToF, forest and other natural resource inventory programs and geospatial land cover datasets that are available at a national scale do not include comprehensive information regarding ToF in the United States. Additional ground-based data collection and acquisition of specialized imagery to inventory these resources are expensive alternatives. As a potential solution, we identified two remote sensing-based approaches that use free high-resolution aerial imagery from the National Agriculture Imagery Program (NAIP) to map all tree cover in an agriculturally dominant landscape. We compared the results obtained using an unsupervised per-pixel classifier (independent component analysis-[ICA]) and an object-based image analysis (OBIA) procedure in Steele County, Minnesota, USA. Three types of accuracy assessments were used to evaluate how each method performed in terms of: (1) producing a county-level estimate of total tree-covered area, (2) correctly locating tree cover on the ground, and (3) how tree cover patch metrics computed from the classified outputs compared to those delineated by a human photo interpreter. Both approaches were found to be viable for mapping tree cover over a broad spatial extent and could serve to supplement ground-based inventory data. The ICA approach produced an estimate of total tree cover more similar to the photo-interpreted result, but the output from the OBIA method was more realistic in terms of describing the actual observed spatial pattern of tree cover. PMID:23255169

  18. High-resolution NO2 maps of Rotterdam and Zürich retrieved from the APEX imaging spectrometer

    NASA Astrophysics Data System (ADS)

    Kuhlmann, Gerrit; Hueni, Andreas; Brunner, Dominik

    2016-04-01

    In urban areas, nitrogen dioxide (NO_2) concentrations have high spatial and temporal variability making high-resolution NO2 maps an important tool for air pollution assessment and epidemiological studies. We retrieved high-resolution NO2 maps from the Airborne Prism Experiment (APEX) imaging spectrometer measured over Zürich on 30. August 2013 (11:24--12:05 UTC) and Rotterdam on 17. September 2014 (8:53--10:18 UTC). Our updated retrieval fits NO_2, O_3, O_4, H_2O and the Ring effect between 440 and 510 nm using Differential Optical Absorption Spectroscopy (DOAS). The radiance spectra were spectrally calibrated using a high-resolution solar reference spectrum to correct spectral shifts in across- and along-track direction. Air mass factors were computed using the SCIATRAN radiative transfer model. The retrieved NO2 maps have 50×50m2 resolution and cover an area of 10×26 km2 for Zürich and 10×50 km2 for Rotterdam. The maps show enhanced NO2 values in populated areas and at least three strong plumes from oil refineries in Rotterdam. A comparison with ground measurements in Rotterdam shows only weak correlation, because most of the NO2 is found in elevated plumes. In conclusion, airborne observations allow mapping of the NO2 distribution in urban areas providing a different perspective on urban air quality which cannot be acquired by ground-based observations. The obtained maps will be used for further analysis such as estimating NOX emissions from oil refineries and comparison with urban-scale chemistry transport modelling.

  19. Mapping cold seeps with high-resolution deep water multibeam echosounders in the Black Sea

    NASA Astrophysics Data System (ADS)

    Wintersteller, P.; dos Santos Ferreira, C.; Klaucke, I.; Ivanov, M.; Sahling, H.; Bohrmann, G.

    2011-12-01

    Cold seeps are locations at the seafloor where gas and/or fluids are emitting. In contrast to mud volcanoes, which distinctly change the seafloor morphology, cold seeps often lack significant relief. However, in comparison with surrounding sediments seep locations on the sea floor are often characterized by high acoustic backscatter intensity. This was documented during several investigations with deep towed side-scan sonar (SSS) systems in recent years. Authigenic carbonates, free gas and gas hydrates, as evidenced by ground truthing, are responsible for the high backscatter values. Last year's upgrade of the 1°x2° KONGSBERG deep water echosounder EM120 to EM122 on RV Meteor enhanced the system to almost 4 times the previous resolution due to multi-ping and high density signal processing. Based on the physics of sound propagation in the water column, multibeam echosounders (MBES) for deep water use relatively low frequencies of about 12-15 kHz. Apparently highly water-saturated sediments are penetrated by these signals and can cause artificial offsets in bottom detection in comparison to high-frequency echosounders. Nevertheless the effect of the slightly penetrating signal has a useful side effect on the backscatter. Investigations on several seep sites in the Black Sea, carried out with both EM122 and EM710 during Meteror cruise M84-2, resulted in maps of remarkable bathymetric resolution but also showed multibeam backscatter information of a 12 kHz signal to be an excellent tool to map seep-influenced seafloor areas. New seep locations have been mapped in regions of the western Turkish continental margin close to Eregli and of the eastern Turkish margin off Samsun. In both areas high backscatter patches were mapped with nearly comparable resolution as achieved by deep-tow SSS systems. At Eregli the new data is compared with data from a deep-towed EdgeTech SSS system recorded with a frequency of 75 kHz. At Samsun the results are compared with data from a MAK-1

  20. Correlation between high-resolution remote-sensing imagery and detailed field mapping in Cordilleran Miogeocline

    SciTech Connect

    Feldman, S.C.; Taranik, J.V.

    1986-05-01

    Selected areas were mapped at a scale of 1:6000 in the southern hot Creek Range (south-central Nevada), which is underlain by Paleozoic autochthonous limestone, shale, and sandstone, Paleozoic allochthonous chert and siltstone, and Tertiary rhyolitic to dactitic ash flow tuff. The mapping was compared with computer-processed Airborne Imaging Spectrometer (AIS) data and Landsat Thematic Mapper (TM) imagery. The AIS imagery of the Hot Creek Range was acquired in 1984 by a NASA C-130 aircraft; it has a spatial resolution of 12 m, and swath width of 380 m. The sensor was developed by the Jet Propulsion Laboratory and is the first in a series of NASA imaging spectrometers. The AIS collects 128 spectral bands, having a bandwidth of approximately 9 nm, in the short-wave infrared between 1.2 and 2.4 ..mu..m. This part of the spectrum contains important narrow spectral absorption features for the carbonate ion, hydroxyl ion, and water of hydration. Using computer-processed AIS imagery, therefore, the authors can separate calcite from dolomite, and kaolinite from illite and montmorillonite as well as differentiate geologic units containing these minerals. On the AIS imagery, the Upper Mississippian Tripon Pass Limestone shows a distinctive calcite absorption feature at 2.34 ..mu..m; this feature is not as pronounced in Cambrian and Ordovician limestones. The dolomitized Nevada Formation exhibits the dolomite absorption feature at 2.32 ..mu..m. Clay mineral absorption features near 2.2 ..mu..m can be distinguished in altered volcanics. Mineralogic identification was confirmed with field and laboratory spectroradiometer measurements, thin-section examination, and x-ray analysis. AIS results and field mapping were also compared to computer-processed Landsat TM imagery, the highest spectral and spatial resolution worldwide data set currently available.

  1. Thick-lens velocity-map imaging spectrometer with high resolution for high-energy charged particles

    NASA Astrophysics Data System (ADS)

    Kling, N. G.; Paul, D.; Gura, A.; Laurent, G.; De, S.; Li, H.; Wang, Z.; Ahn, B.; Kim, C. H.; Kim, T. K.; Litvinyuk, I. V.; Cocke, C. L.; Ben-Itzhak, I.; Kim, D.; Kling, M. F.

    2014-05-01

    A novel design for a velocity-map imaging (VMI) spectrometer with high resolution over a wide energy range surpassing a standard VMI design is reported. The main difference to a standard three-electrode VMI is the spatial extension of the applied field using 11 electrodes forming a thick-lens. This permits measurements of charged particles with higher energies while achieving excellent resolving power over a wide range of energies. Using SIMION simulations, the thick-lens VMI is compared to a standard design for up to 360 eV electrons. The simulations also show that the new spectrometer design is suited for charged-particle detection with up to 1 keV using a repeller-electrode voltage of -30 kV. The experimental performance is tested by laser-induced ionization of rare gases producing electrons up to about 70 eV. The thick-lens VMI is useful for a wide variety of studies on atoms, molecules and nanoparticles in intense laser fields and high-photon-energy fields from high-harmonic-generation or free-electron lasers.

  2. Feasibility of a semi-automated method for cardiac conduction velocity analysis of high-resolution activation maps.

    PubMed

    Doshi, Ashish N; Walton, Richard D; Krul, Sébastien P; de Groot, Joris R; Bernus, Olivier; Efimov, Igor R; Boukens, Bastiaan J; Coronel, Ruben

    2015-10-01

    Myocardial conduction velocity is important for the genesis of arrhythmias. In the normal heart, conduction is primarily dependent on fiber direction (anisotropy) and may be discontinuous at sites with tissue heterogeneities (trabeculated or fibrotic tissue). We present a semi-automated method for the accurate measurement of conduction velocity based on high-resolution activation mapping following central stimulation. The method was applied to activation maps created from myocardium from man, sheep and mouse with anisotropic and discontinuous conduction. Advantages of the presented method over existing methods are discussed.

  3. High resolution mapping of development in the wildland-urban interface using object based image extraction

    USGS Publications Warehouse

    Caggiano, Michael D.; Tinkham, Wade T.; Hoffman, Chad; Cheng, Antony S.; Hawbaker, Todd J.

    2016-01-01

    The wildland-urban interface (WUI), the area where human development encroaches on undeveloped land, is expanding throughout the western United States resulting in increased wildfire risk to homes and communities. Although census based mapping efforts have provided insights into the pattern of development and expansion of the WUI at regional and national scales, these approaches do not provide sufficient detail for fine-scale fire and emergency management planning, which requires maps of individual building locations. Although fine-scale maps of the WUI have been developed, they are often limited in their spatial extent, have unknown accuracies and biases, and are costly to update over time. In this paper we assess a semi-automated Object Based Image Analysis (OBIA) approach that utilizes 4-band multispectral National Aerial Image Program (NAIP) imagery for the detection of individual buildings within the WUI. We evaluate this approach by comparing the accuracy and overall quality of extracted buildings to a building footprint control dataset. In addition, we assessed the effects of buffer distance, topographic conditions, and building characteristics on the accuracy and quality of building extraction. The overall accuracy and quality of our approach was positively related to buffer distance, with accuracies ranging from 50 to 95% for buffer distances from 0 to 100 m. Our results also indicate that building detection was sensitive to building size, with smaller outbuildings (footprints less than 75 m2) having detection rates below 80% and larger residential buildings having detection rates above 90%. These findings demonstrate that this approach can successfully identify buildings in the WUI in diverse landscapes while achieving high accuracies at buffer distances appropriate for most fire management applications while overcoming cost and time constraints associated with traditional approaches. This study is unique in that it evaluates the ability of an OBIA

  4. Can remote high-resolution mapping help individual-based fish population models go up-scale? (Invited)

    NASA Astrophysics Data System (ADS)

    Harvey, B.; Railsback, S.

    2009-12-01

    Spatially explicit, individual-based models of fish populations show great promise for linking physical conditions and processes to population dynamics. The ability to link physical processes and population outcomes is critical for optimizing habitat restoration efforts, forecasting the consequences of climate change, evaluating flow regimes, and other activities necessary to sustain at-risk fish populations. Because individual-based models simulate habitat from the perspective of individual fish, they commonly capture variation in physical habitat on a scale of 1- 50 square meters and rely on simulations (including hydraulic modeling) at the reach scale (0.2 to 1 km). Simulated reaches can be linked in some models such that virtual fish can move among them. The significance of the size, location and arrangement of reaches included in IBM simulations of fish populations has not been investigated in detail. However, the process of reach selection clearly benefits from information on channel physical conditions at the network scale, so that reaches can be selected to well-represent the diversity of habitat at larger spatial scales. High-resolution mapping of channel topography would be a richer source of network-scale information than others used to date, such as habitat typing and simple video. Remote, high-resolution mapping data might also provide a major step forward in the capability of individual-based models to address fish population dynamics at the network scale if the mapping data could be directly used for hydraulic simulations. Challenges for this step include the need to estimate physical habitat variables included in individual-based models that may not be readily discernable from topographic data, such as the availability of cover for fish. Exploring the use of high-resolution mapping data in individual-based modeling of fish populations seems worth doing, in that the individual-based models should be a particularly effective way to derive biological

  5. High resolution mapping and classification of oyster habitats in nearshore Louisiana using sidescan sonar

    USGS Publications Warehouse

    Allen, Y.C.; Wilson, C.A.; Roberts, H.H.; Supan, J.

    2005-01-01

    Sidescan sonar holds great promise as a tool to quantitatively depict the distribution and extent of benthic habitats in Louisiana's turbid estuaries. In this study, we describe an effective protocol for acoustic sampling in this environment. We also compared three methods of classification in detail: mean-based thresholding, supervised, and unsupervised techniques to classify sidescan imagery into categories of mud and shell. Classification results were compared to ground truth results using quadrat and dredge sampling. Supervised classification gave the best overall result (kappa = 75%) when compared to quadrat results. Classification accuracy was less robust when compared to all dredge samples (kappa = 21-56%), but increased greatly (90-100%) when only dredge samples taken from acoustically homogeneous areas were considered. Sidescan sonar when combined with ground truth sampling at an appropriate scale can be effectively used to establish an accurate substrate base map for both research applications and shellfish management. The sidescan imagery presented here also provides, for the first time, a detailed presentation of oyster habitat patchiness and scale in a productive oyster growing area.

  6. Vegetation mapping using high resolution MSS (Multispectral Scanner) data: Canopy reflectance and shadow problems encountered and possible solutions

    SciTech Connect

    Jensen, J.R.; Hodgson, M.E.; Pinder, J.; Collins, B.S.; Mackey, H.E. Jr.

    1988-01-01

    High resolution Multispectral Scanner (MSS) data were acquired for an old field, successional habitat in South Carolina. The instrument used was a Daedalus Model DS-1268 having 1.5 x 1.5 m spatial resolution and 11 spectral bands. The goal was to map the vegetation of the study area and compute standing biomass. Upon examination of the MSS data, it became apparent that additional information would be required to accurately discriminate between the vegetation types because of (1) nonuniformity of canopy reflectance from individual trees due to sun angle and azimuth, and (2) shadows cast by trees. This paper describes the nature of the canopy reflectance problem, methods of removing the effects of shadows in high resolution MSS data, and the computation of biomass for the study area.

  7. A high resolution genetic map anchoring scaffolds of the sequenced watermelon genome

    Technology Transfer Automated Retrieval System (TEKTRAN)

    As part of our ongoing efforts to sequence and map the watermelon (Citrullus spp.) genome, we have constructed a high-density genetic linkage map. The map positioned 234 watermelon genome sequence scaffolds (an average size of 1.41 Mb) that cover about 330 Mb and account for 93.5% of the 353 Mb of ...

  8. High-resolution Optical Mapping of Inflammatory Macrophages Following Endovascular Arterial Injury

    PubMed Central

    Saxena, Amit; Kessinger, Chase W.; Thompson, Brian; McCarthy, Jason R.; Iwamoto, Yoshiko; Lin, Charles P.; Jaffer, Farouc A.

    2013-01-01

    Purpose Inflammation following arterial injury mediates vascular restenosis, a leading cause of cardiovascular morbidity. Here we utilize intravital microscopy (IVM) and a dextran-coated nanosensor to spatially map inflammatory macrophages in vivo following endovascular injury of murine carotid arteries. Procedures C57Bl/6 mice (N=23) underwent endovascular guidewire carotid arterial injury. At day 14 or day 28 post-injury, mice underwent fluorescence IVM, twenty-four hours after injection with the near-infrared fluorescent macrophage nanosensor CLIO-VT680. Adventitial collagen was concomitantly imaged using second harmonic generation (SHG) IVM. Correlative fluorescence microscopy and immunohistochemistry were performed. Results Two-plane IVM reconstructions detected macrophage inflammation in the arterial wall that was elevated at day 14 compared to day 28 animals (p<0.05). SHG-based collagen imaging of the outer arterial wall facilitated analysis of the macrophage-rich, inflamed neointima. Histological analyses and fluorescence microscopy data demonstrated increased macrophage infiltration in day 14 compared to day 28 neointima. Conclusions We demonstrate that the macrophage response to arterial injury can be imaged in vivo using IVM-based molecular imaging, and shows a higher macrophage influx at day 14 compared to day 28 post-injury. PMID:23090852

  9. A fuzzy decision making system for building damage map creation using high resolution satellite imagery

    NASA Astrophysics Data System (ADS)

    Rastiveis, H.; Samadzadegan, F.; Reinartz, P.

    2013-02-01

    Recent studies have shown high resolution satellite imagery to be a powerful data source for post-earthquake damage assessment of buildings. Manual interpretation of these images, while being a reliable method for finding damaged buildings, is a subjective and time-consuming endeavor, rendering it unviable at times of emergency. The present research, proposes a new state-of-the-art method for automatic damage assessment of buildings using high resolution satellite imagery. In this method, at the first step a set of pre-processing algorithms are performed on the images. Then, extracting a candidate building from both pre- and post-event images, the intact roof part after an earthquake is found. Afterwards, by considering the shape and other structural properties of this roof part with its pre-event condition in a fuzzy inference system, the rate of damage for each candidate building is estimated. The results obtained from evaluation of this algorithm using QuickBird images of the December 2003 Bam, Iran, earthquake prove the ability of this method for post-earthquake damage assessment of buildings.

  10. Surface Temperature Mapping of the University of Northern Iowa Campus Using High Resolution Thermal Infrared Aerial Imageries

    PubMed Central

    Savelyev, Alexander; Sugumaran, Ramanathan

    2008-01-01

    The goal of this project was to map the surface temperature of the University of Northern Iowa campus using high-resolution thermal infrared aerial imageries. A thermal camera with a spectral bandwidth of 3.0-5.0 μm was flown at the average altitude of 600 m, achieving ground resolution of 29 cm. Ground control data was used to construct the pixel- to-temperature conversion model, which was later used to produce temperature maps of the entire campus and also for validation of the model. The temperature map then was used to assess the building rooftop conditions and steam line faults in the study area. Assessment of the temperature map revealed a number of building structures that may be subject to insulation improvement due to their high surface temperatures leaks. Several hot spots were also identified on the campus for steam pipelines faults. High-resolution thermal infrared imagery proved highly effective tool for precise heat anomaly detection on the campus, and it can be used by university facility services for effective future maintenance of buildings and grounds.

  11. High-resolution tree canopy mapping for New York City using LIDAR and object-based image analysis

    NASA Astrophysics Data System (ADS)

    MacFaden, Sean W.; O'Neil-Dunne, Jarlath P. M.; Royar, Anna R.; Lu, Jacqueline W. T.; Rundle, Andrew G.

    2012-01-01

    Urban tree canopy is widely believed to have myriad environmental, social, and human-health benefits, but a lack of precise canopy estimates has hindered quantification of these benefits in many municipalities. This problem was addressed for New York City using object-based image analysis (OBIA) to develop a comprehensive land-cover map, including tree canopy to the scale of individual trees. Mapping was performed using a rule-based expert system that relied primarily on high-resolution LIDAR, specifically its capacity for evaluating the height and texture of aboveground features. Multispectral imagery was also used, but shadowing and varying temporal conditions limited its utility. Contextual analysis was a key part of classification, distinguishing trees according to their physical and spectral properties as well as their relationships to adjacent, nonvegetated features. The automated product was extensively reviewed and edited via manual interpretation, and overall per-pixel accuracy of the final map was 96%. Although manual editing had only a marginal effect on accuracy despite requiring a majority of project effort, it maximized aesthetic quality and ensured the capture of small, isolated trees. Converting high-resolution LIDAR and imagery into usable information is a nontrivial exercise, requiring significant processing time and labor, but an expert system-based combination of OBIA and manual review was an effective method for fine-scale canopy mapping in a complex urban environment.

  12. Comparing supervised and unsupervised multiresolution segmentation approaches for extracting buildings from very high resolution imagery.

    PubMed

    Belgiu, Mariana; Dr Guţ, Lucian

    2014-10-01

    Although multiresolution segmentation (MRS) is a powerful technique for dealing with very high resolution imagery, some of the image objects that it generates do not match the geometries of the target objects, which reduces the classification accuracy. MRS can, however, be guided to produce results that approach the desired object geometry using either supervised or unsupervised approaches. Although some studies have suggested that a supervised approach is preferable, there has been no comparative evaluation of these two approaches. Therefore, in this study, we have compared supervised and unsupervised approaches to MRS. One supervised and two unsupervised segmentation methods were tested on three areas using QuickBird and WorldView-2 satellite imagery. The results were assessed using both segmentation evaluation methods and an accuracy assessment of the resulting building classifications. Thus, differences in the geometries of the image objects and in the potential to achieve satisfactory thematic accuracies were evaluated. The two approaches yielded remarkably similar classification results, with overall accuracies ranging from 82% to 86%. The performance of one of the unsupervised methods was unexpectedly similar to that of the supervised method; they identified almost identical scale parameters as being optimal for segmenting buildings, resulting in very similar geometries for the resulting image objects. The second unsupervised method produced very different image objects from the supervised method, but their classification accuracies were still very similar. The latter result was unexpected because, contrary to previously published findings, it suggests a high degree of independence between the segmentation results and classification accuracy. The results of this study have two important implications. The first is that object-based image analysis can be automated without sacrificing classification accuracy, and the second is that the previously accepted idea

  13. Comparing Individual Tree Segmentation Based on High Resolution Multispectral Image and Lidar Data

    NASA Astrophysics Data System (ADS)

    Xiao, P.; Kelly, M.; Guo, Q.

    2014-12-01

    This study compares the use of high-resolution multispectral WorldView images and high density Lidar data for individual tree segmentation. The application focuses on coniferous and deciduous forests in the Sierra Nevada Mountains. The tree objects are obtained in two ways: a hybrid region-merging segmentation method with multispectral images, and a top-down and bottom-up region-growing method with Lidar data. The hybrid region-merging method is used to segment individual tree from multispectral images. It integrates the advantages of global-oriented and local-oriented region-merging strategies into a unified framework. The globally most-similar pair of regions is used to determine the starting point of a growing region. The merging iterations are constrained within the local vicinity, thus the segmentation is accelerated and can reflect the local context. The top-down region-growing method is adopted in coniferous forest to delineate individual tree from Lidar data. It exploits the spacing between the tops of trees to identify and group points into a single tree based on simple rules of proximity and likely tree shape. The bottom-up region-growing method based on the intensity and 3D structure of Lidar data is applied in deciduous forest. It segments tree trunks based on the intensity and topological relationships of the points, and then allocate other points to exact tree crowns according to distance. The accuracies for each method are evaluated with field survey data in several test sites, covering dense and sparse canopy. Three types of segmentation results are produced: true positive represents a correctly segmented individual tree, false negative represents a tree that is not detected and assigned to a nearby tree, and false positive represents that a point or pixel cluster is segmented as a tree that does not in fact exist. They respectively represent correct-, under-, and over-segmentation. Three types of index are compared for segmenting individual tree

  14. Comparing supervised and unsupervised multiresolution segmentation approaches for extracting buildings from very high resolution imagery

    PubMed Central

    Belgiu, Mariana; Drǎguţ, Lucian

    2014-01-01

    Although multiresolution segmentation (MRS) is a powerful technique for dealing with very high resolution imagery, some of the image objects that it generates do not match the geometries of the target objects, which reduces the classification accuracy. MRS can, however, be guided to produce results that approach the desired object geometry using either supervised or unsupervised approaches. Although some studies have suggested that a supervised approach is preferable, there has been no comparative evaluation of these two approaches. Therefore, in this study, we have compared supervised and unsupervised approaches to MRS. One supervised and two unsupervised segmentation methods were tested on three areas using QuickBird and WorldView-2 satellite imagery. The results were assessed using both segmentation evaluation methods and an accuracy assessment of the resulting building classifications. Thus, differences in the geometries of the image objects and in the potential to achieve satisfactory thematic accuracies were evaluated. The two approaches yielded remarkably similar classification results, with overall accuracies ranging from 82% to 86%. The performance of one of the unsupervised methods was unexpectedly similar to that of the supervised method; they identified almost identical scale parameters as being optimal for segmenting buildings, resulting in very similar geometries for the resulting image objects. The second unsupervised method produced very different image objects from the supervised method, but their classification accuracies were still very similar. The latter result was unexpected because, contrary to previously published findings, it suggests a high degree of independence between the segmentation results and classification accuracy. The results of this study have two important implications. The first is that object-based image analysis can be automated without sacrificing classification accuracy, and the second is that the previously accepted idea

  15. High-Resolution Mapping of Lunar Crustal Magnetic Fields: Correlations with Albedo Markings of the Reiner Gamma Class

    NASA Technical Reports Server (NTRS)

    Hood, L. L.; Yingst, A.; Mitchell, D. L.; Lin, R. P.; Acuna, M.; Binder, A.

    1999-01-01

    During the last eight months of the Lunar Prospector mission (December 1999-July 1999), the spacecraft was placed in a relatively low-altitude (15-30-km perapsis), near-polar orbit that allowed high-resolution mapping of crustal magnetic fields. We report here initial studies of the correlation of locally strong magnetic anomalies with unusual, swirl-like albedo markings of the Reiner Gamma class. Based on this correlation, which is known from earlier studies of Apollo subsatellite magnetometer data, it has been proposed that the swirls represent regions whose higher albedos have been preserved via deflection of the solar-wind ion bombardment by strong crustal fields. This model in turn depends on the hypothesis that solar-wind implanted H is at least one component of the process that optically matures exposed silicate surfaces in the inner solar system . Specifically, it is hypothesized that implanted H acts as an effective reducing agent to enhance the rate of production of nanophase metallic Fe particles from preexisting silicates during micrometeoroid impacts. According to the model, the curvilinear shapes of these albedo markings are caused, at least in part, by the geometry of ion deflections in a magnetic field. The improved resolution and coverage of the Prospector data allow more detailed mapping of the fields, especially on the lunar farside. This permits a more quantitative test of whether all albedo markings of this class are associated with strong local magnetic fields.Only if the latter condition is met can the solar-wind deflection hypothesis he valid. The basic procedure for mapping crustal magnetic fields using Lunar Prospector magnetometer data follows that developed for analysis of Apollo subsatellite magnetometer data. The specific mapping steps are (1) selection of mission time intervals suitable for mapping crustal fields; these are limited essentially either to times when the Moon is in a lobe of the geomagnetic tail or to times when the Moon

  16. TRMM Precipitation Radar Reflectivity Profiles Compared to High-Resolution Airborne and Ground-Based Radar Measurements

    NASA Technical Reports Server (NTRS)

    Heymsfield, G. M.; Geerts, B.; Tian, L.

    1999-01-01

    In this paper, TRMM (Tropical Rainfall Measuring Mission Satellite) Precipitation Radar (PR) products are evaluated by means of simultaneous comparisons with data from the high-altitude ER-2 Doppler Radar (EDOP), as well as ground-based radars. The comparison is aimed primarily at the vertical reflectivity structure, which is of key importance in TRMM rain type classification and latent heating estimation. The radars used in this study have considerably different viewing geometries and resolutions, demanding non-trivial mapping procedures in common earth-relative coordinates. Mapped vertical cross sections and mean profiles of reflectivity from the PR, EDOP, and ground-based radars are compared for six cases. These cases cover a stratiform frontal rainband, convective cells of various sizes and stages, and a hurricane. For precipitating systems that are large relative to the PR footprint size, PR reflectivity profiles compare very well to high-resolution measurements thresholded to the PR minimum reflectivity, and derived variables such as bright band height and rain types are accurate, even at high PR incidence angles. It was found that for, the PR reflectivity of convective cells small relative to the PR footprint is weaker than in reality. Some of these differences can be explained by non-uniform beam filling. For other cases where strong reflectivity gradients occur within a PR footprint, the reflectivity distribution is spread out due to filtering by the PR antenna illumination pattern. In these cases, rain type classification may err and be biased towards the stratiform type, and the average reflectivity tends to be underestimated. The limited sensitivity of the PR implies that the upper regions of precipitation systems remain undetected and that the PR storm top height estimate is unreliable, usually underestimating the actual storm top height. This applies to all cases but the discrepancy is larger for smaller cells where limited sensitivity is compounded

  17. A New Advanced Backcross Tomato Population Enables High Resolution Leaf QTL Mapping and Gene Identification

    PubMed Central

    Fulop, Daniel; Ranjan, Aashish; Ofner, Itai; Covington, Michael F.; Chitwood, Daniel H.; West, Donelly; Ichihashi, Yasunori; Headland, Lauren; Zamir, Daniel; Maloof, Julin N.; Sinha, Neelima R.

    2016-01-01

    Quantitative Trait Loci (QTL) mapping is a powerful technique for dissecting the genetic basis of traits and species differences. Established tomato mapping populations between domesticated tomato (Solanum lycopersicum) and its more distant interfertile relatives typically follow a near isogenic line (NIL) design, such as the S. pennellii Introgression Line (IL) population, with a single wild introgression per line in an otherwise domesticated genetic background. Here, we report on a new advanced backcross QTL mapping resource for tomato, derived from a cross between the M82 tomato cultivar and S. pennellii. This so-called Backcrossed Inbred Line (BIL) population is comprised of a mix of BC2 and BC3 lines, with domesticated tomato as the recurrent parent. The BIL population is complementary to the existing S. pennellii IL population, with which it shares parents. Using the BILs, we mapped traits for leaf complexity, leaflet shape, and flowering time. We demonstrate the utility of the BILs for fine-mapping QTL, particularly QTL initially mapped in the ILs, by fine-mapping several QTL to single or few candidate genes. Moreover, we confirm the value of a backcrossed population with multiple introgressions per line, such as the BILs, for epistatic QTL mapping. Our work was further enabled by the development of our own statistical inference and visualization tools, namely a heterogeneous hidden Markov model for genotyping the lines, and by using state-of-the-art sparse regression techniques for QTL mapping. PMID:27510891

  18. A High-Resolution Map of Segmental DNA Copy Number Variation in the Mouse Genome

    PubMed Central

    Graubert, Timothy A; Selzer, Rebecca R; Richmond, Todd A; Eis, Peggy S; Shannon, William D; Li, Xia; McLeod, Howard L; Cheverud, James M; Ley, Timothy J

    2007-01-01

    Submicroscopic (less than 2 Mb) segmental DNA copy number changes are a recently recognized source of genetic variability between individuals. The biological consequences of copy number variants (CNVs) are largely undefined. In some cases, CNVs that cause gene dosage effects have been implicated in phenotypic variation. CNVs have been detected in diverse species, including mice and humans. Published studies in mice have been limited by resolution and strain selection. We chose to study 21 well-characterized inbred mouse strains that are the focus of an international effort to measure, catalog, and disseminate phenotype data. We performed comparative genomic hybridization using long oligomer arrays to characterize CNVs in these strains. This technique increased the resolution of CNV detection by more than an order of magnitude over previous methodologies. The CNVs range in size from 21 to 2,002 kb. Clustering strains by CNV profile recapitulates aspects of the known ancestry of these strains. Most of the CNVs (77.5%) contain annotated genes, and many (47.5%) colocalize with previously mapped segmental duplications in the mouse genome. We demonstrate that this technique can identify copy number differences associated with known polymorphic traits. The phenotype of previously uncharacterized strains can be predicted based on their copy number at these loci. Annotation of CNVs in the mouse genome combined with sequence-based analysis provides an important resource that will help define the genetic basis of complex traits. PMID:17206864

  19. High-precision three-dimensional field mapping of a high resolution magnetic spectrometer for hypernuclear spectroscopy at JLab

    SciTech Connect

    Fujii, Yuu; Hashimoto, Osamu; Miyoshi, Toshinobu; Nakamura, Satoshi N.; Ohtani, Atsushi; Okayasu, Yuichi; Oyamada, Masamichi; Yamamoto, Yosuke; Kato, Seigo; Matsui, Jumei; Sako, Katsuhisa; Brindza, Paul

    2015-09-01

    The High Resolution Kaon Spectrometer (HKS), which consists of two quadrupole magnets and one dipole magnet, was designed and constructed for high-resolution spectroscopy of hypernuclei using the (e,e'K+) reaction in Hall C, Jefferson Lab (JLab). It was used to analyze momenta of around 1.2 GeV/c K^+ s with a resolution of 2 ×10^-4 (FWHM). To achieve the target resolution, a full three-dimensional magnetic field measurement of each magnet was successfully performed, and a full three-dimensional magnetic field map of the HKS magnets was reconstructed. Using the measured field map, the initial reconstruction function was generated. The target resolution would be achieved via careful tuning of the reconstruction function of HKS with the p(e,e'K+)Lambda,Sigma^0 and C-12 (e,e'K+)12_Lambda B_g.s. reactions. After tuning of the initial reconstruction function generated from the measured map, the estimated HKS momentum resolution was 2.2×10^-4 (FWHM).

  20. High Resolution Mapping of Genetic Factors Affecting Abdominal Bristle Number in Drosophila Melanogaster

    PubMed Central

    Long, A. D.; Mullaney, S. L.; Reid, L. A.; Fry, J. D.; Langley, C. H.; Mackay, TFC.

    1995-01-01

    Factors responsible for selection response for abdominal bristle number and correlated responses in sternopleural bristle number were mapped to the X and third chromosome of Drosophila melanogaster. Lines divergent for high and low abdominal bristle number were created by 25 generations of artificial selection from a large base population, with an intensity of 25 individuals of each sex selected from 100 individuals of each sex scored per generation. Isogenic chromosome substitution lines in which the high (H) X or third chromosome were placed in an isogenic low (L) background were derived from the selection lines and from the 93 recombinant isogenic (RI) HL X and 67 RI chromosome 3 lines constructed from them. Highly polymorphic neutral r00 transposable elements were hybridized in situ to the polytene chromosomes of the RI lines to create a set of cytogenetic markers. These techniques yielded a dense map with an average spacing of 4 cM between informative markers. Factors affecting bristle number, and relative viability of the chromosome 3 RI lines, were mapped using a multiple regression interval mapping approach, conditioning on all markers >/=10 cM from the tested interval. Two factors with large effects on abdominal bristle number were mapped on the X chromosome and five factors on the third chromosome. One factor with a large effect on sternopleural bristle number was mapped to the X and two were mapped to the third chromosome; all factors with sternopleural effects corresponded to those with effects on abdominal bristle number. Two of the chromosome 3 factors with large effects on abdominal bristle number were also associated with reduced viability. Significant sex-specific effects and epistatic interactions between mapped factors of the same order of magnitude as the additive effects were observed. All factors mapped to the approximate positions of likely candidate loci (ASC, bb, emc, h, mab, Dl and E(spl)), previously characterized by mutations with large

  1. High-resolution maps of forest-urban watersheds present an opportunity for ecologists and managers

    EPA Science Inventory

    Dense populations of people and abundant impervious surfaces contribute to poor water quality and increased flooding in forest-urban watersheds. Green infrastructure mitigates these effects, but precisely quantifying benefits is difficult because most land cover maps rely on coar...

  2. High-resolution mapping of quantum efficiency of silicon photodiode via optical-feedback laser microthermography

    SciTech Connect

    Cemine, Vernon Julius; Blanca, Carlo Mar; Saloma, Caesar

    2006-09-20

    We map the external quantum efficiency (QE) distribution of a silicon photodiode (PD) sample via a thermographic imaging technique based on optical-feedback laser confocal microscopy. An image pair consisting of the confocal reflectance image and the 2D photocurrent map is simultaneously acquired to delineate the following regions of interest on the sample: the substrate, the n-type region, the pn overlay, and the bonding pad. The 2D QE distribution is derived from the photocurrent map to quantify the optical performance of these sites. The thermal integrity of the sample is then evaluated by deriving the rate of change of QE with temperature T at each point on the silicon PD. These gradient maps function not only as stringent measures of local thermal QE activity but they also expose probable defect locations on the sample at high spatial resolution - a capability that is not feasible with existing bulk measurement techniques.

  3. High resolution precipitaion mapping over the South of Norway using a linear model of orographic precipitation

    NASA Astrophysics Data System (ADS)

    Martino, Sara; Kolberg, Sjur

    2014-05-01

    Spatially distributed precipitation estimates are needed in hydrological modelling as well as in regional climate analysis. In mountainous regions, interpolating data from a rain gauge network often provides mediocre results, in particular due to high terrain-induced variability on a smaller scale than the gauge network typically resolves. The interpolation is particularly difficult at short time scales like daily or hourly precipitation. Smith and Barstad (2004) introduced a linear model for simulating orographic precipitation over a digital elevation model (DEM), driven by spatially homogeneous input of wind, temperature and humidity. The model has been used to dynamically downscale reanalysis data and future climate predictions (Crochet et al 2007; Johannesson et al.2007). The current investigation applies the orography model in conjunction with interpolation from precipitation gauges, in order to construct daily precipitation maps with a level of detail finer than the gauge network density. The experiment is carried out over the southern part of Norway, a region with high mountains, glaciers, and strong precipitation gradients. We feed the orography model with the last re-analysis data from ECMWF (ERA-Interim) over the period 1979-2012. Preliminary results using the older ERA40 reanalysis data show the simulated orographic precipitation to be in good agreement with precipitation observations accumulated over various time scales. In particular, the orographic prediction improve on lapse rate based methods to incorporate terrain effects. However, the first experiments have also revealed practical challenges in applying the model on a permanent basis for large regions. Work therefore continues to adapt the theory to operational use, to optimize pre-processing and data flow, and to identify scale limits and situations for which the model is inadequate. A cross-validation approach is used to quantify performance and compare different settings in the orography model.

  4. Hierarchical object-based classification of ultra-high-resolution digital mapping camera (DMC) imagery for rangeland mapping and assessment

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Ultra high resolution digital aerial photography has great potential to complement or replace ground measurements of vegetation cover for rangeland monitoring and assessment. We investigated object-based image analysis (OBIA) techniques for classifying vegetation in southwestern U.S. arid rangelands...

  5. High Resolution Electron Energy Loss Spectroscopy with Simultaneous Energy and Momentum Mapping

    NASA Astrophysics Data System (ADS)

    Zhu, Xuetao; Cao, Yanwei; Zhang, Shuyuan; Jia, Xun; Guo, Qinlin; Yang, Fang; Zhu, Linfan; Kesmodel, Larry; Zhang, Jiandi; Plummer, Ward; Guo, Jiandong

    2015-03-01

    High resolution electron energy loss spectroscopy (HREELS) has been demonstrated as a powerful technique to probe vibrational and electronic surface excitations of solids. The dispersion relation of the surface excitations, i.e. energy as a function of momentum, can be obtained via the angle resolved measurements by rotating the sample or the analyzer in a conventional HREELS measurement. The sampling density in the momentum space and the detecting efficiency are restricted by the mechanical rotation. Here we introduce a new design of the HREELS system, by combining the traditional Ibach-type electron source with the mainstream hemispherical electron energy analyzer, which could simultaneously measure the energy and momentum of the scattered electrons without any mechanical rotation. The new system possesses higher efficiency and sampling density of momentum-resolved measurements by at least one order of magnitude than conventional spectrometers without deteriorating the resolution of energy and momentum. Using Bi2Sr2CaCu2O8+δ as an example, we show that an energy loss spectrum can be scanned throughout the first Brillouin zone and a momentum-dependent spectral intensity distribution could be obtained in one measurement.

  6. High resolution electron energy loss spectroscopy with two-dimensional energy and momentum mapping.

    PubMed

    Zhu, Xuetao; Cao, Yanwei; Zhang, Shuyuan; Jia, Xun; Guo, Qinlin; Yang, Fang; Zhu, Linfan; Zhang, Jiandi; Plummer, E W; Guo, Jiandong

    2015-08-01

    High resolution electron energy loss spectroscopy (HREELS) is a powerful technique to probe vibrational and electronic excitations at surfaces. The dispersion relation of surface excitations, i.e., energy as a function of momentum, has in the past, been obtained by measuring the energy loss at a fixed angle (momentum) and then rotating sample, monochromator, or analyzer. Here, we introduce a new strategy for HREELS, utilizing a specially designed lens system with a double-cylindrical Ibach-type monochromator combined with a commercial VG Scienta hemispherical electron energy analyzer, which can simultaneously measure the energy and momentum of the scattered electrons. The new system possesses high angular resolution (<0.1°), detecting efficiency and sampling density. The capabilities of this system are demonstrated using Bi2Sr2CaCu2O(8+δ). The time required to obtain a complete dispersion spectrum is at least one order of magnitude shorter than conventional spectrometers, with improved momentum resolution and no loss in energy resolution. PMID:26329206

  7. High Resolution Spatial and Temporal Mapping of Traffic-Related Air Pollutants

    PubMed Central

    Batterman, Stuart; Ganguly, Rajiv; Harbin, Paul

    2015-01-01

    Vehicle traffic is one of the most significant emission sources of air pollutants in urban areas. While the influence of mobile source emissions is felt throughout an urban area, concentrations from mobile emissions can be highest near major roadways. At present, information regarding the spatial and temporal patterns and the share of pollution attributable to traffic-related air pollutants is limited, in part due to concentrations that fall sharply with distance from roadways, as well as the few monitoring sites available in cities. This study uses a newly developed dispersion model (RLINE) and a spatially and temporally resolved emissions inventory to predict hourly PM2.5 and NOx concentrations across Detroit (MI, USA) at very high spatial resolution. Results for annual averages and high pollution days show contrasting patterns, the need for spatially resolved analyses, and the limitations of surrogate metrics like proximity or distance to roads. Data requirements, computational and modeling issues are discussed. High resolution pollutant data enable the identification of pollutant “hotspots”, “project-level” analyses of transportation options, development of exposure measures for epidemiology studies, delineation of vulnerable and susceptible populations, policy analyses examining risks and benefits of mitigation options, and the development of sustainability indicators integrating environmental, social, economic and health information. PMID:25837345

  8. High-resolution mapping reveals hundreds of genetic incompatibilities in hybridizing fish species

    PubMed Central

    Schumer, Molly; Cui, Rongfeng; Powell, Daniel L; Dresner, Rebecca; Rosenthal, Gil G; Andolfatto, Peter

    2014-01-01

    Hybridization is increasingly being recognized as a common process in both animal and plant species. Negative epistatic interactions between genes from different parental genomes decrease the fitness of hybrids and can limit gene flow between species. However, little is known about the number and genome-wide distribution of genetic incompatibilities separating species. To detect interacting genes, we perform a high-resolution genome scan for linkage disequilibrium between unlinked genomic regions in naturally occurring hybrid populations of swordtail fish. We estimate that hundreds of pairs of genomic regions contribute to reproductive isolation between these species, despite them being recently diverged. Many of these incompatibilities are likely the result of natural or sexual selection on hybrids, since intrinsic isolation is known to be weak. Patterns of genomic divergence at these regions imply that genetic incompatibilities play a significant role in limiting gene flow even in young species. DOI: http://dx.doi.org/10.7554/eLife.02535.001 PMID:24898754

  9. High resolution electron energy loss spectroscopy with two-dimensional energy and momentum mapping

    NASA Astrophysics Data System (ADS)

    Zhu, Xuetao; Cao, Yanwei; Zhang, Shuyuan; Jia, Xun; Guo, Qinlin; Yang, Fang; Zhu, Linfan; Zhang, Jiandi; Plummer, E. W.; Guo, Jiandong

    2015-08-01

    High resolution electron energy loss spectroscopy (HREELS) is a powerful technique to probe vibrational and electronic excitations at surfaces. The dispersion relation of surface excitations, i.e., energy as a function of momentum, has in the past, been obtained by measuring the energy loss at a fixed angle (momentum) and then rotating sample, monochromator, or analyzer. Here, we introduce a new strategy for HREELS, utilizing a specially designed lens system with a double-cylindrical Ibach-type monochromator combined with a commercial VG Scienta hemispherical electron energy analyzer, which can simultaneously measure the energy and momentum of the scattered electrons. The new system possesses high angular resolution (<0.1°), detecting efficiency and sampling density. The capabilities of this system are demonstrated using Bi2Sr2CaCu2O8+δ. The time required to obtain a complete dispersion spectrum is at least one order of magnitude shorter than conventional spectrometers, with improved momentum resolution and no loss in energy resolution.

  10. High resolution electron energy loss spectroscopy with two-dimensional energy and momentum mapping.

    PubMed

    Zhu, Xuetao; Cao, Yanwei; Zhang, Shuyuan; Jia, Xun; Guo, Qinlin; Yang, Fang; Zhu, Linfan; Zhang, Jiandi; Plummer, E W; Guo, Jiandong

    2015-08-01

    High resolution electron energy loss spectroscopy (HREELS) is a powerful technique to probe vibrational and electronic excitations at surfaces. The dispersion relation of surface excitations, i.e., energy as a function of momentum, has in the past, been obtained by measuring the energy loss at a fixed angle (momentum) and then rotating sample, monochromator, or analyzer. Here, we introduce a new strategy for HREELS, utilizing a specially designed lens system with a double-cylindrical Ibach-type monochromator combined with a commercial VG Scienta hemispherical electron energy analyzer, which can simultaneously measure the energy and momentum of the scattered electrons. The new system possesses high angular resolution (<0.1°), detecting efficiency and sampling density. The capabilities of this system are demonstrated using Bi2Sr2CaCu2O(8+δ). The time required to obtain a complete dispersion spectrum is at least one order of magnitude shorter than conventional spectrometers, with improved momentum resolution and no loss in energy resolution.

  11. High resolution electron energy loss spectroscopy with two-dimensional energy and momentum mapping

    SciTech Connect

    Zhu, Xuetao; Cao, Yanwei; Zhang, Shuyuan; Jia, Xun; Guo, Qinlin; Yang, Fang; Zhu, Linfan; Zhang, Jiandi; Plummer, E. W.; Guo, Jiandong

    2015-08-15

    High resolution electron energy loss spectroscopy (HREELS) is a powerful technique to probe vibrational and electronic excitations at surfaces. The dispersion relation of surface excitations, i.e., energy as a function of momentum, has in the past, been obtained by measuring the energy loss at a fixed angle (momentum) and then rotating sample, monochromator, or analyzer. Here, we introduce a new strategy for HREELS, utilizing a specially designed lens system with a double-cylindrical Ibach-type monochromator combined with a commercial VG Scienta hemispherical electron energy analyzer, which can simultaneously measure the energy and momentum of the scattered electrons. The new system possesses high angular resolution (<0.1°), detecting efficiency and sampling density. The capabilities of this system are demonstrated using Bi{sub 2}Sr{sub 2}CaCu{sub 2}O{sub 8+δ}. The time required to obtain a complete dispersion spectrum is at least one order of magnitude shorter than conventional spectrometers, with improved momentum resolution and no loss in energy resolution.

  12. High-resolution mapping of ice-marginal landforms in the Barnim region, northeast Germany

    NASA Astrophysics Data System (ADS)

    Hardt, Jacob; Hebenstreit, Robert; Lüthgens, Christopher; Böse, Margot

    2015-12-01

    Despite more than a 100-year-long research history, timing and position of the last glacial ice margins in the northeast German lowland are still up for debate. The Barnim region, a till plain in the northeast German young morainic landscape, is traversed by the contradictorily discussed Frankfurt ice marginal position. It is located in a key position to reassess the current state of research with help of a geographic information system (GIS) and field methods. A qualitative geomorphological analysis of a high resolution LiDAR digital elevation model (DEM) in the Barnim area uncovers a variety of landforms that were previously not described. The most prominent discovery is a set of about 10 lobe-shaped ridges in the middle Barnim area. Fieldwork and geophysical measurements were carried out to investigate the structure of the ridges. The ridges are 1000-1500 m in length and their widths vary from 10 to 15 km. They are raised some 6-10 m from their surroundings. The Frankfurt ice marginal position can only partially be traced in the DEM. Sedimentological and geophysical investigations indicate that the ridges are composed of glacial till that was deposited on glaciofluvial sediments. Their formation most probably took place during the ice retreat of the Brandenburg phase (W1B) and hence represents the W1F phase in the region.

  13. High-resolution ammonia mapping of the very young protostellar core Chamaeleon-MMS1

    NASA Astrophysics Data System (ADS)

    Väisälä, M. S.; Harju, J.; Mantere, M. J.; Miettinen, O.; Sault, R. S.; Walmsley, C. M.; Whiteoak, J. B.

    2014-04-01

    Aims: The aim of this study is to investigate the structure and kinematics of the nearby candidate first hydrostatic core Cha-MMS1. Methods: Cha-MMS1 was mapped in the NH3(1,1) line and the 1.2 cm continuum using the Australia Telescope Compact Array (ATCA). The angular resolution of the ATCA observations is 7″ (~1000 AU), and the velocity resolution is 50 m s-1. The core was also mapped with the 64 m Parkes Telescope in the NH3(1,1) and (2,2) lines. Observations from Herschel Space Observatory and Spitzer Space Telescope were used to help interpretation. The ammonia spectra were analysed using Gaussian fits to the hyperfine structure. A two-layer model was applied in the central parts of the core where the ATCA spectra show signs of self-absorption. Results: A compact high column density core with a steep velocity gradient (~20 km s-1 pc-1) is detected in ammonia. We derive a high gas density (~106 cm-3) in this region, and a fractional ammonia abundance compatible with determinations towards other dense cores (~10-8). This suggests that the age of the high density core is comparable to the freeze-out timescale of ammonia in these conditions, on the order of 104 years. The direction of the velocity gradient agrees with previous single-dish observations, and the overall velocity distribution can be interpreted as rotation. The rotation axis goes through the position of a compact far-infrared source detected by Spitzer and Herschel. The specific angular momentum of the core, ~10-3km s-1 pc, is typical for protostellar envelopes. A string of 1.2 cm continuum sources is tentatively detected near the rotation axis. The ammonia spectra suggest the presence of warm embedded gas in its vicinity. An hourglass-shaped structure is seen in ammonia at the cloud's average LSR velocity, also aligned with the rotation axis. Although this structure resembles a pair of outflow lobes the ammonia spectra show no indications of shocked gas. Conclusions: The observed ammonia

  14. Automated bias-compensation of rational polynomial coefficients of high resolution satellite imagery based on topographic maps

    NASA Astrophysics Data System (ADS)

    Oh, Jaehong; Lee, Changno

    2015-02-01

    As the need for efficient methods to accurately update and refine geospatial satellite image databases is increasing, we have proposed the use of 3-dimensional digital maps for the fully-automated RPCs bias compensation of high resolution satellite imagery. The basic idea is that the map features are scaled and aligned to the image features, except for the local shift, through the RPCs-based image projection, and then the shifts are automatically determined over the entire image space by template-based edge matching of the heterogeneous data set. This enables modeling of RPCs bias compensation parameters for accurate georeferencing. The map features are selected based on four suggested rules. Experiments were carried out for three Kompsat-2 images and stereo IKONOS images with 1:5000 scale Korean national topographic maps. Image matching performance is discussed with justification of the parameter selection, and the georeferencing accuracy is analyzed. The experimental results showed the automated approach can achieve one-pixel level of georeferencing accuracy, enabling economical hybrid map creation as well as large scale map updates.

  15. Inclusion of high resolution MODIS maps on a 3D tropospheric water vapor GPS tomography model

    NASA Astrophysics Data System (ADS)

    Benevides, Pedro; Catalao, Joao; Nico, Giovanni; Miranda, Pedro M. A.

    2015-10-01

    Observing the water vapor distribution on the troposphere remains a challenge for the weather forecast. Radiosondes provide precise water vapor profiles of the troposphere, but lack geographical and temporal coverage, while satellite meteorological maps have good spatial resolution but even poorer temporal resolution. GPS has proved its capacity to measure the integrated water vapor in all weather conditions with high temporal sampling frequency. However these measurements lack a vertical water vapor discretization. Reconstruction of the slant path GPS observation to the satellite allows oblique water vapor measurements. Implementation of a 3D grid of voxels along the troposphere over an area where GPS stations are available enables the observation ray tracing. A relation between the water vapor density and the distanced traveled inside the voxels is established, defining GPS tomography. An inverse problem formulation is needed to obtain a water vapor solution. The combination of precipitable water vapor (PWV) maps obtained from MODIS satellite data with the GPS tomography is performed in this work. The MODIS PWV maps can have 1 or 5 km pixel resolution, being obtained 2 times per day in the same location at most. The inclusion of MODIS PWV maps provides an enhanced horizontal resolution for the tomographic solution and benefits the stability of the inversion problem. A 3D tomographic grid was adjusted over a regional area covering Lisbon, Portugal, where a GNSS network of 9 receivers is available. Radiosonde measurements in the area are used to evaluate the 3D water vapor tomography maps.

  16. Evaluation of eelgrass beds mapping using a high-resolution airborne multispectral scanner

    USGS Publications Warehouse

    Su, H.; Karna, D.; Fraim, E.; Fitzgerald, M.; Dominguez, R.; Myers, J.S.; Coffland, B.; Handley, L.R.; Mace, T.

    2006-01-01

    Eelgrass (Zostera marina) can provide vital ecological functions in stabilizing sediments, influencing current dynamics, and contributing significant amounts of biomass to numerous food webs in coastal ecosystems. Mapping eelgrass beds is important for coastal water and nearshore estuarine monitoring, management, and planning. This study demonstrated the possible use of high spatial (approximately 5 m) and temporal (maximum low tide) resolution airborne multispectral scanner on mapping eelgrass beds in Northern Puget Sound, Washington. A combination of supervised and unsupervised classification approaches were performed on the multispectral scanner imagery. A normalized difference vegetation index (NDVI) derived from the red and near-infrared bands and ancillary spatial information, were used to extract and mask eelgrass beds and other submerged aquatic vegetation (SAV) in the study area. We evaluated the resulting thematic map (geocoded, classified image) against a conventional aerial photograph interpretation using 260 point locations randomly stratified over five defined classes from the thematic map. We achieved an overall accuracy of 92 percent with 0.92 Kappa Coefficient in the study area. This study demonstrates that the airborne multispectral scanner can be useful for mapping eelgrass beds in a local or regional scale, especially in regions for which optical remote sensing from space is constrained by climatic and tidal conditions. ?? 2006 American Society for Photogrammetry and Remote Sensing.

  17. Cold climate mapping using satellite high resolution thermal imagery. [weather forecasting improvement

    NASA Technical Reports Server (NTRS)

    Bartholic, J. F.; Sutherland, R. A.

    1977-01-01

    In an attempt to improve cold climate mapping and freeze forecasting techniques, thermal imagery from the NOAA-2 and -3 satellites and the Synchronous Meteorological Satellite (SMS) were obtained and analyzed. Enhanced image transparencies showed detailed temperature patterns over the peninsula of Florida. The analysis was superior to hand-drawn isotherms drawn from the 300 to 500 thermograph stations presently in use. Satellite data on several cold nights with similar synoptic conditions showed that similar cold patterns existed. Thus, cold climate mapping is possible.

  18. New results from mapping Antarctica at high resolution from radar altimeter data

    NASA Technical Reports Server (NTRS)

    Matassa, Michael; Higginson, Chris A.; Mayer, Helmut; Herzfeld, Ute Christina

    1996-01-01

    The limits of the altimeter data evaluation were analyzed using geostatistical methods. It is often argued that satellite radar altimeter data over ice can not be used to map ice surfaces with a slope exceeding 0.5 deg. The maps presented, obtained from the Geosat satellite geodetic mission, concern the Antarctica north of 72.1 deg South. The grids constructed from other satellite observations facilitate the analysis of the changes in the Antarctic ice stream/ice shelf systems. The evaluation was applied to the Lambert Glacier/Amery Ice Shelf system.

  19. High resolution mapping of Twist to DNA in Drosophila embryos: Efficient functional analysis and evolutionary conservation.

    PubMed

    Ozdemir, Anil; Fisher-Aylor, Katherine I; Pepke, Shirley; Samanta, Manoj; Dunipace, Leslie; McCue, Kenneth; Zeng, Lucy; Ogawa, Nobuo; Wold, Barbara J; Stathopoulos, Angelike

    2011-04-01

    Cis-regulatory modules (CRMs) function by binding sequence specific transcription factors, but the relationship between in vivo physical binding and the regulatory capacity of factor-bound DNA elements remains uncertain. We investigate this relationship for the well-studied Twist factor in Drosophila melanogaster embryos by analyzing genome-wide factor occupancy and testing the functional significance of Twist occupied regions and motifs within regions. Twist ChIP-seq data efficiently identified previously studied Twist-dependent CRMs and robustly predicted new CRM activity in transgenesis, with newly identified Twist-occupied regions supporting diverse spatiotemporal patterns (>74% positive, n = 31). Some, but not all, candidate CRMs require Twist for proper expression in the embryo. The Twist motifs most favored in genome ChIP data (in vivo) differed from those most favored by Systematic Evolution of Ligands by EXponential enrichment (SELEX) (in vitro). Furthermore, the majority of ChIP-seq signals could be parsimoniously explained by a CABVTG motif located within 50 bp of the ChIP summit and, of these, CACATG was most prevalent. Mutagenesis experiments demonstrated that different Twist E-box motif types are not fully interchangeable, suggesting that the ChIP-derived consensus (CABVTG) includes sites having distinct regulatory outputs. Further analysis of position, frequency of occurrence, and sequence conservation revealed significant enrichment and conservation of CABVTG E-box motifs near Twist ChIP-seq signal summits, preferential conservation of ±150 bp surrounding Twist occupied summits, and enrichment of GA- and CA-repeat sequences near Twist occupied summits. Our results show that high resolution in vivo occupancy data can be used to drive efficient discovery and dissection of global and local cis-regulatory logic.

  20. Graph-Based Urban Land Use Mapping from High Resolution Satellite Images

    NASA Astrophysics Data System (ADS)

    Walde, I.; Hese, S.; Berger, C.; Schmullius, C.

    2012-07-01

    Due to the dynamic character of urban land use (e.g. urban sprawl) there is a demand for frequent updates for monitoring, modeling, and controlling purposes. Urban land use is an added value that can be indirectly derived with the help of various properties of land cover classes that describe a certain area and create a distinguishable structure. The goal of this project is to extract land use (LU) classes out of a structure of land cover (LC) classes from high resolution Quickbird data and additional LiDAR building height models. The study area is Rostock, a German city with more than 200.000 inhabitants. To model the properties of urban land use a graph based approach is adapted from other disciplines (industrial image processing, medicine, informatics). A graph consists of nodes and edges while nodes describe the land cover and edges define the relationship of neighboring objects. To calculate the adjacency that describes which nodes are combined with an edge several distance ranges and building height properties are tested. Furthermore the information value of planar versus non-planar graph types is analyzed. After creating the graphs specific indices are computed that evaluate how compact or connected the graphs are. In this work several graph indices are explained and applied to training areas. Results show that the distance of buildings and building height are reliable indicators for LU-categories. The separability of LU-classes improves when properties of land cover classes and graph indices are combined to a LU-signature.

  1. A cosmid contig and high resolution restriction map of the 2 megabase region containing the Huntington's disease gene.

    PubMed

    Baxendale, S; MacDonald, M E; Mott, R; Francis, F; Lin, C; Kirby, S F; James, M; Zehetner, G; Hummerich, H; Valdes, J

    1993-06-01

    The quest for the mutation responsible for Huntington's disease (HD) has required an exceptionally detailed analysis of a large part of 4p16.3 by molecular genetic techniques, making this stretch of 2.2 megabases one of the best characterized regions of the human genome. Here we describe the construction of a cosmid and P1 clone contig spanning the region containing the HD gene, and the establishment of a detailed, high resolution restriction map. This ordered clone library has allowed the identification of several genes from the region, and has played a vital role in the recent identification of the Huntington's disease gene. The restriction map provides the framework for the detailed analysis of a region extremely rich in coding sequences. This study also exemplifies many of the strategies to be used in the analysis of larger regions of the human genome. PMID:8348156

  2. High-Resolution N6-Methyladenosine (m6A) Map Using Photo-Crosslinking-Assisted m6A Sequencing**

    PubMed Central

    Chen, Kai; Lu, Zhike; Wang, Xiao; Fu, Ye; Luo, Guan-Zheng; Liu, Nian; Han, Dali; Dominissini, Dan; Dai, Qing; Pan, Tao; He, Chuan

    2015-01-01

    N6-methyladenosine (m6A) is an abundant internal modification in eukaryotic mRNA and plays regulatory roles in mRNA metabolism. However, methods to precisely locate the m6A modification remain limited. We present here a photo-crosslinking-assisted m6A sequencing strategy (PA-m6A-seq) to more accurately define sites with m6A modification. Using this strategy, we obtained a high-resolution map of m6A in a human transcriptome. The map resembles the general distribution pattern observed previously, and reveals new m6A sites at base resolution. Our results provide insight into the relationship between the methylation regions and the binding sites of RNA-binding proteins. PMID:25491922

  3. A cosmid contig and high resolution restriction map of the 2 megabase region containing the Huntington's disease gene.

    PubMed

    Baxendale, S; MacDonald, M E; Mott, R; Francis, F; Lin, C; Kirby, S F; James, M; Zehetner, G; Hummerich, H; Valdes, J

    1993-06-01

    The quest for the mutation responsible for Huntington's disease (HD) has required an exceptionally detailed analysis of a large part of 4p16.3 by molecular genetic techniques, making this stretch of 2.2 megabases one of the best characterized regions of the human genome. Here we describe the construction of a cosmid and P1 clone contig spanning the region containing the HD gene, and the establishment of a detailed, high resolution restriction map. This ordered clone library has allowed the identification of several genes from the region, and has played a vital role in the recent identification of the Huntington's disease gene. The restriction map provides the framework for the detailed analysis of a region extremely rich in coding sequences. This study also exemplifies many of the strategies to be used in the analysis of larger regions of the human genome.

  4. High-Resolution Sea Ice Topography Mapping using UAS-based Sensors and Structure-from-Motion Techniques

    NASA Astrophysics Data System (ADS)

    Saiet, E., II

    2015-12-01

    Digital Elevation Models (DEMs) of sea-ice are key descriptors of the surface boundary between ice and atmosphere. High resolution (meter-scale) and accurate (cm-scale) DEM data are required to correctly understand surface-atmosphere interactions in arctic environments. Beyond that, high-quality DEM data is also needed to understand sea ice stability and quantify the suitability of sea ice as a means of navigation both on and through the ice. Due to the stringent accuracy requirements of sea ice topography mapping, Lidar data are often used to generate sea ice DEMs. Despite their proven performance, Lidar sensors are expensive and difficult to operate especially in harsh and remote Arctic environments. Hence, alternative more efficient solutions need to be found. To address this issue, this study is investigating the applicability of two recent technical innovations to sea ice DEM production: (1) We analyze the performance of Structure from Motion (SfM) techniques for sea ice topography mapping. SfM is an image processing technique that has recently gained momentum in the geosciences and enables high-quality DEM production from images of uncalibrated off-the-shelf cameras; (2) we investigate the applicability of Unmanned Aerial Systems (UAS) as platform for our camera systems. UAS have significant advantages for Arctic applications due to their high flexibility, low-cost, and ability to fly in environments deemed risky for manned operations. Combined, SfM and UAS may result in an intriguing alternative to traditional sensors. Using data from a 2015 field campaign near Barrow, Alaska, we showcase the DEM measurement performance that can be achieved with UAS-based sensors and SfM processing. In addition to showing examples of DEM products, we will provide results of an extensive performance analysis where DEM measurements were compared to ground observations and DEMs from alternative sources. To analyze the impact of flight-track information on DEM quality, we first

  5. A HYBRID HIGH RESOLUTION IMAGE CLASSIFICATION METHOD FOR MAPPING EELGRASS DISTRIBUTIONS IN YAQUINA BAY ESTUARY, OREGON

    EPA Science Inventory

    False-color infrared aerial photography of the Yaquina Bay Estuary, Oregon was acquired at extreme low tides and digitally orthorectified with a ground pixel resolution of 20 cm to provide data for intertidal vegetation mapping. Submerged, semi-exposed and exposed eelgrass mead...

  6. Using the ARP-03 for high-resolution mapping of calcic horizons

    NASA Astrophysics Data System (ADS)

    Priori, S.; Fantappič, M.; Magini, S.; Costantini, E. A. C.

    2013-09-01

    The aim of this work is to present a fast and cheap method for high-resolutionmapping of calcic horizons in vineyards based on geoelectrical proximal sensing. The study area, 45 ha located in southern Sicily (Italy), was characterized by an old, partially dismantled marine terrace and soils with a calcic horizon at different depths. The geoelectrical investigation consisted of a survey of the soil electrical resistivity recorded with the Automatic Resistivity Profiling-03 sensor. The electrical resistivity values at three pseudo-depths, 0-50, 0-100 and 0-170 cm, were spatialized by means of ordinary kriging. A principal component analysis of the three electrical resistivity maps was carried out. During the survey, 18 boreholes, located at different electrical resistivity values, were made for soil description and sampling. The depth to the calcic horizon showed a strong correlation with electrical resistivity. The regression model between calcic horizon and the principal component analysis factors with the highest correlation coefficients was selected to spatialise the calcic horizon values. An Normalized Difference Vegetation Index map was used to validate the calcic horizon map in terms of crop response to different soil rooting depths. The strengths of this method are the quick, non-invasive kind of survey, the relevance for vine vigour, and the high spatial resolution of the final map.

  7. Regional validation of a high-resolution digital soil map using soil profile attributes

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Digital soil mapping (DSM) for precision agriculture (PA) management is aimed at developing models that predict soil properties or classes using legacy soil data, sensors, and environmental covariates. The utility of DSM for PA centers on its ability to provide soil information to optimize crop yiel...

  8. 4 Vesta in Color: High Resolution Mapping from Dawn Framing Camera Images

    NASA Technical Reports Server (NTRS)

    Reddy, V.; LeCorre, L.; Nathues, A.; Sierks, H.; Christensen, U.; Hoffmann, M.; Schroeder, S. E.; Vincent, J. B.; McSween, H. Y.; Denevi, B. W.; Li, J.-Y.; Pieters, C. M.; Gaffey, M.; Mittlefehldt, D.; Buratti, B.; Hicks, M.; McCord, T.; Combe, J.-P.; DeSantis, M. C.; Russell, C. T.; Raymond, C. A.; Marques, P. Gutierrez; Maue, T.; Hall, I.

    2011-01-01

    Rotational surface variations on asteroid 4 Vesta have been known from ground-based and HST observations, and they have been interpreted as evidence of compositional diversity. NASA s Dawn mission entered orbit around Vesta on July 16, 2011 for a year-long global characterization. The framing cameras (FC) onboard the Dawn spacecraft will image the asteroid in one clear (broad) and seven narrow band filters covering the wavelength range between 0.4-1.0 microns. We present color mapping results from the Dawn FC observations of Vesta obtained during Survey orbit (approx.3000 km) and High-Altitude Mapping Orbit (HAMO) (approx.950 km). Our aim is to create global color maps of Vesta using multi spectral FC images to identify the spatial extent of compositional units and link them with other available data sets to extract the basic mineralogy. While the VIR spectrometer onboard Dawn has higher spectral resolution (864 channels) allowing precise mineralogical assessment of Vesta s surface, the FC has three times higher spatial resolution in any given orbital phase. In an effort to extract maximum information from FC data we have developed algorithms using laboratory spectra of pyroxenes and HED meteorites to derive parameters associated with the 1-micron absorption band wing. These parameters will help map the global distribution of compositionally related units on Vesta s surface. Interpretation of these units will involve the integration of FC and VIR data.

  9. Validating a high-resolution digital soil map for precision agriculture across multiple fields

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Digital soil mapping (DSM) for precision agriculture (PA) management is aimed at developing models that predict soil properties or classes using legacy soil data, sensors, and environmental covariates. The utility of DSM for PA is based on its ability to provide useful spatial soil information for o...

  10. High-resolution geological mapping and sampling using wireline rock drills

    NASA Astrophysics Data System (ADS)

    MacLeod, C. J.; Allerton, S.; Dick, H. J. B.; Escartin, J.

    2003-04-01

    High-resolution sampling is key to most fine-scale geological investigations of the ocean floor. However, devices that can take large numbers of precisely-located, geographically oriented samples from hard substrates have not previously been available. Portable rock drills, mounted vertically on a tripod frame and operated by wireline from a conventional ship, are a way of obtaining such material in a cost-effective manner. They allow efficient assessment of x-y (horizontal) variability and thereby complement much deeper ODP-type drilling operations, which primarily assess z-axis (vertical) variations. Few wireline drills have been built and/or operated successfully to date, a notable exception being the 5m drill built and run by the British Geological Survey, which has been used - mostly for industrial applications - for many years. This drill takes cores up to 5m long in water depths of less than 2000m. A second drill, funded through the BRIDGE programme, has been built by BGS specifically for scientific use. This device takes geographically oriented cores up to 1m long in full ocean depths, and has a video link to aid site selection. It is of light weight, and is operated on a conventional conducting cable. On-bottom time is similar to that of a rock dredge. The rock drills have recently been used with great success on two cruises on RRS James Clark Ross: cruise JR31, to Atlantis Bank, on the SW Indian Ridge; and cruise JR63 to the Mid-Atlantic Ridge near the Fifteen-Twenty fracture zone. On both cruises seafloor exposures of lower crustal gabbros and mantle peridotites were targetted, with the aim of understanding the primary lithological variability of slow-spread ocean lithosphere and the mechanisms of their exhumation. Altogether 115 successful sites were drilled in a little over three weeks of shiptime, on slopes of up to 44 degrees and water depths of 4500m. Scientific highlights include the demonstration that peridotites and gabbros in both regions were

  11. The Mars Express High Resolution Stereo Camera (HRSC): Mapping Mars and Implications for Geological Processes

    NASA Astrophysics Data System (ADS)

    Jaumann, Ralf; Tirsch, Daniela; Hauber, Ernst; Hoffmann, Harald; Neukum, Gerhard

    2015-04-01

    After 10 years of ESA's Mars Express orbiting the planet its High Resolution Stereo Camera (HRSC) covered about 90 % of the surface in stereo and color with resolutions up to 10 m/pixel. Digital elevation models of up to 50 m grid spacing [1], generated from all suitable datasets of the stereo coverage, currently cover about 40 % of the surface [2]. The geomorphological analysis of surface features, observed by the HRSC indicate major surface modifications by endogenic and exogenic processes on all scales. Endogenic landforms (e.g., tectonic rifts, small basaltic shield volcanoes) were found to be very similar to their equivalents on Earth, suggesting that no unique processes are required to explain their formation. Volcanism may have been active up to the very recent past or even to the present, putting important constraints on thermal evolution models [e.g., 3]. The analysis of diverse landforms produced by aqueous processes revealed that surface water activity was likely episodic, but ranged in age from very ancient to very recent [e.g., 3]. Particularly important is prominent glaciation and periglacial features at several latitudes, including mountain glaciers [e.g., 3]. The identification of aqueous alteration minerals and their geological context has enabled a better understanding of paleoenvironmental conditions and pedogenetic processes [e.g., 4]. Dark dunes contain volcanic material and are evidence for the significantly dynamic surface environment, characterized by widespread erosion, transport, and redeposition [e.g., 3, 5]. Since basically all geologic interpretations of extraterrestrial features require profound knowledge of the Earth as key reference, studies of terrestrial analogues are mandatory in planetary geology. Field work in Antarctica, Svalbard and Iceland [e.g., 6] provided a basis for the analysis of periglacial and volcanic processes, respectively. References: [1] Jaumann et al., 2007, PSS 55, 928-952; [2] Gwinner et al., 2010, EPSL 294

  12. Topography of Mars from global mapping by HRSC high-resolution digital terrain models and orthoimages: Characteristics and performance

    NASA Astrophysics Data System (ADS)

    Gwinner, K.; Scholten, F.; Preusker, F.; Elgner, S.; Roatsch, T.; Spiegel, M.; Schmidt, R.; Oberst, J.; Jaumann, R.; Heipke, C.

    2010-06-01

    We report on the results of the Mars Express High-Resolution Stereo Camera (HRSC) experiment pertaining to one of its major aims, mapping the surface of Mars by high-resolution digital terrain models (DTM, up to 50 m grid spacing) and orthoimages (up to 12.5 m resolution). We introduce the specifications and characteristics of these data products and give an overview of the procedures that have been developed and are applied for their derivation. We also address the performance characteristics of the mapping project related to different aspects of internal accuracy, accuracy with respect to the global reference system, and regional aspects. Using adaptive processing techniques for terrain reconstruction and a revised approach to the improvement of orientation data, a mean precision of the resulting 3D points of about 12 m is obtained, exceeding the mean ground resolution of the stereo images. Using Mars Orbiter Laser Altimeter (MOLA) data, the HRSC models are firmly tied to the global reference system at the scale of the HRSC DTM grid spacing in the lateral dimension, and to within few meters vertically. HRSC high-resolution DTMs are typically generated using a grid size of about 2 times the mean ground resolution, but usually not larger than 3 times the mean ground resolution, and not smaller than 3 times the precision of the integrated 3D points derived from stereo image analysis. Statistically, every grid cell is based on at least one measured 3D point. Thus, horizontal DTM resolution is well established with regard to the precision and density of the derived 3D points, while the concurrent aim of a detailed terrain representation at maximum possible resolution is pursued. Comparison with the DTM derived from MOLA data allows us to identify specific advancements related to this updated view of Martian topography. We also address the mapping performance of HRSC in comparison to MOLA with respect to latitude and to different surface types and morphologies. Finally

  13. High Resolution Mapping of Soils and Landforms for the Desert Renewable Energy Conservation Plan (DRECP)

    NASA Technical Reports Server (NTRS)

    Potter, Christopher S.; Li, Shuang

    2014-01-01

    The Desert Renewable Energy Conservation Plan (DRECP), a major component of California's renewable energy planning efforts, is intended to provide effective protection and conservation of desert ecosystems, while allowing for the sensible development of renewable energy projects. This NASA mapping report was developed to support the DRECP and the Bureau of Land Management (BLM). We outline in this document remote sensing image processing methods to deliver new maps of biological soils crusts, sand dune movements, desert pavements, and sub-surface water sources across the DRECP area. We focused data processing first on the largely unmapped areas most likely to be used for energy developments, such as those within Renewable Energy Study Areas (RESA) and Solar Energy Zones (SEZs). We used imagery (multispectral and radar) mainly from the years 2009-2011.

  14. Quantitative High-Resolution Cellular Map of the Organ of Corti.

    PubMed

    Waldhaus, Jörg; Durruthy-Durruthy, Robert; Heller, Stefan

    2015-06-01

    The organ of Corti harbors highly specialized sensory hair cells and surrounding supporting cells that are essential for the sense of hearing. Here, we report a single cell gene expression data analysis and visualization strategy that allows for the construction of a quantitative spatial map of the neonatal organ of Corti along its major anatomical axes. The map displays gene expression levels of 192 genes for all organ of Corti cell types ordered along the apex-to-base axis of the cochlea. Statistical interrogation of cell-type-specific gene expression patterns along the longitudinal gradient revealed features of apical supporting cells indicative of a propensity for proliferative hair cell regeneration. This includes reduced expression of Notch effectors, receptivity for canonical Wnt signaling, and prominent expression of early cell-cycle genes. Cochlear hair cells displayed expression gradients of genes indicative of cellular differentiation and the establishment of the tonotopic axis.

  15. High resolution sub-millimetre mapping of starburst galaxies: Comparison with CO emission

    NASA Technical Reports Server (NTRS)

    Smith, P. A.; Brand, P. W. J. L.; Puxley, Phil J.; Mountain, C. M.; Nakai, Naomasa

    1990-01-01

    Researchers present first results from a program of submillimeter continuum mapping of starburst galaxies, and comparison of their dust and CO emission. This project was prompted by surprising results from the first target, the nearby starburst M82, which shows in the dust continuum a morphology quite unlike that of its CO emission, in contrast to what might be expected if both CO and dust are accurately tracing the molecular hydrogen. Possible explanations for this striking difference are discussed. In the light of these results, the program has been extended to include sub-mm mapping of the nearby, vigorously star forming spirals, M83 and Maffei 2. The latter were also observed extensively in CO, in order to study excitation conditions in its central regions. The James Clerk Maxwell Telescope was used in these studies.

  16. Spotlight-Mode Synthetic Aperture Radar Processing for High-Resolution Lunar Mapping

    NASA Technical Reports Server (NTRS)

    Harcke, Leif; Weintraub, Lawrence; Yun, Sang-Ho; Dickinson, Richard; Gurrola, Eric; Hensley, Scott; Marechal, Nicholas

    2010-01-01

    During the 2008-2009 year, the Goldstone Solar System Radar was upgraded to support radar mapping of the lunar poles at 4 m resolution. The finer resolution of the new system and the accompanying migration through resolution cells called for spotlight, rather than delay-Doppler, imaging techniques. A new pre-processing system supports fast-time Doppler removal and motion compensation to a point. Two spotlight imaging techniques which compensate for phase errors due to i) out of focus-plane motion of the radar and ii) local topography, have been implemented and tested. One is based on the polar format algorithm followed by a unique autofocus technique, the other is a full bistatic time-domain backprojection technique. The processing system yields imagery of the specified resolution. Products enabled by this new system include topographic mapping through radar interferometry, and change detection techniques (amplitude and coherent change) for geolocation of the NASA LCROSS mission impact site.

  17. A Novel High-Resolution Mapping Method of d-Spacing And Lattice Plane Orientation

    SciTech Connect

    Zhang Xiaowei; Okada, Yasumasa; Sugiyama, Hiroshi; Ando, Masami

    2004-05-12

    We have developed a fast and stable measuring system of lattice spacing with precision of 10-8 for a silicon crystal at the Photon Factory. Using a combination of this system with an autocollimator, we can not only measure d-spacing, but also can determine lattice plane orientation with sub-arcsec resolution in the same measurement process. We report a mapping measurement of a Boron-doped CZ silicon wafer with 1mm2 spatial resolution.

  18. Mapping cardiac fiber orientations from high-resolution DTI to high-frequency 3D ultrasound

    NASA Astrophysics Data System (ADS)

    Qin, Xulei; Wang, Silun; Shen, Ming; Zhang, Xiaodong; Wagner, Mary B.; Fei, Baowei

    2014-03-01

    The orientation of cardiac fibers affects the anatomical, mechanical, and electrophysiological properties of the heart. Although echocardiography is the most common imaging modality in clinical cardiac examination, it can only provide the cardiac geometry or motion information without cardiac fiber orientations. If the patient's cardiac fiber orientations can be mapped to his/her echocardiography images in clinical examinations, it may provide quantitative measures for diagnosis, personalized modeling, and image-guided cardiac therapies. Therefore, this project addresses the feasibility of mapping personalized cardiac fiber orientations to three-dimensional (3D) ultrasound image volumes. First, the geometry of the heart extracted from the MRI is translated to 3D ultrasound by rigid and deformable registration. Deformation fields between both geometries from MRI and ultrasound are obtained after registration. Three different deformable registration methods were utilized for the MRI-ultrasound registration. Finally, the cardiac fiber orientations imaged by DTI are mapped to ultrasound volumes based on the extracted deformation fields. Moreover, this study also demonstrated the ability to simulate electricity activations during the cardiac resynchronization therapy (CRT) process. The proposed method has been validated in two rat hearts and three canine hearts. After MRI/ultrasound image registration, the Dice similarity scores were more than 90% and the corresponding target errors were less than 0.25 mm. This proposed approach can provide cardiac fiber orientations to ultrasound images and can have a variety of potential applications in cardiac imaging.

  19. Time-Evolution and Thermal Mapping of Io's Loki Patera at High Resolution

    NASA Astrophysics Data System (ADS)

    de Kleer, Katherine R.; Skrutskie, Michael F.; Leisenring, Jarron; de Pater, Imke; Davies, Ashley; Conrad, Al; Caleb Resnick, Aaron; Hinz, Philip; Defrère, Denis; Veillet, Christian

    2016-10-01

    Observations of Loki Patera with Keck, Gemini N, and the Large Binocular Telescope have yielded a wealth of information in the past several years. Observations with adaptive optics at the Keck and Gemini N telescopes have captured multiple brightening events since 2009. High-cadence observations of the three most recent events place constraints on the thermal properties of the magma and indicate a dependency of the observed intensity on either viewing geometry or mean anomaly. Large Binocular Telescope Interferometer (LBTI) observations during a Europa mutual event have yielded the first-ever temperature map of the entire patera floor at high spatial resolution. M-band (4.7-micron) images were recorded during the event at a cadence of 123 milliseconds, corresponding to a spatial resolution of 10 km across the entire ~200-km patera. This represents a factor of 40 improvement over the spatial resolution achieved by standard adaptive optics imaging with a 10-m telescope at this wavelength. A map of the lava age distribution within the patera is derived from the temperature map using models for cooling basaltic lavas, and the resurfacing rate is calculated. This age distribution, as well as the locations of emission derived from the Keck and Gemini N observations, suggests that resurfacing proceeds in a clockwise direction, contrary to previous findings. All data are consistent with resurfacing by an overturn front on a magma sea, but other resurfacing mechanisms are not ruled out.

  20. High-Resolution Mutation Mapping Reveals Parallel Experimental Evolution in Yeast

    PubMed Central

    Segrè, Ayellet V; Murray, Andrew W

    2006-01-01

    Understanding the genetic basis of evolutionary adaptation is limited by our ability to efficiently identify the genomic locations of adaptive mutations. Here we describe a method that can quickly and precisely map the genetic basis of naturally and experimentally evolved complex traits using linkage analysis. A yeast strain that expresses the evolved trait is crossed to a distinct strain background and DNA from a large pool of progeny that express the trait of interest is hybridized to oligonucleotide microarrays that detect thousands of polymorphisms between the two strains. Adaptive mutations are detected by linkage to the polymorphisms from the evolved parent. We successfully tested our method by mapping five known genes to a precision of 0.2–24 kb (0.1–10 cM), and developed computer simulations to test the effect of different factors on mapping precision. We then applied this method to four yeast strains that had independently adapted to a fluctuating glucose–galactose environment. All four strains had acquired one or more missense mutations in GAL80, the repressor of the galactose utilization pathway. When transferred into the ancestral strain, the gal80 mutations conferred the fitness advantage that the evolved strains show in the transition from glucose to galactose. Our results show an example of parallel adaptation caused by mutations in the same gene. PMID:16856782

  1. High-Resolution AUV Mapping Reveals Structural Details of Submarine Inflated Lava Flows

    NASA Astrophysics Data System (ADS)

    Paduan, J.; Clague, D. A.; Caress, D. W.; Thomas, H.; Thompson, D.; Conlin, D.

    2009-12-01

    The MBARI mapping AUV D. Allan B. has now been used to map volcanic terrain at mid-ocean ridges, back-arc spreading centers, and seamounts. These include the summit caldera and upper south rift zone at Axial Volcano, the summit of Davidson Seamount, the Endeavour hydrothermal fields, the Northeast Lau Spreading Center and West Mata Volcano, and, most recently, the CoAxial, North Cleft and North Gorda historic eruption sites on the Juan de Fuca and Gorda Ridges. ROV and submersible dives at most of these sites have provided groundtruth for the textures and features revealed in the roughly 1-m resolution maps. A prominent feature in the maps from four of the sites are inflated flows that did not deflate or drain. These resemble subaerial tumuli but differ in being located on level terrain, apparently atop or very near eruptive vents instead of being in the distal portions of flows. The largest inflated flow at Axial Volcano is on the caldera floor. The main part is 500 by 300 m, and up to 30 m high, with a lobe that extends another 750 m in a sinuous path. It and two nearby, medium-sized inflated flows were first described from sidescan imagery and a submersible dive by Appelgate and Embley (Bull. Volcanol., 54, 447-458, 1992). The AUV maps show clearly the smooth, gently domed relief of the large inflated flow and its sinuous shape on the seafloor, the medium-sized nearby inflated flows, and several additional smaller ones. Particularly striking is a network of 4 to 10 m deep cracks along the crest of each inflation. The cracks occur 30 to 50 m from the margins on all sides of the wider parts of the inflated flows, and become medial cracks along the entire length of the narrow parts, which are nearly triangular in cross-section. An inflation pit 35 m in diameter has a depth equal to the surrounding lava fields. ROV Doc Ricketts dove on these flows in August 2009 and photographed the deeply cracked, uplifted, once flat-lying lineated and ropy sheet flows that form

  2. Nationwide high-resolution mapping of hazards in the Philippines (Plinius Medal Lecture)

    NASA Astrophysics Data System (ADS)

    Lagmay, Alfredo Mahar Francisco A.

    2015-04-01

    The Philippines being a locus of typhoons, tsunamis, earthquakes, and volcanic eruptions, is a hotbed of disasters. Situated in a region where severe weather and geophysical unrest is common, the Philippines will inevitably suffer from calamities similar to those experienced recently. With continued development and population growth in hazard prone areas, it is expected that damage to infrastructure and human losses would persist and even rise unless appropriate measures are immediately implemented by government. Recently, the Philippines put in place a responsive program called the Nationwide Operational Assessment of Hazards (NOAH) for disaster prevention and mitigation. The efforts of Project NOAH are an offshoot of lessons learned from previous disasters that have inflicted massive loss of lives and costly damage to property. Several components of the NOAH program focus on mapping of landslide, riverine flood and storm surge inundation hazards. By simulating hazards phenomena over IFSAR- and LiDAR-derived digital terrain models (DTMs) using high-performance computers, multi-hazards maps of 1:10,000 scale, have been produced and disseminated to local government units through a variety of platforms. These detailed village-level (barangay-level) maps are useful to identify safe evacuation sites, planning emergency access routes and prepositioning of search and rescue and relief supplies during times of crises. They are also essential for long-term development planning of communities. In the past two years, NOAH was instrumental in providing timely, site-specific, and understandable hazards information to the public, considered as best practice in disaster risk reduction management (DRR). The use of advanced science and technology in the country's disaster prevention efforts is imperative to successfully mitigate the adverse impacts of natural hazards and should be a continuous quest - to find the best products, put forth in the forefront of battle against

  3. The Value of High Resolution Forest Canopy Maps for Implementing Carbon Sequestration Programs in Maryland

    NASA Astrophysics Data System (ADS)

    Brown, M. E.; Abbott, P. C.; Hittich, R.; Dubayah, R.

    2015-12-01

    As part of the NASA Carbon Monitoring System (CMS) Program, the University of Maryland has produced 1m resolution forest canopy cover and height maps that have been provided to the State of Maryland. The project used existing, wall-to-wall airborne lidar coverage combined with other remote sensing and field datasets to produce countywide maps of carbon stocks and their uncertainties at 30 m resolution as well as the 1m canopy maps. In this paper, we examine what purposes we identified for the data for decision making in climate mitigation, what use it has already seen, and what potential there is in the future for using the data. The State of Maryland has three programs focused on maintaining or increasing forest cover as part of its Greenhouse Gas Emissions Reduction Program (GHGRP) program enacted in 2012, including Woodland Incentive Program (WIP), the Lawn to Woodland Initiative (L2W), and the Environmental Quality Incentives Program (EQIP). Forest canopy data from CMS were examined the prospects for both adoption and carbon sequestration of these three initiatives, and their effects on the overall success of the GHGRP. We found that it was difficult it is to pin down "value" that is directly attributable to the data, although we found the data to be important in recognizing the nature and extent of the carbon problem, and in identifying potential solutions to addressing the problem. As in many decision-making contexts, having high quality, accurate data on forest cover is necessary but not sufficient for effective, affordable programs that lead to carbon sequestration in the state.

  4. High-resolution spectral mapping of a lensed high power laser bar

    NASA Astrophysics Data System (ADS)

    Gannon, Caleb D.; Koenning, Tobias; Patterson, Steve G.; Leisher, Paul O.

    2014-03-01

    Alkali gas lasers based on rubidium vapor have an extremely narrow absorption band (<0.01 nm at STP) at 780 nm. Diode-pumped alkali lasers (DPALs) require high-power diode arrays having emission spectra which are closely matched to this absorption peak. There are several methods which can be used for narrowing and stabilizing the output spectrum of a diode laser bar including external locking via a volumetric holographic grating (VHG). While this approach offers several advantages over internal stabilization techniques, the effect of pointing error arising from bar smile can be detrimental to the locked performance of the lensed array. In order to investigate the effect of smile on wavelength locking, a system capable of mapping the emission spectrum of the lensed diode laser bar was developed. The approach utilizes an imaging system and spatial filter to couple light from individual emitters of the lensed array into a commercial optical spectrum analyzer. This approach offers a larger dynamic range than traditional spectral mapping techniques, with a resolved signal to noise ratio in excess of 60 dB. Results from the characterization of a VHG-locked 780 nm laser bar array will be presented.

  5. A high-resolution map of the chromosomal region surrounding the nude gene

    SciTech Connect

    Blackburn, C.C.; Griffith, J.; Morahan, G.

    1995-03-20

    The nude mutation produces the apparently disparate phenotypes of hairlessness and congenital thymic aplasia. These pleiotropic defects are the result of a single, autosomal recessive mutation that was previously mapped to a 9-cM region of murine chromosome 11 bounded by loci encoding the acetylcholine receptor P subunit and myeloperoxidase. In this study, exclusion mapping of a panel of congenic nude strains was used to place the nude locus between the microsatellite loci D11Nds1 and D11Mit8. The relative distance from nude to each of these loci was determined by analyzing a large segregating cross. Thus, nude lies 1.4 cM distal to D11Nds1 and is 0.5 cM proximal to D11Mit8. Mice that carried recombinational breakpoints between D11Nds1 and D11Mit8 were further analyzed at the loci Evi-2 and D11Mit34, which placed nu 0.2 cM proximal to these markers. D11Nds1 and Evi-2/D11Mit34 thus define the new proximal and distal boundaries, respectively, for the nu interval. We also report the typing of the above microsatellite markers in the AKXD, AKXL, BXD, CXB, and BXH recombinant inbred strains, which confirmed the relative order and separation of loci in this region. 47 refs., 3 figs., 1 tab.

  6. Virtual nanoscopy: Generation of ultra-large high resolution electron microscopy maps

    PubMed Central

    Avramut, M. Cristina; M. van den Berg, Bernard; Mommaas, A. Mieke; Koster, Abraham J.

    2012-01-01

    A key obstacle in uncovering the orchestration between molecular and cellular events is the vastly different length scales on which they occur. We describe here a methodology for ultrastructurally mapping regions of cells and tissue as large as 1 mm2 at nanometer resolution. Our approach employs standard transmission electron microscopy, rapid automated data collection, and stitching to create large virtual slides. It greatly facilitates correlative light-electron microscopy studies to relate structure and function and provides a genuine representation of ultrastructural events. The method is scalable as illustrated by slides up to 281 gigapixels in size. Here, we applied virtual nanoscopy in a correlative light-electron microscopy study to address the role of the endothelial glycocalyx in protein leakage over the glomerular filtration barrier, in an immunogold labeling study of internalization of oncolytic reovirus in human dendritic cells, in a cryo-electron microscopy study of intact vitrified mouse embryonic cells, and in an ultrastructural mapping of a complete zebrafish embryo slice. PMID:22869601

  7. High-resolution linkage-disequilibrium mapping of the cartilage-hair hypoplasia gene

    SciTech Connect

    Sulisalo, T.; Klockars, J.; Chapelle, A. de la; Kaitila, I. |; Maekitie, O.; Sistonen, P.; Francomano, C.A.

    1994-11-01

    We recently assigned the gene for an autosomal recessive skeletal dysplasia, cartilage-hair hypoplasia (CHH), to 9p21-p13 in Finnish and Amish families. An association was observed between CHH and alleles at D9S163 in both family series, suggesting that these loci are in linkage disequilibrium and close to each other. Here we extended these studies by exploiting the linkage-disequilibrium information that can be obtained from families with a single affected child, and we studied 66 Finnish CHH families with seven microsatellite markers. The analysis based on the Luria and Delbrueck (1943) method and adapted to the study of human founder populations suggests that the distance between CHH and D9S163 is {approximately}0.3 cM. An eight-point linkage analysis modified to take advantage of all possible information in 15 Finnish and 17 Amish families was capable of narrowing the likely location of CHH to within an interval of 1.7 cM on a male map. The peak lod score of 54.92 was attained 0.03 and 0.1 cM proximal to D9S163 on the male and female maps, respectively. These results confirm the power of genetic resolution, that lies in the study of linkage disequilibrium in well-defined founder populations with one major ancestral disease mutation. 21 refs., 4 figs., 3 tabs.

  8. Identification of 11 Novel Mutations in 8 BBS Genes by High-Resolution Homozygosity Mapping

    PubMed Central

    Harville, Heather M.; Held, Susanne; Diaz-Font, Anna; Davis, Erica E.; Diplas, Bill H.; Lewis, Richard A.; Borochowitz, Zvi; Zhou, Weibin; Chaki, Moumita; MacDonald, Jim; Kayserili, Hulya; Beales, Philip L.; Katsanis, Nicholas; Otto, Edgar; Hildebrandt, Friedhelm

    2010-01-01

    Bardet-Biedl syndrome (BBS) is primarily an autosomal recessive disorder characterized by the five cardinal features retinitis pigmentosa, postaxial polydactyly, mental retardation, obesity and hypogenitalism. In addition, renal cysts and other anomalies of the kidney and urinary tract can be present. To date, mutations in 12 BBS genes as well as in MKS1 and CEP290 have been identified as causing BBS. The vast genetic heterogeneity of BBS renders molecular genetic diagnosis difficult in terms of both the time and cost required to screen all 204 coding exons. Here, we report the use of genome-wide homozygosity mapping as a tool to identify homozygous segments at known BBS loci in BBS individuals from inbred and outbred background. In a worldwide cohort of 45 families, we identified, via direct exon sequencing, causative homozygous mutations in 20 families. Eleven of these mutations were novel, thereby increasing the number of known BBS mutations by 5% (11/218). Thus, in the presence of extreme genetic locus heterogeneity, homozygosity mapping provides a valuable approach to the molecular genetic diagnosis of BBS and will facilitate the discovery of novel pathogenic mutations. PMID:19797195

  9. Combined Exact-Repeat and Geodetic Mission Altimetry for High-Resolution Empirical Tide Mapping

    NASA Astrophysics Data System (ADS)

    Zaron, E. D.

    2014-12-01

    The configuration of present and historical exact-repeat mission (ERM) altimeter ground tracks determines the maximum resolution of empirical tidal maps obtained with ERM data. Although the mode-1 baroclinic tide is resolvable at mid-latitudes in the open ocean, the ability to detect baroclinic and barotropic tides near islands and complex coastlines is limited, in part, by ERM track density. In order to obtain higher resolution maps, the possibility of combining ERM and geodetic mission (GM) altimetry is considered, using a combination of spatial thin-plate splines and temporal harmonic analysis. Given the present spatial and temporal distribution of GM missions, it is found that GM data can contribute to resolving tidal features smaller than 75 km, provided the signal amplitude is greater than about 1 cm. Uncertainties in the mean sea surface and environmental corrections are significant components of the GM error budget, and methods to optimize data selection and along-track filtering are still being optimized. Application to two regions, Monterey Bay and Luzon Strait, finds evidence for complex tidal fields in agreement with independent observations and modeling studies.

  10. A change detection approach to flood mapping in urban areas using very high-resolution microwave remote sensing imagery

    NASA Astrophysics Data System (ADS)

    Giustarini, L.; Hostache, R.; Matgen, P.; Schumann, G.; Bates, P. D.; Mason, D. C.

    2012-04-01

    Very high-resolution Synthetic Aperture Radar sensors represent an alternative to aerial photography for delineating floods in built-up environments where flood risk is highest. However, even with currently available SAR image resolutions of 3 m and higher, signal returns from man-made structures hamper the accurate mapping of flooded areas. Enhanced image processing algorithms and a better exploitation of image archives are required to facilitate the use of microwave remote sensing data for monitoring flood dynamics in urban areas. This work presents a new way to efficiently process SAR data for enhanced flood detection. The purpose is to develop a fully automatic image classification method based on image statistics that can be applied to all existing SAR data sets and to different types of flooded regions, including urban settlements. A hybrid methodology combining radiometric thresholding, region growing and change detection is introduced as an approach enabling the automated, objective and reliable flood extent extraction from very high-resolution urban SAR images. The method is based on the calibration of a statistical distribution of "open water" backscatter values inferred from SAR images of floods. SAR images acquired during dry conditions enable the identification of i) areas that are located in "shadow" regions and are therefore not visible to the sensor and ii) areas that systematically behave as specular reflectors (e.g. smooth tarmac, permanent water bodies). Change detection with respect to a pre-flood reference image thereby reduces over-detection of inundated areas. A case study of the July 2007 Severn River flood (UK) observed by the very high-resolution SAR sensor on board TerraSAR-X as well as airborne photography highlights advantages and limitations of the proposed method. We conclude that the fully automated SAR-based flood mapping technique overcomes some limitations of state-of-the-art methods normally used. However, further technological

  11. A high-resolution cat radiation hybrid and integrated FISH mapping resource for phylogenomic studies across Felidae.

    PubMed

    Davis, Brian W; Raudsepp, Terje; Pearks Wilkerson, Alison J; Agarwala, Richa; Schäffer, Alejandro A; Houck, Marlys; Chowdhary, Bhanu P; Murphy, William J

    2009-04-01

    We describe the construction of a high-resolution radiation hybrid (RH) map of the domestic cat genome, which includes 2662 markers, translating to an estimated average intermarker distance of 939 kilobases (kb). Targeted marker selection utilized the recent feline 1.9x genome assembly, concentrating on regions of low marker density on feline autosomes and the X chromosome, in addition to regions flanking interspecies chromosomal breakpoints. Average gap (breakpoint) size between cat-human ordered conserved segments is less than 900 kb. The map was used for a fine-scale comparison of conserved syntenic blocks with the human and canine genomes. Corroborative fluorescence in situ hybridization (FISH) data were generated using 129 domestic cat BAC clones as probes, providing independent confirmation of the long-range correctness of the map. Cross-species hybridization of BAC probes on divergent felids from the genera Profelis (serval) and Panthera (snow leopard) provides further evidence for karyotypic conservation within felids, and demonstrates the utility of such probes for future studies of chromosome evolution within the cat family and in related carnivores. The integrated map constitutes a comprehensive framework for identifying genes controlling feline phenotypes of interest, and to aid in assembly of a higher coverage feline genome sequence.

  12. A high-resolution cat radiation hybrid and integrated FISH mapping resource for phylogenomic studies across Felidae.

    PubMed

    Davis, Brian W; Raudsepp, Terje; Pearks Wilkerson, Alison J; Agarwala, Richa; Schäffer, Alejandro A; Houck, Marlys; Chowdhary, Bhanu P; Murphy, William J

    2009-04-01

    We describe the construction of a high-resolution radiation hybrid (RH) map of the domestic cat genome, which includes 2662 markers, translating to an estimated average intermarker distance of 939 kilobases (kb). Targeted marker selection utilized the recent feline 1.9x genome assembly, concentrating on regions of low marker density on feline autosomes and the X chromosome, in addition to regions flanking interspecies chromosomal breakpoints. Average gap (breakpoint) size between cat-human ordered conserved segments is less than 900 kb. The map was used for a fine-scale comparison of conserved syntenic blocks with the human and canine genomes. Corroborative fluorescence in situ hybridization (FISH) data were generated using 129 domestic cat BAC clones as probes, providing independent confirmation of the long-range correctness of the map. Cross-species hybridization of BAC probes on divergent felids from the genera Profelis (serval) and Panthera (snow leopard) provides further evidence for karyotypic conservation within felids, and demonstrates the utility of such probes for future studies of chromosome evolution within the cat family and in related carnivores. The integrated map constitutes a comprehensive framework for identifying genes controlling feline phenotypes of interest, and to aid in assembly of a higher coverage feline genome sequence. PMID:18951970

  13. High-resolution physical mapping in Pennisetum squamulatum reveals extensive chromosomal heteromorphism of the genomic region associated with apomixis.

    PubMed

    Akiyama, Yukio; Conner, Joann A; Goel, Shailendra; Morishige, Daryl T; Mullet, John E; Hanna, Wayne W; Ozias-Akins, Peggy

    2004-04-01

    Gametophytic apomixis is asexual reproduction as a consequence of parthenogenetic development of a chromosomally unreduced egg. The trait leads to the production of embryos with a maternal genotype, i.e. progeny are clones of the maternal plant. The application of the trait in agriculture could be a tremendous tool for crop improvement through conventional and nonconventional breeding methods. Unfortunately, there are no major crops that reproduce by apomixis, and interspecific hybridization with wild relatives has not yet resulted in commercially viable germplasm. Pennisetum squamulatum is an aposporous apomict from which the gene(s) for apomixis has been transferred to sexual pearl millet by backcrossing. Twelve molecular markers that are linked with apomixis coexist in a tight linkage block called the apospory-specific genomic region (ASGR), and several of these markers have been shown to be hemizygous in the polyploid genome of P. squamulatum. High resolution genetic mapping of these markers has not been possible because of low recombination in this region of the genome. We now show the physical arrangement of bacterial artificial chromosomes containing apomixis-linked molecular markers by high resolution fluorescence in situ hybridization on pachytene chromosomes. The size of the ASGR, currently defined as the entire hemizygous region that hybridizes with apomixis-linked bacterial artificial chromosomes, was estimated on pachytene and mitotic chromosomes to be approximately 50 Mbp (a quarter of the chromosome). The ASGR includes highly repetitive sequences from an Opie-2-like retrotransposon family that are particularly abundant in this region of the genome.

  14. History of the clay-rich unit at Mawrth Vallis, Mars: High-resolution mapping of a candidate landing site

    NASA Astrophysics Data System (ADS)

    Loizeau, D.; Mangold, N.; Poulet, F.; Bibring, J.-P.; Bishop, J. L.; Michalski, J.; Quantin, C.

    2015-11-01

    The Mawrth Vallis region is covered by some of the largest phyllosilicate-rich outcrops on Mars, making it a unique window into the past history of Mars in terms of water alteration, potential habitability, and the search for past life. A landing ellipse had been proposed for the Curiosity rover. This area has been extensively observed by the High Resolution Imaging Science Experiment and the Compact Reconnaissance Imaging Spectrometer for Mars, offering the possibility to produce geologic, structural, and topographic maps at very high resolution. These observations provide an unprecedented detailed context of the rocks at Mawrth Vallis, in terms of deposition, alteration, erosion, and mechanical constraints. Our analyses demonstrate the presence of a variety of alteration environments on the surface and readily accessible to a rover, the presence of flowing water at the surface postdating the formation of the clay-rich units, and evidence for probable circulation of fluids in the rocks at different depths. These rocks undergo continuous erosion, creating fresh outcrops where potential biomarkers may have been preserved. The diversity of aqueous environments over geological time coupled to excellent preservation properties make the area a very strong candidate for future robotic investigation on Mars, like the NASA Mars 2020 mission.

  15. A flat Universe from high-resolution maps of the cosmic microwave background radiation

    PubMed

    de Bernardis P; Ade; Bock; Bond; Borrill; Boscaleri; Coble; Crill; De Gasperis G; Farese; Ferreira; Ganga; Giacometti; Hivon; Hristov; Iacoangeli; Jaffe; Lange; Martinis; Masi; Mason; Mauskopf; Melchiorri; Miglio; Montroy; Netterfield

    2000-04-27

    The blackbody radiation left over from the Big Bang has been transformed by the expansion of the Universe into the nearly isotropic 2.73 K cosmic microwave background. Tiny inhomogeneities in the early Universe left their imprint on the microwave background in the form of small anisotropies in its temperature. These anisotropies contain information about basic cosmological parameters, particularly the total energy density and curvature of the Universe. Here we report the first images of resolved structure in the microwave background anisotropies over a significant part of the sky. Maps at four frequencies clearly distinguish the microwave background from foreground emission. We compute the angular power spectrum of the microwave background, and find a peak at Legendre multipole Ipeak = (197 +/- 6), with an amplitude delta T200 = (69 +/- 8) microK. This is consistent with that expected for cold dark matter models in a flat (euclidean) Universe, as favoured by standard inflationary models.

  16. A high-resolution land-use map; Nogales, Sonora, Mexico

    USGS Publications Warehouse

    Norman, Laura M.; Villarreal, Miguel L.; Wallace, Cynthia S.A.; Gil Anaya, Claudia Z.; Diaz Arcos, Israel; Gray, Floyd

    2010-01-01

    The cities of Nogales, Sonora, and Nogales, Arizona, are located in the Ambos Nogales Watershed, a topographically irregular bowl-shaped area with a northward gradient. Throughout history, residents in both cities have been affected by flooding. Currently, the primary method for regulating this runoff is to build a series of detention basins in Nogales, Sonora. Additionally, the municipality also is considering land-use planning to help mitigate flooding. This paper describes the production of a 10-meter resolution land-use map, derived from 2008 aerial photos of the Nogales, Sonora Watershed for modeling impacts of the detention basin construction and in support of an ?Early Warning Hazard System? for the region.

  17. High-resolution global maps of 21st-century forest cover change

    USGS Publications Warehouse

    Hansen, M.C.; Potapov, P.V.; Moore, R.; Hancher, M.; Turubanova, S.A.; Tyukavina, A.; Thau, D.; Stehman, S.V.; Goetz, S.J.; Loveland, T.R.; Kommareddy, A.; Egorov, A.; Chini, L.; Justice, C.O.; Townshend, J.R.G.

    2013-01-01

    Quantification of global forest change has been lacking despite the recognized importance of forest ecosystem services. In this study, Earth observation satellite data were used to map global forest loss (2.3 million square kilometers) and gain (0.8 million square kilometers) from 2000 to 2012 at a spatial resolution of 30 meters. The tropics were the only climate domain to exhibit a trend, with forest loss increasing by 2101 square kilometers per year. Brazil’s well-documented reduction in deforestation was offset by increasing forest loss in Indonesia, Malaysia, Paraguay, Bolivia, Zambia, Angola, and elsewhere. Intensive forestry practiced within subtropical forests resulted in the highest rates of forest change globally. Boreal forest loss due largely to fire and forestry was second to that in the tropics in absolute and proportional terms. These results depict a globally consistent and locally relevant record of forest change.

  18. High-resolution global maps of 21st-century forest cover change.

    PubMed

    Hansen, M C; Potapov, P V; Moore, R; Hancher, M; Turubanova, S A; Tyukavina, A; Thau, D; Stehman, S V; Goetz, S J; Loveland, T R; Kommareddy, A; Egorov, A; Chini, L; Justice, C O; Townshend, J R G

    2013-11-15

    Quantification of global forest change has been lacking despite the recognized importance of forest ecosystem services. In this study, Earth observation satellite data were used to map global forest loss (2.3 million square kilometers) and gain (0.8 million square kilometers) from 2000 to 2012 at a spatial resolution of 30 meters. The tropics were the only climate domain to exhibit a trend, with forest loss increasing by 2101 square kilometers per year. Brazil's well-documented reduction in deforestation was offset by increasing forest loss in Indonesia, Malaysia, Paraguay, Bolivia, Zambia, Angola, and elsewhere. Intensive forestry practiced within subtropical forests resulted in the highest rates of forest change globally. Boreal forest loss due largely to fire and forestry was second to that in the tropics in absolute and proportional terms. These results depict a globally consistent and locally relevant record of forest change. PMID:24233722

  19. A Flat Universe from High-Resolution Maps of the Cosmic MicrowaveBackground Radiation

    SciTech Connect

    de Bernardis, P.; Ade, P.A.R.; Bock, J.J.; Bond, J.R.; Borrill,J.; Boscaleri, A.; Coble, K.; Crill, B.P.; De Gasperis, G.; Farese, P.C.; Ferreira, P.G.; Ganga, K.; Giacometti, M.; Hivon, E.; Hristov, V.V.; Iacoangeli, A.; Jaffe, A.H.; Lange, A.E.; Martinis, L.; Masi, S.; Mason,P.; Mauskopf, P.D.; Melchiorri, A.; Miglio, L.; Montroy, T.; Netterfield,C.B.; Pascale, E.; Piacentini, F.; Pogosyan, D.; Prunet, S.; Rao, S.; Romeo, G.; Ruhl, J.E.; Scaramuzzi, F.; Sforna, D.; Vittorio, N.

    2000-04-28

    The blackbody radiation left over from the Big Bang has been transformed by the expansion of the Universe into the nearly isotropic 2.73 K Cosmic Microwave Background. Tiny inhomogeneities in the early Universe left their imprint on the microwave background in the form of small anisotropies in its temperature. These anisotropies contain information about basic cosmological parameters, particularly the total energy density and curvature of the universe. Here we report the first images of resolved structure in the microwave background anisotropies over a significant part of the sky. Maps at four frequencies clearly distinguish the microwave background from foreground emission. We compute the angular power spectrum of the microwave background, and find a peak at Legendre multipole {ell}{sub peak} = (197 {+-} 6), with an amplitude DT{sub 200} = (69 {+-} 8){mu}K. This is consistent with that expected for cold dark matter models in a flat (euclidean) Universe, as favored by standard inflationary scenarios.

  20. High-resolution global maps of 21st-century forest cover change.

    PubMed

    Hansen, M C; Potapov, P V; Moore, R; Hancher, M; Turubanova, S A; Tyukavina, A; Thau, D; Stehman, S V; Goetz, S J; Loveland, T R; Kommareddy, A; Egorov, A; Chini, L; Justice, C O; Townshend, J R G

    2013-11-15

    Quantification of global forest change has been lacking despite the recognized importance of forest ecosystem services. In this study, Earth observation satellite data were used to map global forest loss (2.3 million square kilometers) and gain (0.8 million square kilometers) from 2000 to 2012 at a spatial resolution of 30 meters. The tropics were the only climate domain to exhibit a trend, with forest loss increasing by 2101 square kilometers per year. Brazil's well-documented reduction in deforestation was offset by increasing forest loss in Indonesia, Malaysia, Paraguay, Bolivia, Zambia, Angola, and elsewhere. Intensive forestry practiced within subtropical forests resulted in the highest rates of forest change globally. Boreal forest loss due largely to fire and forestry was second to that in the tropics in absolute and proportional terms. These results depict a globally consistent and locally relevant record of forest change.

  1. High-resolution magnetoencephalographic functional mapping of the cortical network mediating intentional movement.

    PubMed

    Amo, Carlos; Boyajian, Robert A; Romine, John S; Otis, Shirley M

    2007-04-01

    Magnetoencephalography (MEG) is a sensitive technique that can detect and map cortical electrophysiologic activations with high spatial (mm) and temporal (msecs) resolutions. We used 148-channel whole-head MEG to record the activation sequence for the somatosensory and motor cortical network during cued hand movements in a healthy 39-yr-old subject. The complex sequence and topography of cortical activations were superimposed onto the subject's brain magnetic resonance images. Frontal premotor and supplementary motor and cingulate areas activated well before the primary motor area and again repetitively from 200 msecs onward with activations alternating repeatedly between frontal and parietal areas. The network's very close functional integration of supplementary motor areas suggests how brain injury that is localized to these regions, but not to the primary motor area itself, can disrupt integrity of movement, and why preservation of functional integrity of some areas traditionally viewed as extramotor may be necessary for recovery from neurologic disability.

  2. Building high-resolution synthetic lethal networks: a 'Google map' of the cancer cell.

    PubMed

    Paul, James M; Templeton, Shaina D; Baharani, Akanksha; Freywald, Andrew; Vizeacoumar, Franco J

    2014-12-01

    The most commonly used therapies for cancer involve delivering high doses of radiation or toxic chemicals to the patient that also cause substantial damage to normal tissue. To overcome this, researchers have recently resorted to a basic biological concept called 'synthetic lethality' (SL) that takes advantage of interactions between gene pairs. The identification of SL interactions is of considerable therapeutic interest because if a particular gene is SL with a tumor-causing mutation, then the targeting that gene carries therapeutic advantages. Mapping these interactions in the context of human cancer cells could hold the key to effective, targeted cancer treatments. In this review, we cover the recent advances that aim to identify these SL interactions using unbiased genetic screens.

  3. High-resolution mapping and genetic characterization of the Lazy-2 gravitropic mutant of tomato

    NASA Technical Reports Server (NTRS)

    Behringer, F. J.; Lomax, T. L.

    1999-01-01

    Mutation of the Lazy-2 (Lz-2) gene in tomato (Lycopersicon esculentum mill.) produces a phytochrome-dependent reversal of shoot gravitropism, providing a unique genetic resource for investigating how signals from light modulate gravitropism. We mapped the Lz-2 gene using RFLPs and a PCR-based technique to assess the feasibility of positional cloning. Analysis of a 1338 plant backcross population between L. esculentum and L. pennellii placed Lz-2 within a 1.2 cM interval on chromosome 5, 0.4 cM from TG504-CT201A interval. The inabililty to resolve these markers indicates that Lz-2 resides in a centromeric region in which recombination is highly suppressed. Lazy-2 is tightly linked to but does not encode the gene for ACC4, an enzyme involved in ethylene biosynthesis. We also observed that Lz-2 is partially dominant under certain conditions and stages of development.

  4. High Resolution Mapping of Bactericidal Monoclonal Antibody Binding Epitopes on Staphylococcus aureus Antigen MntC

    PubMed Central

    Gribenko, Alexey V.; Parris, Kevin; Mosyak, Lidia; Li, Sheng; Handke, Luke; Hawkins, Julio C.; Severina, Elena; Matsuka, Yury V.; Anderson, Annaliesa S.

    2016-01-01

    The Staphylococcus aureus manganese transporter protein MntC is under investigation as a component of a prophylactic S.aureus vaccine. Passive immunization with monoclonal antibodies mAB 305-78-7 and mAB 305-101-8 produced using MntC was shown to significantly reduce S. aureus burden in an infant rat model of infection. Earlier interference mapping suggested that a total of 23 monoclonal antibodies generated against MntC could be subdivided into three interference groups, representing three independent immunogenic regions. In the current work binding epitopes for selected representatives of each of these interference groups (mAB 305-72-5 – group 1, mAB 305-78-7 – group 2, and mAB 305-101-8 – group 3) were mapped using Hydrogen-Deuterium Exchange Mass Spectrometry (DXMS). All of the identified epitopes are discontinuous, with binding surface formed by structural elements that are separated within the primary sequence of the protein but adjacent in the context of the three-dimensional structure. The approach was validated by co-crystallizing the Fab fragment of one of the antibodies (mAB 305-78-7) with MntC and solving the three-dimensional structure of the complex. X-ray results themselves and localization of the mAB 305-78-7 epitope were further validated using antibody binding experiments with MntC variants containing substitutions of key amino acid residues. These results provided insight into the antigenic properties of MntC and how these properties may play a role in protecting the hostagainst S. aureus infection by preventing the capture and transport of Mn2+, a key element that the pathogen uses to evade host immunity. PMID:27689696

  5. High-resolution genetic mapping of mammalian motor activity levels in mice.

    PubMed

    Kas, M J H; de Mooij-van Malsen, J G; de Krom, M; van Gassen, K L I; van Lith, H A; Olivier, B; Oppelaar, H; Hendriks, J; de Wit, M; Groot Koerkamp, M J A; Holstege, F C P; van Oost, B A; de Graan, P N E

    2009-02-01

    The generation of motor activity levels is under tight neural control to execute essential behaviors, such as movement toward food or for social interaction. To identify novel neurobiological mechanisms underlying motor activity levels, we studied a panel of chromosome substitution (CS) strains derived from mice with high (C57BL/6J strain) or low motor activity levels (A/J strain) using automated home cage behavioral registration. In this study, we genetically mapped the expression of baseline motor activity levels (horizontal distance moved) to mouse chromosome 1. Further genetic mapping of this trait revealed an 8.3-Mb quantitative trait locus (QTL) interval. This locus is distinct from the QTL interval for open-field anxiety-related motor behavior on this chromosome. By data mining, an existing phenotypic and genotypic data set of 2445 genetically heterogeneous mice (http://gscan.well.ox.ac.uk/), we confirmed linkage to the peak marker at 79 970 253 bp and refined the QTL to a 312-kb interval containing a single gene (A830043J08Rik). Sequence analysis showed a nucleotide deletion in the 3' untranslated region of the Riken gene. Genome-wide microarray gene expression profiling in brains of discordant F(2) individuals from CS strain 1 showed a significant upregulation of Epha4 in low-active F(2) individuals. Inclusion of a genetic marker for Epha4 confirmed that this gene is located outside of the QTL interval. Both Epha4 and A830043J08Rik are expressed in brain motor circuits, and similar to Epha4 mutants, we found linkage between reduced motor neurons number and A/J chromosome 1. Our findings provide a novel QTL and a potential downstream target underlying motor circuitry development and the expression of physical activity levels.

  6. Efficient high-resolution genetic mapping of mouse interspersed repetitive sequence PCR products, toward integrated genetic and physical mapping of the mouse genome.

    PubMed Central

    McCarthy, L; Hunter, K; Schalkwyk, L; Riba, L; Anson, S; Mott, R; Newell, W; Bruley, C; Bar, I; Ramu, E

    1995-01-01

    The ability to carry out high-resolution genetic mapping at high throughput in the mouse is a critical rate-limiting step in the generation of genetically anchored contigs in physical mapping projects and the mapping of genetic loci for complex traits. To address this need, we have developed an efficient, high-resolution, large-scale genome mapping system. This system is based on the identification of polymorphic DNA sites between mouse strains by using interspersed repetitive sequence (IRS) PCR. Individual cloned IRS PCR products are hybridized to a DNA array of IRS PCR products derived from the DNA of individual mice segregating DNA sequences from the two parent strains. Since gel electrophoresis is not required, large numbers of samples can be genotyped in parallel. By using this approach, we have mapped > 450 polymorphic probes with filters containing the DNA of up to 517 backcross mice, potentially allowing resolution of 0.14 centimorgan. This approach also carries the potential for a high degree of efficiency in the integration of physical and genetic maps, since pooled DNAs representing libraries of yeast artificial chromosomes or other physical representations of the mouse genome can be addressed by hybridization of filter representations of the IRS PCR products of such libraries. Images Fig. 1 Fig. 2 Fig. 4 Fig. 5 PMID:7777502

  7. Heterozygous Mapping Strategy (HetMappS) for High Resolution Genotyping-By-Sequencing Markers: A Case Study in Grapevine

    PubMed Central

    Wang, Minghui; Londo, Jason P.; Acharya, Charlotte B.; Mitchell, Sharon E.; Sun, Qi; Reisch, Bruce; Cadle-Davidson, Lance

    2015-01-01

    Genotyping by sequencing (GBS) provides opportunities to generate high-resolution genetic maps at a low genotyping cost, but for highly heterozygous species, missing data and heterozygote undercalling complicate the creation of GBS genetic maps. To overcome these issues, we developed a publicly available, modular approach called HetMappS, which functions independently of parental genotypes and corrects for genotyping errors associated with heterozygosity. For linkage group formation, HetMappS includes both a reference-guided synteny pipeline and a reference-independent de novo pipeline. The de novo pipeline can be utilized for under-characterized or high diversity families that lack an appropriate reference. We applied both HetMappS pipelines in five half-sib F1 families involving genetically diverse Vitis spp. Starting with at least 116,466 putative SNPs per family, the HetMappS pipelines identified 10,440 to 17,267 phased pseudo-testcross (Pt) markers and generated high-confidence maps. Pt marker density exceeded crossover resolution in all cases; up to 5,560 non-redundant markers were used to generate parental maps ranging from 1,047 cM to 1,696 cM. The number of markers used was strongly correlated with family size in both de novo and synteny maps (r = 0.92 and 0.91, respectively). Comparisons between allele and tag frequencies suggested that many markers were in tandem repeats and mapped as single loci, while markers in regions of more than two repeats were removed during map curation. Both pipelines generated similar genetic maps, and genetic order was strongly correlated with the reference genome physical order in all cases. Independently created genetic maps from shared parents exhibited nearly identical results. Flower sex was mapped in three families and correctly localized to the known sex locus in all cases. The HetMappS pipeline could have wide application for genetic mapping in highly heterozygous species, and its modularity provides opportunities to

  8. Feature selection from high resolution remote sensing data for biotope mapping

    NASA Astrophysics Data System (ADS)

    Bindel, M.; Hese, S.; Berger, C.; Schmullius, C.

    2011-09-01

    Mapping of Landscape Protection Areas with regard to user requirements for detailed land cover and biotope classes has been limited by the spatial and temporal resolution of Earth observation data. The synergistic use of new generation optical and SAR data may overcome these limitations. The presented work is part of the ENVILAND-2 project, which focuses on the complementary use of RapidEye and TerraSAR-X data to derive land cover and biotope classes as needed by the Environmental Agencies. The goal is to semi-automatically update the corresponding maps by utilising more Earth observation data and less field work derived information. Properties of both sensors are used including the red edge band of the RapidEye system and the high spatial and temporal resolution TerraSAR-X data.The main part of this work concentrates on the process of feature selection. Based upon multi-temporal optical and SAR data various features like textural measurements, spectral features and vegetation indices can be computed. The resulting information stacks can easily exceed hundreds of layers. The goal of this work is to reduce these information layers to get a set of decorrelated features for the classification of biotope types. The first step is to evaluate possible features. Followed by a feature extraction and pre-processing. The pre-processing contains outlier removal and feature normalization. The next step describes the process of feature selection and is divided into two parts. The first part is a regression analysis to remove redundant information. The second part constitutes the class separability analysis. For the remaining features and for every class combination present in the study area different separability measurements like divergence or Jeffries-Matusita distance are computed. As result there is a set of features for every class providing the highest class separability values. As the final step an evaluation is performed to estimate how much features for a class are

  9. Reducing Uncertainties in Satellite-derived Forest Aboveground Biomass Estimates using a High Resolution Forest Cover Map

    NASA Astrophysics Data System (ADS)

    Zhang, G.; Ganguly, S.; Nemani, R. R.; Milesi, C.; Basu, S.; Kumar, U.

    2014-12-01

    Several studies to date have provided an extensive knowledge base for estimating forest aboveground biomass (AGB) and recent advances in space-based modeling of the 3-D canopy structure, combined with canopy reflectance measured by passive optical sensors and radar backscatter, are providing improved satellite-derived AGB density mapping for large scale carbon monitoring applications. A key limitation in forest AGB estimation from remote sensing, however, is the large uncertainty in forest cover estimates from the coarse-to-medium resolution satellite-derived land cover maps (present resolution is limited to 30-m of the USGS NLCD Program). The uncertainties in forest cover estimates at the Landsat scale result in high uncertainties for AGB estimation, predominantly in heterogeneous forest and urban landscapes. We have successfully developed an approach using a machine learning algorithm and High-Performance-Computing with NAIP air-borne imagery data for mapping tree cover at 1-m over California and Maryland. In a comparison with high resolution LiDAR data available over selected regions in the two states, we found our results to be promising both in terms of accuracy as well as our ability to scale nationally. The generated 1-m forest cover map will be aggregated to the Landsat spatial grid to demonstrate differences in AGB estimates (pixel-level AGB density, total AGB at aggregated scales like ecoregions and counties) when using a native 30-m forest cover map versus a 30-m map derived from a higher resolution dataset. The process will also be complemented with a LiDAR derived AGB estimate at the 30-m scale to aid in true validation.

  10. Mid-IR DIAL for high-resolution mapping of explosive precursors

    NASA Astrophysics Data System (ADS)

    Mitev, V.; Babichenko, S.; Bennes, J.; Borelli, R.; Dolfi-Bouteyre, A.; Fiorani, L.; Hespel, L.; Huet, T.; Palucci, A.; Pistilli, M.; Puiu, A.; Rebane, O.; Sobolev, I.

    2013-10-01

    A DIAL instrument on a moving platform is seen as a valuable remote sensing component in a sensor network for area monitoring, targeting sites involved in unauthorised explosive manufacturing. Such instrument will perform the area mapping of the vapour concentration of key substances, known to be used as precursors in explosive fabrication, such as acetone and nitromethane. The IR spectra of acetone and nitromethane vapours have been defined from available spectroscopy databases and from laboratory measurements as showing optimal spectral band for the DIAL operation in the spectral range of 3.0 μm - 3.5 μm. The DIAL operation has been numerically simulated, with inputs based on the HITRAN database, the U.S. Standard Atmosphere and aerosol simulation software package OPAC. A combination of OPO and OPA has been chosen as a transmitter, where the idler wavelength is used for probing, with wavelength tuning in sequence. A scanner mounted on top of the coaxially aligned laser and receiver, is capable of covering almost 360 degrees horizontally and +/-30 degrees vertically. The detection is performed by a photovoltaic photodiode with 4-stage cooling, with a signal digitalisation having 14 bit amplitude resolution and 125 Ms/s sampling rate. Here we present the development and the first test of the DIAL instrument.

  11. Euro-Maps 3D- A Transnational, High-Resolution Digital Surface Model For Europe

    NASA Astrophysics Data System (ADS)

    Uttenthaler, A.; Barner, F.; Hass, T.; Makiola, J.; d'Angelo, P.; Reinartz, P.; Carl, S.; Steiner, K.

    2013-12-01

    Euro-Maps 3D is a homogeneous 5 m spaced digital surface model (DSM) semi-automatically derived by Euromap from 2.5 m in-flight stereo data provided by the Indian IRS-P5 Cartosat-1 satellite. This new and innovative product has been developed in close co- operation with the Remote Sensing Technology Institute (IMF) of the German Aerospace Center (DLR) and is being jointly exploited. The very detailed and accurate representation of the surface is achieved by using a sophisticated and well adapted algorithm implemented on the basis of the Semi-Global Matching approach. In addition, the final product includes detailed flanking information consisting of several pixel-based quality and traceability layers also including an ortho layer. The product is believed to provide maximum accuracy and transparency. The DSM product meets and exceeds HRE80 qualification standards. The DSM product will be made available transnational in a homogeneous quality for most parts of Europe, North Africa and Turkey by Euromap step-by-step. Other areas around the world are processed on demand.

  12. Earth elevation map production and high resolution sensing camera imaging analysis

    NASA Astrophysics Data System (ADS)

    Yang, Xiubin; Jin, Guang; Jiang, Li; Dai, Lu; Xu, Kai

    2010-11-01

    The Earth's digital elevation which impacts space camera imaging has prepared and imaging has analysed. Based on matching error that TDI CCD integral series request of the speed of image motion, statistical experimental methods-Monte Carlo method is used to calculate the distribution histogram of Earth's elevation in image motion compensated model which includes satellite attitude changes, orbital angular rate changes, latitude, longitude and the orbital inclination changes. And then, elevation information of the earth's surface from SRTM is read. Earth elevation map which produced for aerospace electronic cameras is compressed and spliced. It can get elevation data from flash according to the shooting point of latitude and longitude. If elevation data between two data, the ways of searching data uses linear interpolation. Linear interpolation can better meet the rugged mountains and hills changing requests. At last, the deviant framework and camera controller are used to test the character of deviant angle errors, TDI CCD camera simulation system with the material point corresponding to imaging point model is used to analyze the imaging's MTF and mutual correlation similarity measure, simulation system use adding cumulation which TDI CCD imaging exceeded the corresponding pixel horizontal and vertical offset to simulate camera imaging when stability of satellite attitude changes. This process is practicality. It can effectively control the camera memory space, and meet a very good precision TDI CCD camera in the request matches the speed of image motion and imaging.

  13. A high-resolution map in the chromosomal region surrounding the Lps locus

    SciTech Connect

    Qureshi, S.T.; Lariviere, L.; Gros, P.

    1996-02-01

    The Lps locus on mouse chromosome 4 controls host responsiveness to lipopolysaccharide, a major component of the outer membrane of Gram-negative bacteria. The C3H/HeJ inbred mouse strain is characterized by a mutant Lps allele (Lps{sup d}) that renders it hyporesponsive to LPS and naturally tolerant of its lethal effects. To identify the Lps gene by a positional cloning strategy, we have analyzed a total of 1604 backcross mice from a preexisting interspecific backcross panel of 259 (Mus spretus x C57BL/6J)F1 x C57BL/6J and two novel panels of 597 (DBA/2J x C3H/HeJ)F1 x C3H/HeJ and 748 (C57BL/6J x C3H/HeJ)F1 x C3H/HeJ segregating at Lps. A total of 50 DNA markers have been mapped in a 11.8-cM span overlapping the Lps locus. This positions the Lps locus within a 1.1-cM interval, flanked proximally by a large cluster of markers, including three known genes (Cd30l, Hxb, and Ambp), and distally by two microsatellite markers (D4Mit7/D4Mit178). The localization of the Lps locus is several centimorgans proximal to that previously assigned. 52 refs., 5 figs., 2 tabs.

  14. High-resolution mapping of the gene for cystinosis, using combined biochemical and linkage analysis

    SciTech Connect

    Jean, G.; Fuchshuber, A.; Gribouval, O.

    1996-03-01

    Infantile nephropathic cystinosis is an autosomal recessive disorder characterized biochemically by an abnormally high intracellular content of free cystine in different organs and tissues due to a transport defect of cystine through the lysosomal membrane. Affected children present with the Fanconi syndrome and usually develop progressive renal failure within the 1st decade of life. Measurement of free cystine in purified polymorphonuclear leukocytes provides an accurate method for diagnosis and detection of heterozygous carriers previously determined by their leukocyte cystine content in the linkage analysis. This approach allowed us to obtain highly significant results, confirming the localization of the cystinosis gene locus recently mapped to the short arm of chromosome 17 by the Cystinosis Collaborative Research Group. Crucial recombination events allowed us to refine the interval of the cystinosis gene to a genetic distance of 1 cM. No evidence of genetic heterogeneity was found. Our results demonstrate that the use of the previously determined phenotypes of heterozygous carriers in linkage analysis provides a reliable method for the investigation of simplex families in autosomal recessive traits. 25 refs., 4 figs., 1 tab.

  15. High resolution micro-XRF maps of iron oxides inside sensory dendrites of putative avian magnetoreceptors

    NASA Astrophysics Data System (ADS)

    Falkenberg, G.; Fleissner, G. E.; Fleissner, G. U. E.; Schuchardt, K.; Kühbacher, M.; Chalmin, E.; Janssens, K.

    2009-09-01

    Iron mineral containing sensory dendrites in the inner lining of the upper beak of homing pigeons [1] and various bird species [2] are the first candidate structures for an avian magnetic field receptor. A new concept of magnetoreception [3, 4] is based on detailed ultra-structural optical and electron microscopy analyses in combination with synchrotron radiation microscopic X-ray fluorescence analysis (micro-XRF) and microscopic X-ray absorption near edge structures (micro-XANES). Several behavioral experiments [5, 6] and first mathematical simulations [6] affirm our avian magnetoreceptor model. The iron minerals inside the dendrites are housed in three different subcellular compartments (bullets, platelets, vesicles), which could be clearly resolved and identified by electron microscopy on ultrathin sections [1, 3]. Micro-XRF and micro-XANES data obtained at HASYLAB beamline L added information about the elemental distribution and Fe speciation [3], but are averaged over the complete dendrite due to limited spatial resolution. Here we present recently performed micro-XRF maps with sub-micrometer resolution (ESRF ID21), which reveal for the first time subcellular structural information from almost bulk-like dendrite sample material. Due to the thickness of 30 μm the microarchitecture of the dendrites can be considered as undisturbed and artefacts introduced by sectioning might be widely reduced.

  16. High-resolution genetic mapping of allelic variants associated with cell wall chemistry in Populus

    SciTech Connect

    Muchero, Wellington; Guo, Jianjun; Difazio, Stephen P.; Chen, Jay; Ranjan, Priya; Slavov, Gancho; Gunter, Lee E.; Jawdy, Sara; Bryan, Anthony C.; Sykes, Robert; Ziebell, Angela L.; Klapste, Jaroslav; Porth, Ilga; Skyba, Oleksandr; Unda, Faride; El-Kassaby, Yousry; Douglas, Carl; Mansfield, Shawn; Martin, Joel; Schackwitz, Wendy; Evans, Luke M.; Czarnecki, Olaf; Tuskan, Gerald A.

    2015-01-23

    We report the identification of six genetic loci and the allelic-variants associated with Populus cell wall phenotypes determined independently using pyrolysis Molecular Beam Mass Spectrometry (pyMBMS), saccharification assay and wet chemistry in two partially overlapping populations of P. trichocarpa genotypes sampled from multiple environments in the Pacific Northwest of North America. All 6 variants co-located with a quantitative trait locus (QTL) hotspot on chromosome XIV for lignin content, syringyl to guaiacyl (S/G) ratio, 5- and 6- carbon sugars identified in an interspecific P. trichocarpa x P. deltoides pseudo-backcross mapping pedigree. Genomic intervals containing an amino acid transporter, a MYB transcription factor, an angustifolia CtBP transcription factor, a copper transport protein ATOX1-related, a Ca2+ transporting ATPase and a protein kinase were identified within 5 QTL regions. Each interval contained single nucleotide polymorphisms (SNPs) that were significantly associated to cell-wall phenotypes, with associations exceeding the chromosome-wise Bonferroni-adjusted p-values in at least one environment. cDNA sequencing for allelic variants of 3 of the 6 genes identified polymorphisms leading to premature stop codons in the MYB transcription factor and protein kinase. On the other hand, variants of the Angustifolia CtBP transcription factor exhibited a polyglutamine (PolyQ) length polymorphism. Results from transient protoplast assays suggested that each of the polymorphisms conferred allelic differences in activation of cellulose, hemicelluloses and lignin pathway marker genes, with truncated and short PolyQ alleles exhibiting significantly reduced marker gene activation. Genes identified in this study represent novel targets for reducing cell wall recalcitrance for lignocellulosic biofuels production using plant biomass.

  17. High-resolution genetic mapping of allelic variants associated with cell wall chemistry in Populus

    DOE PAGES

    Muchero, Wellington; Guo, Jianjun; Difazio, Stephen P.; Chen, Jay; Ranjan, Priya; Slavov, Gancho; Gunter, Lee E.; Jawdy, Sara; Bryan, Anthony C.; Sykes, Robert; et al

    2015-01-23

    We report the identification of six genetic loci and the allelic-variants associated with Populus cell wall phenotypes determined independently using pyrolysis Molecular Beam Mass Spectrometry (pyMBMS), saccharification assay and wet chemistry in two partially overlapping populations of P. trichocarpa genotypes sampled from multiple environments in the Pacific Northwest of North America. All 6 variants co-located with a quantitative trait locus (QTL) hotspot on chromosome XIV for lignin content, syringyl to guaiacyl (S/G) ratio, 5- and 6- carbon sugars identified in an interspecific P. trichocarpa x P. deltoides pseudo-backcross mapping pedigree. Genomic intervals containing an amino acid transporter, a MYB transcriptionmore » factor, an angustifolia CtBP transcription factor, a copper transport protein ATOX1-related, a Ca2+ transporting ATPase and a protein kinase were identified within 5 QTL regions. Each interval contained single nucleotide polymorphisms (SNPs) that were significantly associated to cell-wall phenotypes, with associations exceeding the chromosome-wise Bonferroni-adjusted p-values in at least one environment. cDNA sequencing for allelic variants of 3 of the 6 genes identified polymorphisms leading to premature stop codons in the MYB transcription factor and protein kinase. On the other hand, variants of the Angustifolia CtBP transcription factor exhibited a polyglutamine (PolyQ) length polymorphism. Results from transient protoplast assays suggested that each of the polymorphisms conferred allelic differences in activation of cellulose, hemicelluloses and lignin pathway marker genes, with truncated and short PolyQ alleles exhibiting significantly reduced marker gene activation. Genes identified in this study represent novel targets for reducing cell wall recalcitrance for lignocellulosic biofuels production using plant biomass.« less

  18. OnEarth: An Open Source Solution for Efficiently Serving High-Resolution Mapped Image Products

    NASA Astrophysics Data System (ADS)

    Thompson, C. K.; Plesea, L.; Hall, J. R.; Roberts, J. T.; Cechini, M. F.; Schmaltz, J. E.; Alarcon, C.; Huang, T.; McGann, J. M.; Chang, G.; Boller, R. A.; Ilavajhala, S.; Murphy, K. J.; Bingham, A. W.

    2013-12-01

    This presentation introduces OnEarth, a server side software package originally developed at the Jet Propulsion Laboratory (JPL), that facilitates network-based, minimum-latency geolocated image access independent of image size or spatial resolution. The key component in this package is the Meta Raster Format (MRF), a specialized raster file extension to the Geospatial Data Abstraction Library (GDAL) consisting of an internal indexed pyramid of image tiles. Imagery to be served is converted to the MRF format and made accessible online via an expandable set of server modules handling requests in several common protocols, including the Open Geospatial Consortium (OGC) compliant Web Map Tile Service (WMTS) as well as Tiled WMS and Keyhole Markup Language (KML). OnEarth has recently transitioned to open source status and is maintained and actively developed as part of GIBS (Global Imagery Browse Services), a collaborative project between JPL and Goddard Space Flight Center (GSFC). The primary function of GIBS is to enhance and streamline the data discovery process and to support near real-time (NRT) applications via the expeditious ingestion and serving of full-resolution imagery representing science products from across the NASA Earth Science spectrum. Open source software solutions are leveraged where possible in order to utilize existing available technologies, reduce development time, and enlist wider community participation. We will discuss some of the factors and decision points in transitioning OnEarth to a suitable open source paradigm, including repository and licensing agreement decision points, institutional hurdles, and perceived benefits. We will also provide examples illustrating how OnEarth is integrated within GIBS and other applications.

  19. Perspectives on heterococcolith geochemical proxies based on high-resolution X-ray fluorescence mapping.

    PubMed

    Suchéras-Marx, B; Giraud, F; Simionovici, A; Daniel, I; Tucoulou, R

    2016-07-01

    Heterococcoliths are micron-scale calcite platelets produced by coccolithophores. They have been the most abundant and continuous fossil record over the last 215 million years (Myr), offering great potential for geochemical studies, although the heterococcolith fossil record remains underutilised in this domain. We have mapped heterococcoliths' composition using X-ray fluorescence (XRF) with a 100-nm resolution beam to decipher element distributions in heterococcoliths and to investigate the potential development of geochemical proxies for palaeoceanography. The study presents two Middle Jurassic Watznaueria britannica heterococcoliths from Cabo Mondego, Portugal. XRF analysis was performed with a 17 keV incident energy beam at the European Synchrotron Radiation Facility ID22NI beamline to study elements from Sr down to S. Ca, Sr and Mn are distributed following the heterococcolith crystalline arrangement. Cl, Br and S display an homogeneous distribution, whereas K, Fe, Cu, Zn and Rb are concentrated at the edges and in the central area of the heterococcoliths. Distributions of K, Fe, Ti, Fe, Cu, Zn, Rb and to a lesser extent V and Cr are highly influenced by clay contamination and peripheral diagenetic overgrowth. Mn is related to diagenetic Mn-rich CaCO3 overgrowth on top of or between heterococcoliths shields. Cl and Br are likely to be present in heterococcoliths inside interstitial nano-domains. We assume that the cytoplasm [Cl(-) ] and [Br(-) ] are mediated and constant during heterococcolithogenesis. Assuming a linear correlation between cytoplasm [Cl(-) ] and sea water [Cl(-) ], heterococcolith Cl may have potential as a salinity proxy. As S is incorporated into heterococcoliths by sulphated polysaccharides, our study suggests a role for such polysaccharides in heterococcolithogenesis for at least 170 Myr. The low Sr/Ca in the W. britannica specimens studied here may either highlight an unusual cellular physiology of Mesozoic coccolithophores or result

  20. High-Resolution Genetic Map for Understanding the Effect of Genome-Wide Recombination Rate on Nucleotide Diversity in Watermelon

    PubMed Central

    Reddy, Umesh K.; Nimmakayala, Padma; Levi, Amnon; Abburi, Venkata Lakshmi; Saminathan, Thangasamy; Tomason, Yan. R.; Vajja, Gopinath; Reddy, Rishi; Abburi, Lavanya; Wehner, Todd C.; Ronin, Yefim; Karol, Abraham

    2014-01-01

    We used genotyping by sequencing to identify a set of 10,480 single nucleotide polymorphism (SNP) markers for constructing a high-resolution genetic map of 1096 cM for watermelon. We assessed the genome-wide variation in recombination rate (GWRR) across the map and found an association between GWRR and genome-wide nucleotide diversity. Collinearity between the map and the genome-wide reference sequence for watermelon was studied to identify inconsistency and chromosome rearrangements. We assessed genome-wide nucleotide diversity, linkage disequilibrium (LD), and selective sweep for wild, semi-wild, and domesticated accessions of Citrullus lanatus var. lanatus to track signals of domestication. Principal component analysis combined with chromosome-wide phylogenetic study based on 1563 SNPs obtained after LD pruning with minor allele frequency of 0.05 resolved the differences between semi-wild and wild accessions as well as relationships among worldwide sweet watermelon. Population structure analysis revealed predominant ancestries for wild, semi-wild, and domesticated watermelons as well as admixture of various ancestries that were important for domestication. Sliding window analysis of Tajima’s D across various chromosomes was used to resolve selective sweep. LD decay was estimated for various chromosomes. We identified a strong selective sweep on chromosome 3 consisting of important genes that might have had a role in sweet watermelon domestication. PMID:25227227

  1. Cold-seep habitat mapping: high-resolution spatial characterization of the Blake Ridge Diapir seep field

    USGS Publications Warehouse

    Wagner, Jamie K.S.; McEntee, Molly H.; Brothers, Laura L.; German, Christopher R.; Kaiser, Carl L.; Yoerger, Dana R.; Van Dover, Cindy Lee

    2013-01-01

    Relationships among seep community biomass, diversity, and physiographic controls such as underlying geology are not well understood. Previous efforts to constrain these relationships at the Blake Ridge Diapir were limited to observations from piloted deep-submergence vehicles. In August 2012, the autonomous underwater vehicle (AUV) Sentry collected geophysical and photographic data over a 0.131 km2 area at the Blake Ridge Diapir seeps. A nested survey approach was used that began with a regional or reconnaissance-style survey using sub-bottom mapping systems to locate and identify seeps and underlying conduits. This survey was followed by AUV-mounted sidescan sonar and multibeam echosounder systems mapping on a mesoscale to characterize the seabed physiography. At the most detailed survey level, digital photographic imaging was used to resolve sub-meter characteristics of the biology. Four pockmarks (25–70 m diameter) were documented, each supporting chemosynthetic communities. Concentric zonation of mussels and clams suggests the influence of chemical gradients on megafaunal distribution. Data collection and analytical techniques used here yield high-resolution habitat maps that can serve as baselines to constrain temporal evolution of seafloor seeps, and to inform ecological niche modeling and resource management.

  2. Joint Processing of Uav Imagery and Terrestrial Mobile Mapping System Data for Very High Resolution City Modeling

    NASA Astrophysics Data System (ADS)

    Gruen, A.; Huang, X.; Qin, R.; Du, T.; Fang, W.; Boavida, J.; Oliveira, A.

    2013-08-01

    Both unmanned aerial vehicle (UAV) technology and Mobile Mapping Systems (MMS) are important techniques for surveying and mapping. In recent years, the UAV technology has seen tremendous interest, both in the mapping community and in many other fields of application. Carrying off-the shelf digital cameras, the UAV can collect high quality aerial optical images for city modeling using photogrammetric techniques. In addition, a MMS can acquire high density point clouds of ground objects along the roads. The UAV, if operated in an aerial mode, has difficulties in acquiring information of ground objects under the trees and along façades of buildings. On the contrary, the MMS collects accurate point clouds of objects from the ground, together with stereo images, but it suffers from system errors due to loss of GPS signals, and also lacks the information of the roofs. Therefore, both technologies are complementary. This paper focuses on the integration of UAV images, MMS point cloud data and terrestrial images to build very high resolution 3D city models. The work we will show is a practical modeling project of the National University of Singapore (NUS) campus, which includes buildings, some of them very high, roads and other man-made objects, dense tropical vegetation and DTM. This is an intermediate report. We present work in progress.

  3. Mapping of active faults based on the analysis of high-resolution seismic reflection profiles in offshore Montenegro

    NASA Astrophysics Data System (ADS)

    Vucic, Ljiljana; Glavatovic, Branislav

    2014-05-01

    High-resolution seismic-reflection data analysis is considered as important tool for mapping of active tectonic faults, since seismic exploration methods on varied scales can image subsurface structures of different depth ranges. Mapping of active faults for the offshore area of Montenegro is performed in Petrel software, using reflection database consist of 2D profiles in length of about 3.500 kilometers and 311 square kilometers of 3D seismics, acquired from 1979 to 2003. Montenegro offshore area is influenced by recent tectonic activity with numerous faults, folded faults and over trusts. Based on reflection profiles analysis, the trust fault system offshore Montenegro is reveled, parallel to the coast and extending up to 15 kilometers from the offshore line. Then, the system of normal top carbonate fault planes is mapped and characterized on the southern Adriatic, with NE trending. The tectonic interpretation of the seismic reflection profiles in Montenegro point toward the existence of principally reverse tectonic forms in the carbonate sediments, covered by young Quaternary sandy sediments of thickness 1-3 kilometers. Also, reflective seismic data indicate the active uplifting of evaporite dome on about 10 kilometers of coastline.

  4. A high-resolution linkage map of the achondroplasia critical region on human chromosome 4q16.3

    SciTech Connect

    Tiller, G.E.; Polumbo, P.A.

    1994-09-01

    Achondroplasia is the most common nonlethal skeletal dysplasia, with an incidence of greater than 1/40,000 births. Recently, a random search of the genome using highly polymorphic autosomal markers has localized the gene for achondroplasia to the distal portion of human chromosome 4p. We report here the construction of a high-resolution linkage map of the critical region including the achondroplasia locus. The CEPH panel of pedigrees was genotyped at several loci using highly polymorphic markers, including the Huntington locus (IT15), D4S43, D4S115, and the gene for the {beta}-subunit of rod cGMP phosphodiesterase (PDEB). These data were incorporated into the CEPH v.6.6 database and a multipoint map was generated using the LINKAGE programs v.5.1. Based on reported recombination events in achondroplasia pedigrees, the gene for achondroplasia lies distal to the anonymous marker D4S43, in the 8 cM region defined as follows: cen-IT15-D4S43-D4S98-[D4S115-D4S111]-D4S90-PDEB. The disparity between the genetic distance and the physical distance (2 mB) among these markers likely reflects the high rate of recombination within the region. Extension of this linkage map further toward the telomere and identification of distal recombinant markers should expedite efforts directed toward isolation of the gene for achondroplasia.

  5. High-resolution genetic map for understanding the effect of genome-wide recombination rate on nucleotide diversity in watermelon.

    PubMed

    Reddy, Umesh K; Nimmakayala, Padma; Levi, Amnon; Abburi, Venkata Lakshmi; Saminathan, Thangasamy; Tomason, Yan R; Vajja, Gopinath; Reddy, Rishi; Abburi, Lavanya; Wehner, Todd C; Ronin, Yefim; Karol, Abraham

    2014-09-15

    We used genotyping by sequencing to identify a set of 10,480 single nucleotide polymorphism (SNP) markers for constructing a high-resolution genetic map of 1096 cM for watermelon. We assessed the genome-wide variation in recombination rate (GWRR) across the map and found an association between GWRR and genome-wide nucleotide diversity. Collinearity between the map and the genome-wide reference sequence for watermelon was studied to identify inconsistency and chromosome rearrangements. We assessed genome-wide nucleotide diversity, linkage disequilibrium (LD), and selective sweep for wild, semi-wild, and domesticated accessions of Citrullus lanatus var. lanatus to track signals of domestication. Principal component analysis combined with chromosome-wide phylogenetic study based on 1563 SNPs obtained after LD pruning with minor allele frequency of 0.05 resolved the differences between semi-wild and wild accessions as well as relationships among worldwide sweet watermelon. Population structure analysis revealed predominant ancestries for wild, semi-wild, and domesticated watermelons as well as admixture of various ancestries that were important for domestication. Sliding window analysis of Tajima's D across various chromosomes was used to resolve selective sweep. LD decay was estimated for various chromosomes. We identified a strong selective sweep on chromosome 3 consisting of important genes that might have had a role in sweet watermelon domestication.

  6. Mars MOURA magnetometer demonstration for high-resolution mapping on terrestrial analogues

    NASA Astrophysics Data System (ADS)

    Díaz-Michelena, Marina; Kilian, Rolf; Sanz, Ruy; Rios, Francisco; Baeza, Oscar

    2016-05-01

    Satellite-based magnetic measurements of Mars indicate complex and very strong magnetic anomalies, which led to an intensive and long-lasting discussion about their possible origin. To make some progress in the investigation of the origin of these anomalies the MOURA vector magnetometer was developed for in situ measurements on Mars. In this work we propose the utilisation of such an instrument for future planetary on-ground surveys. The proof of its suitability is seen through testing it on various terrestrial analogues characterised by the distinct magnetic anomalies of their basement rocks: (1) a magnetite body of EL Laco (up to +110 000 nT) and its transition to surrounding andesites ( < +2000 nT) in the northern Andes of Chile showing the highest local magnetic anomalies. The magnetite-bearing ore body has highly variable local anomalies due to its complex formation history where a significant dispersion in palaeo-orientations has been previously reported, while our vector data show relatively uniform and probably induced declinations. (2) A basaltic spatter cone of the Pali Aike volcanic field, in southern Chile, was characterised by very strong magnetic anomalies along the crater rim (up to +12 000 nT), controlled by the amount of single domain magnetites in the ground mass of the basalts. Due to their strong remanent signature, palaeo-declinations of the lavas and reorientations of collapsed blocks could be constrained by the vector data. (3) The Monturaqui meteorite crater (350 m diameter), in northern Chile, shows significant variations of its anomalies (from -2000 to > +6000 nT) in restricted areas of several square metres along its crater rim related to unexposed iron-bearing fragments of the impactor while its granitic and ignimbritic target rocks exhibit only very weak anomalies. (4) An area with several amphibolitic dykes, which cross-cut a Cretaceous granitoid in the southernmost Andes, where a decimetre-scale mapping was performed. In this case

  7. Using high resolution multispectral imaging to map Pacific coral reefs in support of UNESCO's World Heritage Central Pacific project

    NASA Astrophysics Data System (ADS)

    Siciliano, Daria; Olsen, Richard C.

    2007-10-01

    Concerns over worldwide declines in marine resources have prompted the search for innovative solutions for their conservation and management, particularly for coral reef ecosystems. Rapid advances in sensor resolution, coupled with image analysis techniques tailored to the unique optical problems of marine environments have enabled the derivation of detailed benthic habitat maps of coral reef habitats from multispectral satellite imagery. Such maps delineate coral reefs' main ecological communities, and are essential for management of these resources as baseline assessments. UNESCO's World Heritage Central Pacific Project plans to afford protection through World Heritage recognition to a number of islands and atolls in the central Pacific Ocean, including the Phoenix Archipelago in the Republic of Kiribati. Most of these islands however lack natural resource maps needed for the identification of priority areas for inclusion in a marine reserve system. Our project provides assistance to UNESCO's World Heritage Centre and the Kiribati Government by developing benthic and terrestrial habitat maps of the Phoenix Islands from high-resolution multispectral imagery. The approach involves: (i) the analysis of new Quickbird multispectral imagery; and (ii) the use of MARXAN, a simulated annealing algorithm that uses a GIS interface. Analysis of satellite imagery was performed with ENVI®, and includes removal of atmospheric effects using ATCOR (a MODTRAN4 radiative transfer model); de-glinting and water column correction algorithms; and a number of unsupervised and supervised classifiers. Previously collected ground-truth data was used to train classifications. The resulting habitat maps are then used as input to MARXAN. This algorithm ultimately identifies a proportion of each habitat to be set aside for protection, and prioritizes conservation areas. The outputs of this research are being delivered to the UNESCO World Heritage Centre office and the Kiribati Government as

  8. Ecosystem services - from assessements of estimations to quantitative, validated, high-resolution, continental-scale mapping via airborne LIDAR

    NASA Astrophysics Data System (ADS)

    Zlinszky, András; Pfeifer, Norbert

    2016-04-01

    service potential" which is the ability of the local ecosystem to deliver various functions (water retention, carbon storage etc.), but can't quantify how much of these are actually used by humans or what the estimated monetary value is. Due to its ability to measure both terrain relief and vegetation structure in high resolution, airborne LIDAR supports direct quantification of the properties of an ecosystem that lead to it delivering a given service (such as biomass, water retention, micro-climate regulation or habitat diversity). In addition, its high resolution allows direct calibration with field measurements: routine harvesting-based ecological measurements, local biodiversity indicator surveys or microclimate recordings all take place at the human scale and can be directly linked to the local value of LIDAR-based indicators at meter resolution. Therefore, if some field measurements with standard ecological methods are performed on site, the accuracy of LIDAR-based ecosystem service indicators can be rigorously validated. With this conceptual and technical approach high resolution ecosystem service assessments can be made with well established credibility. These would consolidate the concept of ecosystem services and support both scientific research and evidence-based environmental policy at local and - as data coverage is continually increasing - continental scale.

  9. High Resolution Aerosol Optical Depth Mapping of Beijing Using LANSAT8 Imagery

    NASA Astrophysics Data System (ADS)

    Li, Yan; Liu, Yuanliang; Wu, Jianliang

    2016-06-01

    Aerosol Optical Depth (AOD) is one of the most important parameters in the atmospheric correction of remote sensing images. We present a new method of per pixel AOD retrieval using the imagery of Landsat8. It is based on Second Simulation of the Satellite Signal in the Solar Spectrum (6S). General dark target method takes dense vegetation pixels as dark targets and derives their 550nm AODs directly from the LUT, and interpolates the AODs of other pixels according to spatial neighbourhood using those of dark target pixels. This method will down estimate the AOD levels for urban areas. We propose an innovative method to retrieval the AODs using multiple temporal data. For a pixel which has nothing change between the associated time, there must exists an intersection of surface albedo. When there are enough data to find the intersection it ought to be a value that meet the error tolerance. In this paper, we present an example of using three temporal Landsat ETM+ image to retrieve AOD taking Beijing as the testing area. The result is compared to the commonly employed dark target algorithm to show the effectiveness of the methods.

  10. High-resolution metabolic mapping of cell types in plant roots.

    PubMed

    Moussaieff, Arieh; Rogachev, Ilana; Brodsky, Leonid; Malitsky, Sergey; Toal, Ted W; Belcher, Heather; Yativ, Merav; Brady, Siobhan M; Benfey, Philip N; Aharoni, Asaph

    2013-03-26

    Metabolite composition offers a powerful tool for understanding gene function and regulatory processes. However, metabolomics studies on multicellular organisms have thus far been performed primarily on whole organisms, organs, or cell lines, losing information about individual cell types within a tissue. With the goal of profiling metabolite content in different cell populations within an organ, we used FACS to dissect GFP-marked cells from Arabidopsis roots for metabolomics analysis. Here, we present the metabolic profiles obtained from five GFP-tagged lines representing core cell types in the root. Fifty metabolites were putatively identified, with the most prominent groups being glucosinolates, phenylpropanoids, and dipeptides, the latter of which is not yet explored in roots. The mRNA expression of enzymes or regulators in the corresponding biosynthetic pathways was compared with the relative metabolite abundance. Positive correlations suggest that the rate-limiting steps in biosynthesis of glucosinolates in the root are oxidative modifications of side chains. The current study presents a work flow for metabolomics analyses of cell-type populations.

  11. High-resolution metabolic mapping of cell types in plant roots.

    PubMed

    Moussaieff, Arieh; Rogachev, Ilana; Brodsky, Leonid; Malitsky, Sergey; Toal, Ted W; Belcher, Heather; Yativ, Merav; Brady, Siobhan M; Benfey, Philip N; Aharoni, Asaph

    2013-03-26

    Metabolite composition offers a powerful tool for understanding gene function and regulatory processes. However, metabolomics studies on multicellular organisms have thus far been performed primarily on whole organisms, organs, or cell lines, losing information about individual cell types within a tissue. With the goal of profiling metabolite content in different cell populations within an organ, we used FACS to dissect GFP-marked cells from Arabidopsis roots for metabolomics analysis. Here, we present the metabolic profiles obtained from five GFP-tagged lines representing core cell types in the root. Fifty metabolites were putatively identified, with the most prominent groups being glucosinolates, phenylpropanoids, and dipeptides, the latter of which is not yet explored in roots. The mRNA expression of enzymes or regulators in the corresponding biosynthetic pathways was compared with the relative metabolite abundance. Positive correlations suggest that the rate-limiting steps in biosynthesis of glucosinolates in the root are oxidative modifications of side chains. The current study presents a work flow for metabolomics analyses of cell-type populations. PMID:23476065

  12. High-resolution genetic map for understanding the effect of genome-wide recombination rate, selection sweep and linkage disequilibrium on nucleotide diversity in watermelon

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Genotyping by sequencing (GBS) technology was used to identify a set of 9,933 single nucleotide polymorphism (SNP) markers for constructing a high-resolution genetic map of 1,087 cM for watermelon. The genome-wide variation of recombination rate (GWRR) across the map was evaluated and a positive co...

  13. High-resolution area-wide sea-floor mapping: The paleo Elbe valley (S North Sea) revisited

    NASA Astrophysics Data System (ADS)

    Papenmeier, Svenja; Hass, H. Christian

    2014-05-01

    The North Sea Basin is shaped by multiple glacial advances and retreats that left complex sequences of glacio-fluvial and sub-glacial deposits, cut by sub-glacial tunnel valleys. Today, the submerged valley of the Elbe forms one of the most prominent structures of the southern North Sea. Flanked by huge moraine deposits of older glacials, the valley developed to its present form during the Weichselian sea-level lowstand (-130 m below present). Melt waters that discharged in north-westerly directions along the Scandinavian Ice Sheet fed the paleo Elbe at that time. During the Holocene the valley drowned in the rising sea. Here we present an area-wide high-resolution map of the seafloor and high-resolution shallow seismic data covering 1,600 km2 of the paleo Elbe valley (PEV) including its eastern levee. The data allow to shed new light on the PEV development including the historical process of sedimentary infill with the successive Holocene sea level rise in detail. Shallow seismic data with transect distances of 400 m and several cross sections allow 3-D visualization. The eastern flank of the valley is characterized by a relatively steep slope with one or more terraces. At its levee a significant sediment change is present on the modern sea floor, representing moraine and marine deposits. High resolution sidescan sonar data of this area show a much higher heterogeneity and complexity in sediment and habitat distribution as assumed before. Holocene marine sediments form a patchy and thin drape east of the valley floor. The western slip-off slope of the valley slope is much smoother than the eastern undercut slope. As yet, significant sedimentological changes at the present seafloor are not known for the western side of the PEV. Shallow seismic data show the base of the PEV. There are conspicuous internal seismic reflectors above the base, inclined in northeastern direction. They indicate a sedimentary infill of the valley from the southwest when the southern part

  14. High Resolution Urban Land Cover Mapping Using NAIP Aerial Photography and Image Processing for the USEPA National Atlas of Sustainability and Ecosystem Services

    NASA Astrophysics Data System (ADS)

    Pilant, A. N.; Baynes, J.; Dannenberg, M.

    2012-12-01

    The US EPA National Atlas for Sustainability is a web-based, easy-to-use, mapping application that allows users to view and analyze multiple ecosystem services in a specific region. The Atlas provides users with a visual method for interpreting ecosystem services and understanding how they can be conserved and enhanced for a sustainable future. The Urban Atlas component of the National Atlas will provide fine-scale information linking human health and well-being to environmental conditions such as urban heat islands, near-road pollution, resource use, access to recreation, drinking water quality and other quality of life indicators. The National Land Cover Data (NLCD) derived from 30 m scale 2006 Landsat imagery provides the land cover base for the Atlas. However, urban features and phenomena occur at finer spatial scales, so higher spatial resolution and more current LC maps are required. We used 4 band USDA NAIP imagery (1 m pixel size) and various classification approaches to produce urban land cover maps with these classes: impervious surface, grass and herbaceous, trees and forest, soil and barren, and water. Here we present the remote sensing methods used and results from four pilot cities in this effort, highlighting the pros and cons of the approach, and the benefits to sustainability and ecosystem services analysis. Example of high resolution land cover map derived from USDA NAIP aerial photo. Compare 30 m and 1 m resolution land cover maps of downtown Durham, NC.

  15. High-resolution linkage map of mouse chromosome 13 in the vicinity of the host resistance locus Lgn1

    SciTech Connect

    Beckers, M.C.; Ernst, E.; Diez, E.

    1997-02-01

    Natural resistance of inbred mouse strains to infection with Legionella pneumophila is controlled by the expression of a single dominant gene on chromosome 13, designated Lgn1. The genetic difference at Lgn1 is phenotypically expressed as the presence or absence of intracellular replication of L. pneumophila in host macrophages. In our effort to identify the Lgn1 gene by positional cloning, we have generated a high-resolution linkage map of the Lgn1 chromosomal region. For this, we have carried out extensive segregation analysis in a total of 1270 (A/J x C57BL/6J) X A/J informative backcross mice segregating the resistance allele of C57BL/6J and the susceptibility allele of A/J. Additional segregation analyses were carried out in three preexisting panels of C57BL/6J X Mus spretus interspecific backcross mice. A total of 39 DNA markers were mapped within an interval of approximately 30 cM overlapping the Lgn1 region. Combined pedigree analyses for the 5.4-cM segment overlapping Lgn1 indicated the locus order and the interlocus distances (in cM): D13Mit128-(1.4)-D13Mit194-(0.1)-D13Mit147-(0.9)-Dl3Mit36-(0.9)-D13Mit146-(0.2)-Lgn1/D 13Mit37-(1.0)-D13Mit70. Additional genetic linkage studies of markers not informative in the A/J X C57BL/6J cross positioned D13Mit30, -72, -195, and -203, D13Gor4, D13Hun35, and Mtap5 in the immediate vicinity of the Lgn1 locus. The marker density and resolution of this genetic linkage map should allow the construction of a physical map of the region and the isolation of YAC clones overlapping the gene. 60 refs., 2 figs., 2 tabs.

  16. Mapping Soil Organic Carbon Resources Across Agricultural Land Uses in Highland Lesotho Using High Resolution Satellite Imagery

    NASA Astrophysics Data System (ADS)

    Knight, J.; Adam, E.

    2015-12-01

    Mapping spatial patterns of soil organic carbon (SOC) using high resolution satellite imagery is especially important in inaccessible or upland areas that have limited field measurements, where land use and land cover (LULC) are changing rapidly, or where the land surface is sensitive to overgrazing and high rates of soil erosion and thus sediment, nutrient and carbon export. Here we outline the methods and results of mapping soil organic carbon in highland areas (~2400 m) of eastern Lesotho, southern Africa, across different land uses. Bedrock summit areas with very thin soils are dominated by xeric alpine grassland; terrace agriculture with strip fields and thicker soils is found within river valleys. Multispectral Worldview 2 imagery was used to map LULC across the region. An overall accuracy of 88% and kappa value of 0.83 were achieved using a support vector machine model. Soils were examined in the field from different LULC areas for properties such as soil depth, maturity and structure. In situ soils in the field were also evaluated using a portable analytical spectral device (ASD) in order to ground truth spectral signatures from Worldview. Soil samples were examined in the lab for chemical properties including organic carbon. Regression modeling was used in order to establish a relationship between soil characteristics and soil spectral reflectance. We were thus able to map SOC across this diverse landscape. Results show that there are notable differences in SOC between upland and agricultural areas which reflect both soil thickness and maturity, and land use practices such as manuring of fields by cattle. Soil erosion and thus carbon (nutrient) export is significant issue in this region, which this project will now be examining.

  17. Mapping evapotranspiration with high-resolution aircraft imagery over vineyards using one- and two-source modeling schemes

    NASA Astrophysics Data System (ADS)

    Xia, Ting; Kustas, William P.; Anderson, Martha C.; Alfieri, Joseph G.; Gao, Feng; McKee, Lynn; Prueger, John H.; Geli, Hatim M. E.; Neale, Christopher M. U.; Sanchez, Luis; Mar Alsina, Maria; Wang, Zhongjing

    2016-04-01

    Thermal and multispectral remote sensing data from low-altitude aircraft can provide high spatial resolution necessary for sub-field (≤ 10 m) and plant canopy (≤ 1 m) scale evapotranspiration (ET) monitoring. In this study, high-resolution (sub-meter-scale) thermal infrared and multispectral shortwave data from aircraft are used to map ET over vineyards in central California with the two-source energy balance (TSEB) model and with a simple model having operational immediate capabilities called DATTUTDUT (Deriving Atmosphere Turbulent Transport Useful To Dummies Using Temperature). The latter uses contextual information within the image to scale between radiometric land surface temperature (TR) values representing hydrologic limits of potential ET and a non-evaporative surface. Imagery from 5 days throughout the growing season is used for mapping ET at the sub-field scale. The performance of the two models is evaluated using tower-based measurements of sensible (H) and latent heat (LE) flux or ET. The comparison indicates that TSEB was able to derive reasonable ET estimates under varying conditions, likely due to the physically based treatment of the energy and the surface temperature partitioning between the soil/cover crop inter-row and vine canopy elements. On the other hand, DATTUTDUT performance was somewhat degraded presumably because the simple scaling scheme does not consider differences in the two sources (vine and inter-row) of heat and temperature contributions or the effect of surface roughness on the efficiency of heat exchange. Maps of the evaporative fraction (EF = LE/(H + LE)) from the two models had similar spatial patterns but different magnitudes in some areas within the fields on certain days. Large EF discrepancies between the models were found on 2 of the 5 days (DOY 162 and 219) when there were significant differences with the tower-based ET measurements, particularly using the DATTUTDUT model. These differences in EF between the models

  18. High-resolution Digital Mapping of Historical Lava Flows as a Test-bed for Lava Flow Models

    NASA Astrophysics Data System (ADS)

    Pyle, D. M.; Parks, M.; Nomikou, P.; Mather, T. A.; Simou, E.; Kalnins, L. M.; Paulatto, M.; Watts, A. B.

    2013-12-01

    Quantitative analysis of high-resolution lava flow morphology can improve our understanding of past effusive eruptions by providing insight into eruptive processes and the rheological properties of erupted magmas. We report the results of an ongoing investigation into the young dacite lava flows of the Kameni islands, Santorini volcano, Greece, which were emplaced during both subaerial and shallow submarine eruptions over the past 3000 years. Historical eruptions of the Kameni islands since 1866 have been very carefully documented in contemporaneous scientific reports. Eruptions since 1573 appear to be time-predictable, with a close relationship between eruption length, the size of extruded lava domes, and the time elapsed since the previous eruption. A new NERC - Airborne Survey and Research Facility LiDAR survey of the Kameni islands was completed in May 2012, using a Leica ALS50 Airborne Laser Scanner mounted on a Dornier 228 aircraft. The topographic surface was mapped at an average point density of 2.1 points per square metre, and covers the entire extent of the youngest subaerial lava flow fields on Santorini. A 2-m DEM derived from the 2012 LiDAR dataset was merged with a 5-m resolution bathymetric grid, based on multibeam surveys carried out by the Hellenic Centre for Marine Research, during cruises in 2001 and 2006, using a SEABEAM 2120 hull-mounted swath system. The resultant grid provides the first high resolution map of both subaerial and submarine historic lava flows emplaced in the centre of the Santorini caldera, and includes several previously unidentified submarine flows and cones. Attribute maps were used to delineate and identify discrete lava flows both onshore and offshore; and morphometric profiles were used to compute accurate volumetric estimates for each of the historic flows, and to determine bulk rheological properties of the lavas, assuming a Bingham rheology. This ongoing work will improve our analysis of the relationship between

  19. Evaluation of Surface Energy Balance models for mapping evapotranspiration using very high resolution airborne remote sensing data

    NASA Astrophysics Data System (ADS)

    Paul, George

    Agriculture is the largest (90%) consumer of all fresh water in the world. The consumptive use of water by vegetation represented by the process evapotranspiration (ET) has a vital role in the dynamics of water, carbon and energy fluxes of the biosphere. Consequently, mapping ET is essential for making water a sustainable resource and also for monitoring ecosystem response to water stress and changing climate. Over the past three decades, numerous thermal remote sensing based ET mapping algorithms were developed and these have brought a significant theoretical and technical advancement in the spatial modeling of ET. Though these algorithms provided a robust, economical, and efficient tool for ET estimations at field and regional scales, yet the uncertainties in flux estimations were large, making evaluation a difficult task. The main objective of this study was to evaluate and improve the performance of widely used remote sensing based energy balance models, namely: the Surface Energy Balance Algorithm for Land (SEBAL), Mapping Evapotranspiration at high Resolution and with Internalized Calibration (METRIC), and Surface Energy Balance System (SEBS). Data used in this study was collected as part of a multi-disciplinary and multi-institutional field campaign BEAREX (Bushland Evapotranspiration and Agricultural Remote Sensing Experiment) that was conducted during 2007 and 2008 summer cropping seasons at the USDA-ARS Conservation and Production Research Laboratory (CPRL) in Bushland, Texas. Seventeen high resolution remote sensing images taken from multispectral sensors onboard aircraft and field measurements of the agro-meteorological variables from the campaign were used for model evaluation and improvement. Overall relative error measured in terms of mean absolute percent difference (MAPD) for instantaneous ET (mm h -1) were 22.7%, 23.2%, and 12.6% for SEBAL, METRIC, and SEBS, respectively. SEBAL and METRIC performances for irrigated fields representing higher ET

  20. High-Resolution Multibeam, Sidescan, and Subbottom Surveys in and Around Monterey Canyon Using the MBARI Mapping AUV

    NASA Astrophysics Data System (ADS)

    Caress, D. W.; Thomas, H.; McEwen, R.; Henthorn, R.; Kirkwood, W. J.; Thompson, D.; Paull, C. K.; McGill, P.

    2005-12-01

    During 2004 and 2005, MBARI has conducted several high-resolution bathymetry, sidescan, and subbottom profiler surveys in and around Monterey Canyon, Monterey Bay, California. These surveys were conducted using the new MBARI Mapping Autonomous Underwater Vehicle (AUV). This torpedo-shaped, 6000 m deep rated vehicle is equipped with a 200 kHz multibeam sonar, 110 kHz and 410 kHz chirp sidescan sonar, and a 2-16 kHz sweep subbottom profiler. The sonar package can also be mounted on ROV Ventana, allowing near-bottom bathymetric surveys of sites where extreme topography (e.g. the Monterey Canyon axis) preclude safe autonomous operation. The Mapping AUV is being used to monitor sediment transport through Monterey Canyon by conducting repeated high-resolution bathymetric surveys in the upper canyon. Upper Monterey Canyon is known to have frequent sediment transport events. Four sites have been selected with canyon axis depths of 300 m, 520 m, 1000 m, and 1400 m, respectively. Each survey nominally covers a 600 m by 600 m area with a 35 m line spacing and a 20 m altitude. We are achieving sub-meter lateral resolution and a vertical precision of 0.3 m. The combined bathymetry and backscatter successfully image fine scale channel features, including bedforms, small scarps and plunge pools, and undercutting of the inner canyon walls. All four sites have been surveyed at least once, and we will revisit these sites three times annually for the foreseeable future. We have also collected in excess of 170 km of subbottom profiles around and across the upper canyon. The subbottom profiler successfully images sediment structure to subsurface depths of as much as 50 m. These profiles demonstrate that the upper canyon walls are draped with sediment rather than exposing an erosional surface. Another Mapping AUV survey target is Smooth Ridge, located immediately north of Monterey Canyon and west of Soquel canyon. The upper reaches of Smooth Ridge are connected to the shelf across a

  1. Representational difference analysis, high-resolution physical mapping, and transcript identification of the zebrafish genomic region for a motor behavior.

    PubMed

    Sato, Tomomi; Mishina, Masayoshi

    2003-08-01

    Zebrafish is one of the best model organisms for investigating gene functions in vertebrates. By 4,5',8-trimethylpsoralen mutagenesis, we isolated a zebrafish mutant, vibrato, with defects in the spontaneous contraction and touch response. Whole genome subtraction between the wild-type and the mutant genomes by representational difference analysis yielded polymorphic markers tightly linked to the vibrato locus. Using these markers, we constructed a high-resolution physical map and localized the vibrato locus within a genomic region of 720 kb. Direct cDNA selection with the contig led to the identification of a novel gene, solo, encoding a protein with SEC14 and spectrin repeat domains. These domains of Solo shared significant amino acid sequence identities with those of mammalian Trio and Karilin. In addition, we found the zebrafish orthologs for mammalian TTN, COL5A2, and CED-6 in the vibrato region. Mapping of these genes localized human chromosomal regions possibly involved in motor disorders. Our results suggest that representational difference analysis provides an efficient way to isolate mutated genomic regions in zebrafish. PMID:12837271

  2. Functional optical coherence tomography for high-resolution mapping of cilia beat frequency in the mouse oviduct in vivo

    NASA Astrophysics Data System (ADS)

    Wang, Shang; Burton, Jason C.; Behringer, Richard R.; Larina, Irina V.

    2016-02-01

    Since mouse is a superior model for genetic analysis of human disorders, reproductive studies in mice have significant implications on further understanding of fertility and infertility in humans. Fertilized oocytes are transported through the reproductive tract by motile cilia lining the lumen of the oviduct as well as by oviduct contractions. While the role of cilia is well recognized, ciliary dynamics in the oviduct is not well understood, largely owing to the lack of live imaging approaches. Here, we report in vivo micro-scale mapping of cilia and cilia beat frequency (CBF) in the mouse oviduct using optical coherence tomography (OCT). This functional imaging method is based on spectral analysis of the OCT speckle variations produced by the beat of cilia in the oviduct, which does not require exogenous contrast agents. Animal procedures similar to the ones used for production of transgenic mice are utilized to expose the reproductive organs for imaging in anesthetized females. In this paper, we first present in vivo structural imaging of the mouse oviduct capturing the oocyte and the preimplantation embryo and then show the result of depth-resolved high-resolution CBF mapping in the ampulla of the live mouse. These data indicate that this structural and functional OCT imaging approach can be a useful tool for a variety of live investigations of mammalian reproduction and infertility.

  3. A multi-method approach for benthic habitat mapping of shallow coastal areas with high-resolution multibeam data

    NASA Astrophysics Data System (ADS)

    Micallef, Aaron; Le Bas, Timothy P.; Huvenne, Veerle A. I.; Blondel, Philippe; Hühnerbach, Veit; Deidun, Alan

    2012-05-01

    The coastal waters of the Maltese Islands, central Mediterranean Sea, sustain a diversity of marine habitats and support a wide range of human activities. The islands' shallow waters are characterised by a paucity of hydrographic and marine geo-environmental data, which is problematic in view of the requirements of the Maltese Islands to assess the state of their coastal waters by 2012 as part of the EU Marine Strategy Directive. Multibeam echosounder (MBES) systems are today recognised as one of the most effective tools to map the seafloor, although the quantitative characterisation of MBES data for seafloor and habitat mapping is still an underdeveloped field. The purpose of this study is to outline a semi-automated, Geographic Information System-based methodology to map the distribution of habitats in shallow coastal waters using high-resolution MBES data. What distinguishes our methodology from those proposed in previous studies is the combination of a suite of geomorphometric and textural analytical techniques to map specific types of seafloor morphologies and compositions; the selection of the techniques is based on identifying which geophysical parameter would be influenced by the seabed type under consideration. We tested our approach in a 28 km2 area of Maltese coastal waters. Three data sets were collected from this study area: (i) MBES bathymetry and backscatter data; (ii) Remotely Operated Vehicle imagery and (iii) photographs and sediment samples from dive surveys. The seabed was classified into five elementary morphological zones and features - flat and sloping zones, crests, depressions and breaks of slope - using morphometric derivatives, the Bathymetric Position Index and geomorphometric mapping. Segmentation of the study area into seagrass-covered and unvegetated seafloor was based on roughness estimation. Further subdivision of these classes into the four predominant types of composition - medium sand, maërl associated with sand and gravel

  4. High-resolution topography along surface rupture of the 16 October 1999 Hector Mine, California (Mw 7.1) from airborne laser swath mapping

    USGS Publications Warehouse

    Hudnutt, K.W.; Borsa, A.; Glennie, C.; Minster, J.-B.

    2002-01-01

    In order to document surface rupture associated with the Hector Mine earthquake, in particular, the area of maximum slip and the deformed surface of Lavic Lake playa, we acquired high-resolution data using relatively new topographic-mapping methods. We performed a raster-laser scan of the main surface breaks along the entire rupture zone, as well as along an unruptured portion of the Bullion fault. The image of the ground surface produced by this method is highly detailed, comparable to that obtained when geologists make particularly detailed site maps for geomorphic or paleoseismic studies. In this case, however, for the first time after a surface-rupturing earthquake, the detailed mapping is along the entire fault zone rather than being confined to selected sites. These data are geodetically referenced, using the Global Positioning System, thus enabling more accurate mapping of the rupture traces. In addition, digital photographs taken along the same flight lines can be overlaid onto the precise topographic data, improving terrain visualization. We demonstrate the potential of these techniques for measuring fault-slip vectors.

  5. Two-Dimensional Spreads of Synaptonemal Complexes from Solanaceous Plants. VI. High-Resolution Recombination Nodule Map for Tomato (Lycopersicon Esculentum)

    PubMed Central

    Sherman, J. D.; Stack, S. M.

    1995-01-01

    We have produced a high-resolution physical recombination map for tomato chromosomes by determining the frequency and distribution of recombination nodules (RNs) on tomato synaptonemal complexes (SCs). We present evidence that there is a 1:1 relationship between RNs and chiasmata. Every SC has at least one RN. There are no RNs at the ends of SCs, in kinetochores, or in the heterochromatic short arm of SC 2 that carries the nucleolus organizer. RNs are more common per unit length of SC in euchromatin compared with SC in heterochromatin. The average number of RNs per SC and the average number of RNs per SC arm are directly correlated with the length of SC in euchromatin. When SCs have only one RN, that RN occurs on the long arm more frequently than predicted based on SC arm length. Patterns of multiple RNs on SCs indicate RN (crossover) interference. RNs probably can occur anywhere on SCs in euchromatin, but RNs are not distributed randomly along SCs in euchromatin or in heterochromatin. The lengths of tomato's physical recombination (RN) map, classical genetic linkage map, and molecular linkage map all differ from each other for a variety of reasons. PMID:8647403

  6. Comparing high-resolution microscopy techniques for potential intraoperative use in guiding low-grade glioma resections

    PubMed Central

    Meza, Daphne; Wang, Danni; Wang, Yu “Winston”; Borwege, Sabine; Sanai, Nader; Liu, Jonathan T.C.

    2015-01-01

    Background and Objectives Fluorescence image-guided surgery (FIGS), with contrast provided by 5-ALA-induced-PpIX, has been shown to enable a higher extent of resection of high-grade gliomas. However, conventional FIGS with low-power microscopy lacks the sensitivity to aid in low-grade glioma (LGG) resection because PpIX signal is weak and sparse in such tissues. Intraoperative high-resolution microscopy of PpIX fluorescence has been proposed as a method to guide LGG resection, where sub-cellular resolution allows for the visualization of sparse and punctate mitochondrial PpIX production in tumor cells. Here, we assess the performance of three potentially portable high-resolution microscopy techniques that may be used for the intraoperative imaging of human LGG tissue samples with PpIX contrast: high-resolution fiber-optic microscopy (HRFM), high-resolution wide-field microscopy (WFM), and dual-axis confocal (DAC) microscopy. Materials and Methods Thick unsectioned human LGG tissue samples (n = 7) with ALA-induced-PpIX contrast were imaged using three imaging techniques (HRFM, WFM, DAC). The average signal-to-background ratio (SBR) was then calculated for each imaging modality (5 images per tissue, per modality). Results HRFM provides the ease of use and portability of a flexible fiber bundle, and is simple and inexpensive to build. However, in most cases (6/7), HRFM is not capable of detecting PpIX signal from LGGs due to high autofluorescence, generated by the fiber bundle under laser illumination at 405 nm, which overwhelms the PpIX signal and impedes its visualization. WFM is a camera-based method possessing high lateral resolution but poor axial resolution, resulting in sub-optimal image contrast. Conclusions Consistent successful detection of PpIX signal throughout our human LGG tissue samples (n = 7), with an acceptable image contrast (SBR > 2), was only achieved using DAC microscopy, which offers superior image resolution and contrast that is comparable to

  7. Generation of a high resolution map of sRNAs from Fusarium graminearum and analysis of responses to viral infection.

    PubMed

    Wang, Shuangchao; Li, Pengfei; Zhang, Jingze; Qiu, Dewen; Guo, Lihua

    2016-01-01

    Previously, we characterized F. graminearum hypovirus 1 (FgHV1) and F. graminearum hypovirus 2 (FgHV2), which are the only two hypoviruses in F. graminearum that are closely related to Cryphonectria hypovirus 1 (CHV1) and Cryphonectria hypovirus 2 (CHV2) in the Hypoviridae family. In this study, we preliminarily elucidated the RNA silencing mechanism of the F. graminearum/hypovirus system from a small RNA (sRNA) perspective by using HiSeq deep sequencing. The length distributions of F. graminearum sRNA were altered by hypoviral infection. Potential microRNA-like (milRNA) candidates were differentially expressed between the hypovirus-free and hypovirus-infected library types. Extensive virus-derived small interfering RNAs (vsiRNAs) were also principally defined. The 1,831,081 and 3,254,758 total reads generated from the FgHV1 and FgHV2 genomes in F. graminearum yielded the first high-resolution sRNA maps of fungal viruses. In addition, extensive bioinformatics searches identified a large number of transcripts that are potentially targeted by vsiRNAs, several of which were effectively down-regulated. In particular, the RNA silencing-related genes FgDicer1 and FgRdRp5 were predicted targets of FgHV1- and FgHV2-derived siRNAs, possibly revealing a novel anti-RNA silencing strategy employed by mycoviruses. PMID:27189438

  8. High-resolution elasticity maps and cytoskeletal dynamics of neurons measured by combined fluorescence and atomic force microscopy

    NASA Astrophysics Data System (ADS)

    Staii, Cristian

    2014-03-01

    Detailed knowledge of mechanical parameters such as cell elasticity, stiffness of the growth substrate, or traction stresses generated during axonal extensions is essential for understanding the mechanisms that control neuronal growth. Here I present results obtained in my research group, which combine Atomic Force Microscopy and Fluorescence Microscopy measurements to produce systematic, high-resolution elasticity maps for different types of live neuronal cells cultured on glass or biopolymer-based substrates. We measure how the stiffness of neurons changes both during neurite outgrowth and upon chemical modification (disruption of the cytoskeleton) of the cell. We find a reversible local stiffening of the cell during growth, and show that the increase in local elastic modulus is primarily due to the formation of microtubules in the cell soma. We also report a reversible shift in the elastic modulus of the cortical neurons cytoskeleton with temperature, from tubulin dominated regions at 37C to actin dominated regions at 25C. We demonstrate that the dominant mechanism by which the elasticity of the neuronal soma changes in response to temperature is the contractile stiffening of the actin component of the cytoskeleton induced by the activity of myosin II motors. We acknowledge financial support from NSF grant CBET 1067093.

  9. Ice flow physical processes derived from the ERS-1 high-resolution map of the Antarctica and Greenland ice sheets

    NASA Astrophysics Data System (ADS)

    Rémy, Frédérique; Shaeffer, Philippe; Legrésy, Benoît

    1999-12-01

    The ERS-1 satellite, launched in 1991, has provided altimetric observations of the Greenland Ice Sheet and 80 per cent of the Antarctica Ice Sheet north of 82 degS. It was placed in a geodetic (168-day repeat) orbit between April 1994 and March 1995, yielding a 1.5 km across-track spacing at latitude 70 deg with a higher along-track sampling of 350 m. We have analysed the waveform altimetric data from this period to compute maps with a 1/30 deg grid size. Data processing consists of correcting for environmental factors and editing and retracking the waveforms. A further step consists of reducing the radial orbit error through crossover analysis and correcting the slope error to second order. The high-resolution topography of both ice sheets reveals numerous details. A kilometre-scale surface roughness running at 45 deg from the flow direction is the dominant topographic characteristic of both continents. Antarctica also exhibits many scars due to local flow anomalies. Several physical processes can be identified: abrupt transitions from deformation to sliding and vice versa, and impressive strike-slip phenomena, inducing en echelon folds.

  10. Generation of a high resolution map of sRNAs from Fusarium graminearum and analysis of responses to viral infection

    PubMed Central

    Wang, Shuangchao; Li, Pengfei; Zhang, Jingze; Qiu, Dewen; Guo, Lihua

    2016-01-01

    Previously, we characterized F. graminearum hypovirus 1 (FgHV1) and F. graminearum hypovirus 2 (FgHV2), which are the only two hypoviruses in F. graminearum that are closely related to Cryphonectria hypovirus 1 (CHV1) and Cryphonectria hypovirus 2 (CHV2) in the Hypoviridae family. In this study, we preliminarily elucidated the RNA silencing mechanism of the F. graminearum/hypovirus system from a small RNA (sRNA) perspective by using HiSeq deep sequencing. The length distributions of F. graminearum sRNA were altered by hypoviral infection. Potential microRNA-like (milRNA) candidates were differentially expressed between the hypovirus-free and hypovirus-infected library types. Extensive virus-derived small interfering RNAs (vsiRNAs) were also principally defined. The 1,831,081 and 3,254,758 total reads generated from the FgHV1 and FgHV2 genomes in F. graminearum yielded the first high-resolution sRNA maps of fungal viruses. In addition, extensive bioinformatics searches identified a large number of transcripts that are potentially targeted by vsiRNAs, several of which were effectively down-regulated. In particular, the RNA silencing-related genes FgDicer1 and FgRdRp5 were predicted targets of FgHV1- and FgHV2-derived siRNAs, possibly revealing a novel anti-RNA silencing strategy employed by mycoviruses. PMID:27189438

  11. Generation of a high resolution map of sRNAs from Fusarium graminearum and analysis of responses to viral infection.

    PubMed

    Wang, Shuangchao; Li, Pengfei; Zhang, Jingze; Qiu, Dewen; Guo, Lihua

    2016-01-01

    Previously, we characterized F. graminearum hypovirus 1 (FgHV1) and F. graminearum hypovirus 2 (FgHV2), which are the only two hypoviruses in F. graminearum that are closely related to Cryphonectria hypovirus 1 (CHV1) and Cryphonectria hypovirus 2 (CHV2) in the Hypoviridae family. In this study, we preliminarily elucidated the RNA silencing mechanism of the F. graminearum/hypovirus system from a small RNA (sRNA) perspective by using HiSeq deep sequencing. The length distributions of F. graminearum sRNA were altered by hypoviral infection. Potential microRNA-like (milRNA) candidates were differentially expressed between the hypovirus-free and hypovirus-infected library types. Extensive virus-derived small interfering RNAs (vsiRNAs) were also principally defined. The 1,831,081 and 3,254,758 total reads generated from the FgHV1 and FgHV2 genomes in F. graminearum yielded the first high-resolution sRNA maps of fungal viruses. In addition, extensive bioinformatics searches identified a large number of transcripts that are potentially targeted by vsiRNAs, several of which were effectively down-regulated. In particular, the RNA silencing-related genes FgDicer1 and FgRdRp5 were predicted targets of FgHV1- and FgHV2-derived siRNAs, possibly revealing a novel anti-RNA silencing strategy employed by mycoviruses.

  12. Separating strain from composition in unit cell parameter maps obtained from aberration corrected high resolution transmission electron microscopy imaging

    SciTech Connect

    Schulz, T.; Remmele, T.; Korytov, M.; Markurt, T.; Albrecht, M.; Duff, A.; Lymperakis, L.; Neugebauer, J.; Chèze, C.

    2014-01-21

    Based on the evaluation of lattice parameter maps in aberration corrected high resolution transmission electron microscopy images, we propose a simple method that allows quantifying the composition and disorder of a semiconductor alloy at the unit cell scale with high accuracy. This is realized by considering, next to the out-of-plane, also the in-plane lattice parameter component allowing to separate the chemical composition from the strain field. Considering only the out-of-plane lattice parameter component not only yields large deviations from the true local alloy content but also carries the risk of identifying false ordering phenomena like formations of chains or platelets. Our method is demonstrated on image simulations of relaxed supercells, as well as on experimental images of an In{sub 0.20}Ga{sub 0.80}N quantum well. Principally, our approach is applicable to all epitaxially strained compounds in the form of quantum wells, free standing islands, quantum dots, or wires.

  13. A High-Resolution InDel (Insertion–Deletion) Markers-Anchored Consensus Genetic Map Identifies Major QTLs Governing Pod Number and Seed Yield in Chickpea

    PubMed Central

    Srivastava, Rishi; Singh, Mohar; Bajaj, Deepak; Parida, Swarup K.

    2016-01-01

    Development and large-scale genotyping of user-friendly informative genome/gene-derived InDel markers in natural and mapping populations is vital for accelerating genomics-assisted breeding applications of chickpea with minimal resource expenses. The present investigation employed a high-throughput whole genome next-generation resequencing strategy in low and high pod number parental accessions and homozygous individuals constituting the bulks from each of two inter-specific mapping populations [(Pusa 1103 × ILWC 46) and (Pusa 256 × ILWC 46)] to develop non-erroneous InDel markers at a genome-wide scale. Comparing these high-quality genomic sequences, 82,360 InDel markers with reference to kabuli genome and 13,891 InDel markers exhibiting differentiation between low and high pod number parental accessions and bulks of aforementioned mapping populations were developed. These informative markers were structurally and functionally annotated in diverse coding and non-coding sequence components of genome/genes of kabuli chickpea. The functional significance of regulatory and coding (frameshift and large-effect mutations) InDel markers for establishing marker-trait linkages through association/genetic mapping was apparent. The markers detected a greater amplification (97%) and intra-specific polymorphic potential (58–87%) among a diverse panel of cultivated desi, kabuli, and wild accessions even by using a simpler cost-efficient agarose gel-based assay implicating their utility in large-scale genetic analysis especially in domesticated chickpea with narrow genetic base. Two high-density inter-specific genetic linkage maps generated using aforesaid mapping populations were integrated to construct a consensus 1479 InDel markers-anchored high-resolution (inter-marker distance: 0.66 cM) genetic map for efficient molecular mapping of major QTLs governing pod number and seed yield per plant in chickpea. Utilizing these high-density genetic maps as anchors, three major

  14. A High-Resolution InDel (Insertion–Deletion) Markers-Anchored Consensus Genetic Map Identifies Major QTLs Governing Pod Number and Seed Yield in Chickpea

    PubMed Central

    Srivastava, Rishi; Singh, Mohar; Bajaj, Deepak; Parida, Swarup K.

    2016-01-01

    Development and large-scale genotyping of user-friendly informative genome/gene-derived InDel markers in natural and mapping populations is vital for accelerating genomics-assisted breeding applications of chickpea with minimal resource expenses. The present investigation employed a high-throughput whole genome next-generation resequencing strategy in low and high pod number parental accessions and homozygous individuals constituting the bulks from each of two inter-specific mapping populations [(Pusa 1103 × ILWC 46) and (Pusa 256 × ILWC 46)] to develop non-erroneous InDel markers at a genome-wide scale. Comparing these high-quality genomic sequences, 82,360 InDel markers with reference to kabuli genome and 13,891 InDel markers exhibiting differentiation between low and high pod number parental accessions and bulks of aforementioned mapping populations were developed. These informative markers were structurally and functionally annotated in diverse coding and non-coding sequence components of genome/genes of kabuli chickpea. The functional significance of regulatory and coding (frameshift and large-effect mutations) InDel markers for establishing marker-trait linkages through association/genetic mapping was apparent. The markers detected a greater amplification (97%) and intra-specific polymorphic potential (58–87%) among a diverse panel of cultivated desi, kabuli, and wild accessions even by using a simpler cost-efficient agarose gel-based assay implicating their utility in large-scale genetic analysis especially in domesticated chickpea with narrow genetic base. Two high-density inter-specific genetic linkage maps generated using aforesaid mapping populations were integrated to construct a consensus 1479 InDel markers-anchored high-resolution (inter-marker distance: 0.66 cM) genetic map for efficient molecular mapping of major QTLs governing pod number and seed yield per plant in chickpea. Utilizing these high-density genetic maps as anchors, three major

  15. Identification of submicroscopic genetic changes and precise breakpoint mapping in myelofibrosis using high resolution mate-pair sequencing.

    PubMed

    Lasho, Terra; Johnson, Sarah H; Smith, David I; Crispino, John D; Pardanani, Animesh; Vasmatzis, George; Tefferi, Ayalew

    2013-09-01

    We used high resolution mate-pair sequencing (HRMPS) in 15 patients with primary myelofibrosis (PMF): eight with normal karyotype and seven with PMF-characteristic cytogenetic abnormalities, including der(6)t(1;6)(q21-23;p21.3) (n = 4), der(7)t(1;7)(q10;p10) (n = 2), del(20)(q11.2q13.3) (n = 3), and complex karyotype (n = 1). We describe seven novel deletions/translocations in five patients (including two with normal karyotype) whose breakpoints were PCR-validated and involved MACROD2, CACNA2D4, TET2, SGMS2, LRBA, SH3D19, INTS3, FOP (CHTOP), SCLT1, and PHF17. Deletions with breakpoints involving MACROD2 (lysine deacetylase; 20p12.1) were recurrent and found in two of the 15 study patients. A novel fusion transcript was found in one of the study patients (INTS3-CHTOP), and also in an additional non-study patient with PMF. In two patients with der(6)t(1;6)(q21-23;p21.3), we were able to map the precise translocation breakpoints, which involved KCNN3 and GUSBP2 in one case and HYDIN2 in another. This study demonstrates the utility of HRMPS in uncovering submicroscopic deletions/translocations/fusions, and precise mapping of breakpoints in those with overt cytogenetic abnormalities. The overall results confirm the genetic heterogeneity of PMF, given the low frequency of recurrent specific abnormalities, identified by this screening strategy. Currently, we are pursuing the pathogenetic relevance of some of the aforementioned findings.

  16. Using high-resolution aeromagnetic survey to map tectonic elements of plate boundaries: An example from the Dead Sea Fault

    NASA Astrophysics Data System (ADS)

    Al-Zoubi, A. S.; ten Brink, U. S.; Rybakov, M.; Rotstein, Y.

    2004-12-01

    The Dead Sea Fault (DSF) is a transform plate boundary between the African and the Arabian plates. The 200-km-long DSF segment between the Gulf of Aqaba/Elat and the Dead Sea, which has the morphology of a rift valley, shows little seismic activity, and its surface trace is only intermittently visible. High-resolution magnetic data were collected in October 2003 aboard a Jordanian military helicopter flying at an altitude of 100 m over the southern 120-km-long section of this fault segment. The survey was part of a US-AID Middle Eastern Regional Cooperation project between Jordanian, Israeli, Palestinian, and American scientists. Data were collected along rift-perpendicular lines spaced 300 m apart, requiring frequent crossings between Israeli and Jordanian air spaces. The data were gridded at 75 m interval following resolution tests, reduced to pole, and incorporated into a GIS together with elevation, geology, and gravity maps to facilitate interpretation. The main findings of the magnetic survey are the absence of magnetic anomalies crossing the rift valley, and the presence of a rift-parallel regional lineament corresponding to the active trace of the DSF. The lineament extends NNE as an almost continuous trace from Elat, Israel, to the eastern side of the valley 5 km north of Rahmeh. Jordan. Another fault trace located 2-3 km to the west may overlap and continue NNE through Gebel A-Risha, and into the central Arava/Araba valley, where it is visible on the surface. Alternatively, the two traces may be connected. If an offset between the two traces exists, it may be small enough to allow an earthquake rupture to propagate across the offset, and generate an earthquake with a moment magnitude of up to 7.5. Traces of buried faults in the central Arava/Araba valley that were previously active in the DSF system, are visible as abrupt terminations of an area of short wavelength magnetic anomalies. These anomalies probably represent shallow subsurface magmatic

  17. Integration of high-resolution physical and genetic map reveals differential recombination frequency between chromosomes and the genome assembling quality in cucumber.

    PubMed

    Lou, Qunfeng; He, Yuhua; Cheng, Chunyan; Zhang, Zhonghua; Li, Ji; Huang, Sanwen; Chen, Jinfeng

    2013-01-01

    Cucumber is an important model crop and the first species sequenced in Cucurbitaceae family. Compared to the fast increasing genetic and genomics resources, the molecular cytogenetic researches in cucumber are still very limited, which results in directly the shortage of relation between plenty of physical sequences or genetic data and chromosome structure. We mapped twenty-three fosmids anchored by SSR markers from LG-3, the longest linkage group, and LG-4, the shortest linkage group on pachytene chromosomes 3 and 4, using uorescence in situ hybridization (FISH). Integrated molecular cytogenetic maps of chromosomes 3 and 4 were constructed. Except for three SSR markers located on heterochromatin region, the cytological order of markers was concordant with those on the linkage maps. Distinct structural differences between chromosomes 3 and 4 were revealed by the high resolution pachytene chromosomes. The extreme difference of genetic length between LG-3 and LG-4 was mainly attributed to the difference of overall recombination frequency. The significant differentiation of heterochromatin contents in chromosomes 3 and 4 might have a direct correlation with recombination frequency. Meanwhile, the uneven distribution of recombination frequency along chromosome 4 was observed, and recombination frequency of the long arm was nearly 3.5 times higher than that of the short arm. The severe suppression of recombination was exhibited in centromeric and heterochromatin domains of chromosome 4. Whereas a close correlation between the gene density and recombination frequency was observed in chromosome 4, no significant correlation was observed between them along chromosome 3. The comparison between cytogenetic and sequence maps revealed a large gap on the pericentromeric heterochromatin region of sequence map of chromosome 4. These results showed that integrated molecular cytogenetic maps can provide important information for the study of genetic and genomics in cucumber.

  18. Application of the High Resolution Melting analysis for genetic mapping of Sequence Tagged Site markers in narrow-leafed lupin (Lupinus angustifolius L.).

    PubMed

    Kamel, Katarzyna A; Kroc, Magdalena; Święcicki, Wojciech

    2015-01-01

    Sequence tagged site (STS) markers are valuable tools for genetic and physical mapping that can be successfully used in comparative analyses among related species. Current challenges for molecular markers genotyping in plants include the lack of fast, sensitive and inexpensive methods suitable for sequence variant detection. In contrast, high resolution melting (HRM) is a simple and high-throughput assay, which has been widely applied in sequence polymorphism identification as well as in the studies of genetic variability and genotyping. The present study is the first attempt to use the HRM analysis to genotype STS markers in narrow-leafed lupin (Lupinus angustifolius L.). The sensitivity and utility of this method was confirmed by the sequence polymorphism detection based on melting curve profiles in the parental genotypes and progeny of the narrow-leafed lupin mapping population. Application of different approaches, including amplicon size and a simulated heterozygote analysis, has allowed for successful genetic mapping of 16 new STS markers in the narrow-leafed lupin genome.

  19. High-resolution mapping of Martian water ice clouds using Mars Express OMEGA observations – Derivation of the diurnal cloud life cycle

    NASA Astrophysics Data System (ADS)

    Szantai, Andre; Audouard, Joachim; Madeleine, Jean-Baptiste; Forget, Francois; Pottier, Alizée; Millour, Ehouarn; Gondet, Brigitte; Langevin, Yves; Bibring, Jean-Pierre

    2016-10-01

    The mapping in space and time of water ice clouds can help to explain the Martian water cycle and atmospheric circulation. For this purpose, an ice cloud index (ICI) corresponding to the depth of a water ice absorption band at 3.4 microns is derived from a series of OMEGA images (spectels) covering 5 Martian years. The ICI values for the corresponding pixels are then binned on a high-resolution regular grid (1° longitude x 1° latitude x 5° Ls x 1 h local time) and averaged. Inside each bin, the cloud cover is calculated by dividing the number of pixels considered as cloudy (after comparison to a threshold) to the number of all (valid) pixelsWe compare the maps of clouds obtained around local time 14:00 with collocated TES cloud observations (which were only obtained around this time of the day). A good agreement is found.Averaged ICI compared to the water ice column variable from the Martian Climate Database (MCD) show a correct correlation (~0.5) , which increases when values limited to the tropics only are compared.The number of gridpoints containing ICI values is small ( ~1%), but by taking several neighbor gridpoints and over longer periods, we can observe a cloud life cycle during daytime. An example in the the tropics, around the northern summer solstice, shows a decrease of cloudiness in the morning followed by an increase in the afternoon.

  20. A high-resolution, intraspecific linkage map of pepper (Capsicum annuum L.) and selection of reduced recombinant inbred line subsets for fast mapping.

    PubMed

    Barchi, Lorenzo; Bonnet, Julien; Boudet, Christine; Signoret, Patrick; Nagy, István; Lanteri, Sergio; Palloix, Alain; Lefebvre, Véronique

    2007-01-01

    A high-resolution, intraspecific linkage map of pepper (Capsicum annuum L.) was constructed from a population of 297 recombinant inbred lines. The parents were the large-fruited inbred cultivar 'Yolo Wonder' and the hot pepper line 'Criollo de Morelos 334', which is heavily used as a source of resistance to a number of diseases. A set of 587 markers (507 amplified fragment length polymorphisms, 40 simple sequence repeats, 19 restriction fragment length polymorphisms, 17 sequence-specific amplified polymorphisms, and 4 sequence tagged sites) were used to generate the map; of these, 489 were assembled into 49 linkage groups (LGs), including 14 LGs with 10 to 60 markers per LG and 35 with 2 to 9 markers per LG. The framework map covered 1857 cM with an average intermarker distance of 5.71 cM. Twenty-three LGs, composed of 69% of the markers and covering 1553 cM, were assigned to 1 of the 12 haploid pepper chromosomes, leaving 26 LGs (304 cM) unassigned. The chromosome framework map built with 250 markers led to a high level of mapping confidence and an average intermarker distance of 6.54 cM. By applying MapPop software, it was possible to select smaller subsets of 141 or 93 most informative individuals with a view to reducing the time and cost of further mapping and phenotyping. To define the smallest number of individuals sufficient for assigning any new marker to a chromosome, subsets from 12 to 45 individuals and a set of 13 markers distributed over all 12 chromosomes were screened. In most cases, the markers were correctly assigned to their expected chromosome, but the accuracy of the map position decreased as the number of individuals was reduced. PMID:17546071

  1. Developing a high-resolution wind map for a complex terrain with a coupled MM5/CALMET system

    NASA Astrophysics Data System (ADS)

    Yim, Steve H. L.; Fung, Jimmy C. H.; Lau, Alexis K. H.; Kot, S. C.

    2007-03-01

    This study investigates the wind energy potential in Hong Kong, a region with a complex terrain, by coupling the prognostic MM5 mesoscale model with the CALMET diagnostic model to produce high-resolution wind fields. Hourly wind fields were simulated for the entire year of 2004. The MM5 simulations were performed on a nested grid from 40.5 km down to 1.5 km horizontal resolution. The CALMET meteorological model was used in a domain that includes the entire Hong Kong region with a high horizontal resolution of 100 m. The MM5 model wind field (1.5 km horizontal resolution) output was input into the CALMET diagnostic meteorological model every hour along with an objective analysis procedure using all available observations. Verification was achieved through two steps. In the first step, the data from three meteorological surface stations that were not assimilated into the CALMET model were compared horizontally with the simulated wind fields. In the second step, the simulated wind fields were compared vertically with the vertical wind profile collected from two upper air sounding stations. The results of this study identified the locations of the highest wind energy potential in HK down to 100 m resolution.

  2. Quantitative and confirmative performance of liquid chromatography coupled to high-resolution mass spectrometry compared to tandem mass spectrometry.

    PubMed

    Kaufmann, Anton; Butcher, Patrick; Maden, Kathryn; Walker, Stephan; Widmer, Miryam

    2011-04-15

    The quantitative and confirmative performance of two different mass spectrometry (MS) techniques (high-resolution MS and tandem MS) was critically compared. Evaluated was a new extraction and clean-up protocol which was developed to cover more than 100 different veterinary drugs at trace levels in a number of animal tissues and honey matrices. Both detection techniques, high-resolution mass spectrometry (HRMS) (single-stage Orbitrap instrument operated at 50 000 full width at half maximum) and tandem mass spectrometry (MS/MS) (quadrupole technology) were used to validate the method according to the EU Commission Decision 2002/657/EEC. Equal or even a slightly better quantitative performance was observed for the HRMS-based approach. Sensitivity is higher for unit mass resolution MS/MS if only a subset of the 100 compounds has to be monitored. Confirmation of suspected positive findings can be done by evaluating the intensity ratio between different MS/MS transitions, or by accurate mass based product ion traces (no precursor selection applied). MS/MS relies on compound-specific optimized transitions; hence the second, confirmatory transition generally shows relatively high ion abundance (fragmentation efficacy). This is often not the case in single-stage HRMS, since a generic (not compound-optimized) collision energy is applied. Hence, confirmation of analytes present at low levels is superior when performed by MS/MS. Slightly better precision, but poorer accuracy (fortified matrix extracts versus pure standard solution) of ion ratios were observed when comparing data obtained by HRMS versus MS/MS. PMID:21416536

  3. Application of outcrop studies to aid facies interpretation, establish high-resolution correlations, and map reservoir compartments

    SciTech Connect

    Navarre, J.C.; Eschard, R.; Guillocheau, F.

    1995-08-01

    As part of a project designed to use stratigraphically identified fluid-flow units as input for reservoir simulation, we have used surface correlations to aid subsurface correlations of strata within the Mesa Verde Group, San Juan basin, Colorado. Surface correlations show changes in symmetry of stratigraphic cycles and changes in facies types and associations within different parts of stratigraphic cycles. A knowledge of these changes in facies within a stratigraphic context is an invaluable aid in high-resolution subsurface correlation and in mapping fluid-flow compartments. In miles-long continuous exposures in Mancos Canyon, we have identified very low-angle (0.12{degrees}) clinoforms in shoreface strata of the Point Lookout Formations. Strata within groups of clinoforms of base-level fall hemicycles show shallowing-up vertical profiles in shelf through upper shoreface facies. The shallowest facies of the most seaward (youngest) shoreface clinoform package is overlain either by a thin deepening-up facies succession or by a transgressive surface of starvation followed by another shallowing-upward facies succession. Farther landward base-level hemicycles are recognized by alternations in types of channelbelt sandstones and lake and floodplain mudstones. Base-level rise strata generally show increasing aggradation and sediment preservation in a landward direction for a few miles. The most continuous, and often the thickest, mud-rich strata occur at the base-level rise to fall turn-around positions in all environments. These continuous, low-permeability strata follow the topography of clinoforms and divide the reservoir quality sandstones of the shoreface, tidally influenced estuary and bay, and channelbelts into reservoir compartments. Sandstones of the compartments average 10-15 m thick, dip at 0.12{degrees} through the shoreface, extend an average of 13 km in the dip direction, and at least 10 km in strike directions.

  4. Urban structure mapping using high-resolution remote sensing data for modelling flood losses in Dresden, Germany

    NASA Astrophysics Data System (ADS)

    Gerl, Tina Maria; Kreibich, Heidi; Bochow, Mathias

    2013-04-01

    Due to high settlement densities and concentrations of valuable objects along rivers floods often cause huge economic losses, as experienced by Germany during the 2002 flood event in the Elbe and Danube catchments. To support a comprehensive risk management and evaluate the cost-effectiveness of mitigation measures, reliable damage models are required. The Flood Loss Estimation Model for the Private Sector (FLEMOps) was developed to calculate damage on residential buildings in Germany, considering parameters as water level, building type, building quality, precaution and contamination. Until now, the commercial geodata INFAS were used to characterise the residential building stock at municipal scale. The current study aims at identifying building specific parameters by the application of remotely sensed data to improve the damage calculation with the flood loss model FLEMOps. In a first step multi-spectral IKONOS data is classified using a hierarchical approach combining a conventional maximum likelihood classifier with LiDAR height information to distinguish different land cover classes (e.g. roof types, vegetation) in Dresden, Germany. The land cover classes are further analysed by an adapted urban structure type mapping approach, which computes distinctive spatial features on building block scale of ATKIS data, allowing the differentiation of urban structure types such as single-family houses, multi-family houses, high-rise buildings and others. The generated information about the urban spatial structure is then linked to building specific flood damage data obtained by telephone interviews in previous studies. Thus, we will explore if spatial structure information derived from high-resolution remote sensing data is correlated with flood vulnerability and thus, can reduce uncertainties associated with flood damage estimation.

  5. Evaluation of a moderate resolution, satellite-based impervious surface map using an independent, high-resolution validation data set

    USGS Publications Warehouse

    Jones, J.W.; Jarnagin, T.

    2009-01-01

    Given the relatively high cost of mapping impervious surfaces at regional scales, substantial effort is being expended in the development of moderate-resolution, satellite-based methods for estimating impervious surface area (ISA). To rigorously assess the accuracy of these data products high quality, independently derived validation data are needed. High-resolution data were collected across a gradient of development within the Mid-Atlantic region to assess the accuracy of National Land Cover Data (NLCD) Landsat-based ISA estimates. Absolute error (satellite predicted area - "reference area") and relative error [satellite (predicted area - "reference area")/ "reference area"] were calculated for each of 240 sample regions that are each more than 15 Landsat pixels on a side. The ability to compile and examine ancillary data in a geographic information system environment provided for evaluation of both validation and NLCD data and afforded efficient exploration of observed errors. In a minority of cases, errors could be explained by temporal discontinuities between the date of satellite image capture and validation source data in rapidly changing places. In others, errors were created by vegetation cover over impervious surfaces and by other factors that bias the satellite processing algorithms. On average in the Mid-Atlantic region, the NLCD product underestimates ISA by approximately 5%. While the error range varies between 2 and 8%, this underestimation occurs regardless of development intensity. Through such analyses the errors, strengths, and weaknesses of particular satellite products can be explored to suggest appropriate uses for regional, satellite-based data in rapidly developing areas of environmental significance. ?? 2009 ASCE.

  6. Full hierarchic versus non-hierarchic classification approaches for mapping sealed surfaces at the rural-urban fringe using high-resolution satellite data.

    PubMed

    De Roeck, Tim; Van de Voorde, Tim; Canters, Frank

    2009-01-01

    Since 2008 more than half of the world population is living in cities and urban sprawl is continuing. Because of these developments, the mapping and monitoring of urban environments and their surroundings is becoming increasingly important. In this study two object-oriented approaches for high-resolution mapping of sealed surfaces are compared: a standard non-hierarchic approach and a full hierarchic approach using both multi-layer perceptrons and decision trees as learning algorithms. Both methods outperform the standard nearest neighbour classifier, which is used as a benchmark scenario. For the multi-layer perceptron approach, applying a hierarchic classification strategy substantially increases the accuracy of the classification. For the decision tree approach a one-against-all hierarchic classification strategy does not lead to an improvement of classification accuracy compared to the standard all-against-all approach. Best results are obtained with the hierarchic multi-layer perceptron classification strategy, producing a kappa value of 0.77. A simple shadow reclassification procedure based on characteristics of neighbouring objects further increases the kappa value to 0.84.

  7. Quantitative trait locus (QTL) isogenic recombinant analysis: a method for high-resolution mapping of QTL within a single population.

    PubMed

    Peleman, Johan D; Wye, Crispin; Zethof, Jan; Sørensen, Anker P; Verbakel, Henk; van Oeveren, Jan; Gerats, Tom; van der Voort, Jeroen Rouppe

    2005-11-01

    In the quest for fine mapping quantitative trait loci (QTL) at a subcentimorgan scale, several methods that involve the construction of inbred lines and the generation of large progenies of such inbred lines have been developed (Complex Trait Consortium 2003). Here we present an alternative method that significantly speeds up QTL fine mapping by using one segregating population. As a first step, a rough mapping analysis is performed on a small part of the population. Once the QTL have been mapped to a chromosomal interval by standard procedures, a large population of 1000 plants or more is analyzed with markers flanking the defined QTL to select QTL isogenic recombinants (QIRs). QIRs bear a recombination event in the QTL interval of interest, while other QTL have the same homozygous genotype. Only these QIRs are subsequently phenotyped to fine map the QTL. By focusing at an early stage on the informative individuals in the population only, the efforts in population genotyping and phenotyping are significantly reduced as compared to prior methods. The principles of this approach are demonstrated by fine mapping an erucic acid QTL of rapeseed at a subcentimorgan scale.

  8. Continuous, high-resolution spatial mapping of water isotopes: improving tools for quantifying local evaporation and residence times

    NASA Astrophysics Data System (ADS)

    Dennis, Kate J.; Carter, Jeffrey A.; Winkler, Renato; Downing, Brian; Kendall, Carol; Bergamaschi, Brian

    2015-04-01

    Stable isotopes of water (d2H, d18O) are unique tracers of many hydrological processes including evaporation, precipitation, reservoir mixing and residence time. Historically, discrete water samples have been collected and analyzed via either Isotope Ratio Mass Spectrometry, or more recently laser-based spectroscopic methods, such as Cavity Ring-Down Spectroscopy (CRDS). However, the analysis of discrete samples precludes the ability to construct high resolution water isotope data sets through time and space. By coupling a recently developed front-end peripheral device (Continuous Water Sampler or CWS) to a CRDS analyzer (Picarro L2130-i), we continuously measured and spatially mapped water isotopes on a transect of the Sacramento River Delta following an extended period of drought. More than two-thousand five-second average d18O and d2H measurements were made aboard the R/V King (USGS) over a six-hour period. In addition to water isotopes, nitrate, chlorophyll, dissolved organic matter (DOM) fluorescence, and other water quality parameters were also measured continuously. As you travel northeast up the delta, surface waters become progressively more enriched in 18O and 2H, while nitrate decreased in concentration and chlorophyll and DOM increased. We utilize the spatially-mapped isotope data within a single transect to understand local evaporation and residence time by (i) utilizing the secondary parameter, d-excess, and (ii) using a simple mass balance model of water moving through the system (inflow, outflow and evaporation). Additional transects, to be conducted during the rainy season, should highlight how the Delta system evolves seasonally. In concert with other data previously collected from the Sacramento River Delta, we suggest the lower region represents a mixture of river waters derived from the Sierra Nevada Mountains and the more marine waters from the mouth of the San Francisco Bay. Moving NE up the Delta into shallow sloughs through flooded wetlands

  9. The Arabidopsis TAC Position Viewer: a high-resolution map of transformation-competent artificial chromosome (TAC) clones aligned with the Arabidopsis thaliana Columbia-0 genome.

    PubMed

    Hirose, Yoshitsugu; Suda, Kunihiro; Liu, Yao-Guang; Sato, Shusei; Nakamura, Yukino; Yokoyama, Koji; Yamamoto, Naoki; Hanano, Shigeru; Takita, Eiji; Sakurai, Nozomu; Suzuki, Hideyuki; Nakamura, Yasukazu; Kaneko, Takakazu; Yano, Kentaro; Tabata, Satoshi; Shibata, Daisuke

    2015-09-01

    We present a high-resolution map of genomic transformation-competent artificial chromosome (TAC) clones extending over all Arabidopsis thaliana (Arabidopsis) chromosomes. The Arabidopsis genomic TAC clones have been valuable genetic tools. Previously, we constructed an Arabidopsis genomic TAC library consisting of more than 10,000 TAC clones harboring large genomic DNA fragments extending over the whole Arabidopsis genome. Here, we determined 13,577 end sequences from 6987 Arabidopsis TAC clones and mapped 5937 TAC clones to precise locations, covering approximately 90% of the Arabidopsis chromosomes. We present the large-scale data set of TAC clones with high-resolution mapping information as a Java application tool, the Arabidopsis TAC Position Viewer, which provides ready-to-go transformable genomic DNA clones corresponding to certain loci on Arabidopsis chromosomes. The TAC clone resources will accelerate genomic DNA cloning, positional walking, complementation of mutants and DNA transformation for heterologous gene expression. PMID:26227242

  10. High-resolution mapping of epitopes on the C2 domain of factor VIII by analysis of point mutants using surface plasmon resonance

    PubMed Central

    Nguyen, Phuong-Cac T.; Lewis, Kenneth B.; Ettinger, Ruth A.; Schuman, Jason T.; Lin, Jasper C.; Healey, John F.; Meeks, Shannon L.; Lollar, Pete

    2014-01-01

    Neutralizing anti-factor VIII (FVIII) antibodies that develop in patients with hemophilia A and in murine hemophilia A models, clinically termed “inhibitors,” bind to several distinct surfaces on the FVIII-C2 domain. To map these epitopes at high resolution, 60 recombinant FVIII-C2 proteins were generated, each having a single surface-exposed residue mutated to alanine or a conservative substitution. The binding kinetics of these muteins to 11 monoclonal, inhibitory anti-FVIII-C2 antibodies were evaluated by surface plasmon resonance and the results compared with those obtained for wild-type FVIII-C2. Clusters of residues with significantly altered binding kinetics identified “functional” B-cell epitopes, defined as those residues contributing appreciable antigen–antibody avidity. These antibodies were previously shown to neutralize FVIII activity by interfering with proteolytic activation of FVIII by thrombin or factor Xa, or with its binding to phospholipid surfaces, von Willebrand factor, or other components of the intrinsic tenase complex. Fine mapping of epitopes by surface plasmon resonance also indicated surfaces through which FVIII interacts with proteins and phospholipids as it participates in coagulation. Mutations that significantly altered the dissociation times/half-lives identified functionally important interactions within antigen–antibody interfaces and suggested specific sequence modifications to generate novel, less antigenic FVIII proteins with possible therapeutic potential for treatment of inhibitor patients. PMID:24591205

  11. Ultra-high Resolution Mapping of the Inner Crater of the Active Kick'em Jenny Volcano

    NASA Astrophysics Data System (ADS)

    Hart, L.; Scott, C.; Tominaga, M.; Smart, C.; Vaughn, I.; Roman, C.; Carey, S.; German, C. R.; Participants, T.

    2015-12-01

    We conducted high-resolution geological characterization of a 0.015km^2 region of the inner crater of the most active submarine volcano in the Caribbean, Kick'em Jenny, located 8 km off Grenada in the Lesser Antilles Island Arc. We obtained digital still images and microbathymetery at an altitude of 3 m from the seafloor by using stereo cameras and a BlueView system mounted on Remotely Operated Vehicle (ROV) Hercules during the NA054 cruise on E/V Nautilus (Sept. - Oct. 2014). The seafloor images were processed to construct 2-D photo mosaics of the survey area using Standard Hercules Imaging Suite. We systematically classified the photographed seafloor geology based on the distribution of seafloor morphology and the observable rock fragment and outcrop sizes. The center of the crater floor shows a smooth, coherent texture with little variation in sea floor morphology. From immediately outside this area toward the crater rim, we observe an extensive area covered with outcrops, small rocks, and sediment: and within this area, (1) the north section is partially covered by uneven outcrops with elongated lineaments and a course, rugged seafloor with individual rock fragments observable; (2) the middle section contains high variability and heterogeneity in seafloor morphology in a non-systematic manner; and (3) overall, the southern most section displays subdued seafloor features both in space and variability compared to the other areas. The distributions of rock fragments were classified into four distinct sizes. We observe: (i) little variation in size distribution near the center of the crater floor; and (ii) rock fragment size increasing toward the rim of the crater. To obtain a better understanding of the link between variation in seafloor morphology, rock size distribution, and other in situ processes, we compare our observations on the digital photo mosaic to bathymetry data and ROV visuals (e.g. vents and bacterial mats).

  12. High resolution mapping of offshore and onshore glaciogenic features in metamorphic bedrock terrain, Melville Bay, northwestern Greenland

    NASA Astrophysics Data System (ADS)

    Freire, Francis; Gyllencreutz, Richard; Greenwood, Sarah L.; Mayer, Larry; Egilsson, Arnar; Thorsteinsson, Tómas; Jakobsson, Martin

    2015-12-01

    Geomorphological studies of previously glaciated landscapes are important to understand how ice sheets and glaciers respond to rapidly changing climate. Melville Bay, in northwestern Greenland, contains some of the most sensitive but least studied ice sheet sectors in the northern hemisphere, where the bathymetric knowledge previously was restricted to a few sparsely distributed single beam echo soundings. We present here the results of high-resolution, geomorphological mapping of the offshore and onshore landscapes in Melville Bay using multibeam sonar and satellite data, at 5- and 10-m resolutions respectively. The results show a similar areally-scoured bedrock-dominated landscape with a glacially modified cnoc-and-lochan morphology on the inner shelf (150-500 m depth) and on the nearby exposed coast. This is manifested by the presence of U-shaped troughs, moutonée-type elongated landforms, stoss-and-lee forms, and streamlined features. The submarine landscape shows features that are characteristic of bedrock in folded, faulted, and weathered metamorphic terrain, and, to a lesser extent, glacially molded bedforms; while coastal landforms exhibit higher relief, irregular-shaped basins, and more subdued fracture valleys. Although generally similar, the onshore and offshore landscapes contain examples of distinctly different landform patterns, which are interpreted to reflect a longer exposure to long-term deep weathering as well as to more recent periglacial weathering processes on land. The spatial variability in the distribution of landforms across the landscape in both study areas is mostly attributed to differences in lithological properties of the bedrock. The lack of sediment cover on the inner shelf is likely a result of a capacity for sediment erosion and removal by the West Greenland Current flowing northward over the area in combination with limited sediment supply from long sea ice-cover seasons. The distribution and orientation of the landforms in the

  13. High-resolution linkage and quantitative trait locus mapping aided by genome survey sequencing: building up an integrative genomic framework for a bivalve mollusc.

    PubMed

    Jiao, Wenqian; Fu, Xiaoteng; Dou, Jinzhuang; Li, Hengde; Su, Hailin; Mao, Junxia; Yu, Qian; Zhang, Lingling; Hu, Xiaoli; Huang, Xiaoting; Wang, Yangfan; Wang, Shi; Bao, Zhenmin

    2014-02-01

    Genetic linkage maps are indispensable tools in genetic and genomic studies. Recent development of genotyping-by-sequencing (GBS) methods holds great promise for constructing high-resolution linkage maps in organisms lacking extensive genomic resources. In the present study, linkage mapping was conducted for a bivalve mollusc (Chlamys farreri) using a newly developed GBS method-2b-restriction site-associated DNA (2b-RAD). Genome survey sequencing was performed to generate a preliminary reference genome that was utilized to facilitate linkage and quantitative trait locus (QTL) mapping in C. farreri. A high-resolution linkage map was constructed with a marker density (3806) that has, to our knowledge, never been achieved in any other molluscs. The linkage map covered nearly the whole genome (99.5%) with a resolution of 0.41 cM. QTL mapping and association analysis congruously revealed two growth-related QTLs and one potential sex-determination region. An important candidate QTL gene named PROP1, which functions in the regulation of growth hormone production in vertebrates, was identified from the growth-related QTL region detected on the linkage group LG3. We demonstrate that this linkage map can serve as an important platform for improving genome assembly and unifying multiple genomic resources. Our study, therefore, exemplifies how to build up an integrative genomic framework in a non-model organism.

  14. High-Resolution Linkage and Quantitative Trait Locus Mapping Aided by Genome Survey Sequencing: Building Up An Integrative Genomic Framework for a Bivalve Mollusc

    PubMed Central

    Jiao, Wenqian; Fu, Xiaoteng; Dou, Jinzhuang; Li, Hengde; Su, Hailin; Mao, Junxia; Yu, Qian; Zhang, Lingling; Hu, Xiaoli; Huang, Xiaoting; Wang, Yangfan; Wang, Shi; Bao, Zhenmin

    2014-01-01

    Genetic linkage maps are indispensable tools in genetic and genomic studies. Recent development of genotyping-by-sequencing (GBS) methods holds great promise for constructing high-resolution linkage maps in organisms lacking extensive genomic resources. In the present study, linkage mapping was conducted for a bivalve mollusc (Chlamys farreri) using a newly developed GBS method—2b-restriction site-associated DNA (2b-RAD). Genome survey sequencing was performed to generate a preliminary reference genome that was utilized to facilitate linkage and quantitative trait locus (QTL) mapping in C. farreri. A high-resolution linkage map was constructed with a marker density (3806) that has, to our knowledge, never been achieved in any other molluscs. The linkage map covered nearly the whole genome (99.5%) with a resolution of 0.41 cM. QTL mapping and association analysis congruously revealed two growth-related QTLs and one potential sex-determination region. An important candidate QTL gene named PROP1, which functions in the regulation of growth hormone production in vertebrates, was identified from the growth-related QTL region detected on the linkage group LG3. We demonstrate that this linkage map can serve as an important platform for improving genome assembly and unifying multiple genomic resources. Our study, therefore, exemplifies how to build up an integrative genomic framework in a non-model organism. PMID:24107803

  15. Automatic Generation of Building Mapping Using Digital, Vertical and Aerial High Resolution Photographs and LIDAR Point Clouds

    NASA Astrophysics Data System (ADS)

    Barragán, W.; Campos, A.; Sanchez, G.

    2016-06-01

    The objective of this research is automatic generation of buildings in the interest areas. This research was developed by using high resolution vertical aerial photographs and the LIDAR point cloud through radiometric and geometric digital processes. The research methodology usesknown building heights and various segmentation algorithms and spectral band combination. The overall effectiveness of the algorithm is 97.2% with the test data.

  16. Genesis of presolar diamonds: Comparative high-resolution transmission electron microscopy study of meteoritic and terrestrial nano-diamonds

    SciTech Connect

    Daulton, T.L. |; Eisenhour, D.D.; Buseck, P.R.

    1996-12-01

    Nano-diamonds isolated from acid dissolution residues of primitive carbonaceous meteorites (Allende and Murchison) were studied using high-resolution transmission electron microscopy. To discriminate among their most likely formation mechanisms, high-pressure shock-induced metamorphism or low-pressure vapor condensation. the microstructures of presolar diamond crystallites were compared to those of (terrestrial) synthesized nano-diamonds. The synthesized diamonds used for comparison in this study were produced by high-pressure shock waves generated in controlled detonations and by direct nucleation and homoepitaxial growth from the vapor phase in low-pressure chemical vapor deposition (CVD)-type processes. Microstructural features were identified that appear unique to shock metamorphism and to nucleation from the vapor phase, respectively. A comparison of these features to the microstructures found in presolar diamonds indicates that the predominant mechanism for presolar diamond formation is a vapor deposition process, suggesting a circumstellar condensation origin. A new presolar grain component has also been identified in the meteoritic residues, the (2H) hexagonal polytype of diamond (lonsdaleite). 93 refs., 17 figs., 1 tab.

  17. Further characterization and high-resolution mapping of quantitative trait loci for ethanol-induced locomotor activity.

    PubMed

    Demarest, K; Koyner, J; McCaughran, J; Cipp, L; Hitzemann, R

    2001-01-01

    Differential sensitivity to the stimulant effects of ethanol on locomotor activity is determined in part by genetic differences. Among inbred strains of mice, moderate doses of ethanol (1-2 g/kg) stimulate locomotor activity in some strains, e.g., the DBA/2J (D2), but only mildly affect activity in other strains, e.g., C57BL/6J (B6) (Crabbe et al., 1982, 1983; Crabbe, 1986; Dudek and Phillips, 1990; Dudek et al., 1991; Dudek and Tritto, 1994). Quantitative trait loci (QTL) for the acute ethanol (1.5 g/kg) locomotor response has been identified in the BXD recombinant inbred (RI) series (N = 25 strains), a C57BL/6J x DBA/2J (B6D2) F2 intercross (N = 1800), and heterogeneous stock (HS) mice (N = 550). QTLs detected (p < .01) in the RI series were found on chromosomes 1, 2, and 6 and these QTLs were expressed in a time-dependent fashion. The QTLs on chromosomes 1 and 2 were confirmed in the F2 intercross at p < 10(-7) or better. HS mice from G32 to G35 were used to fine-map the chromosome 2 QTL. Compared to the consensus map, the genetic map in the HS animals was expanded 10- to 15-fold. Over the region flanked by D2Mit94 to D2Mit304, three separate QTLs were detected in the HS animals. The data obtained confirm the usefulness of HS mice for the fine-mapping of QTLs to a resolution of 2 cM or less.

  18. High-resolution mapping of Rsn1, a locus controlling sensitivity of rice to a necrosis-inducing phytotoxin from Rhizoctonia solani AG1-IA.

    PubMed

    Costanzo, Stefano; Jackson, Aaron K; Brooks, Steven A

    2011-06-01

    Rhizoctonia solani is a necrotrophic fungal pathogen that causes disease on many crop-plant species. Anastomosis group 1-IA is the causal agent of sheath blight of rice (Oryza sativa L.), one of the most important rice diseases worldwide. R. solani AG1-IA produces a necrosis-inducing phytotoxin and rice cultivar's sensitivity to the toxin correlates with disease susceptibility. Unlike genetic analyses of sheath blight resistance where resistance loci have been reported as quantitative trait loci, phytotoxin sensitivity is inherited as a Mendelian trait that permits high-resolution mapping of the sensitivity genes. An F(2) mapping population derived from parent cultivars 'Cypress' (toxin sensitive) and 'Jasmine 85' (toxin insensitive) was used to map Rsn1, the necrosis-inducing locus. Initial mapping based on 176 F(2) progeny and 69 simple sequence repeat (SSR) markers located Rsn1 on the long arm of chromosome 7, with tight linkage to SSR marker RM418. A high-resolution genetic map of the region was subsequently developed using a total of 1,043 F(2) progeny, and Rsn1 was mapped to a 0.7 cM interval flanked by markers NM590 and RM418. Analysis of the corresponding 29 Kb genomic sequences from reference cultivars 'Nipponbare' and '93-11' revealed the presence of four putative genes within the interval. Two are expressed cytokinin-O-glucosyltransferases, which fit an apoptotic pathway model of toxin activity, and are individually being investigated further as potential candidates for Rsn1.

  19. High resolution mapping of gaseous pollutants from on-road vehicles in four major U.S. metropolitan areas

    NASA Astrophysics Data System (ADS)

    McDonald, B. C.; Harley, R. A.

    2012-12-01

    In urban settings, motor vehicles are a dominant source for a range of air pollutants including carbon dioxide (CO2), carbon monoxide (CO), and nitrogen oxides (NOx). On-road emissions are difficult to estimate due to changes in the vehicle fleet, uncertainties in emission factors, and variable spatial and temporal activity patterns. This study focuses on four major U.S. metropolitan areas: Los Angeles, Chicago, New York, and Houston. A top-down fuel-based approach is used to estimate CO2, CO, and NOx for light-duty gasoline and heavy-duty diesel vehicles separately. Emissions are mapped at high spatial resolution (4 km grid) using available traffic data, and the analysis is repeated for years between 2000 and 2010. Fuel-based estimates are compared to ambient CO/NOy ratios to assess decadal emission trends and the spatial apportionment of light- and heavy-duty vehicle emissions. Emissions maps from this study are compared with gridded National Emissions Inventory estimates for 2005.

  20. High-resolution Rainfall Mapping in Dallas-Fort Worth (DFW) Urban Network of Radars at Multiple Frequencies

    NASA Astrophysics Data System (ADS)

    Chandra, Chandrasekar V.; Chen*, Haonan

    2015-04-01

    Urban flash flood is one of the most commonly encountered hazardous weather phenomena. Unfortunately, the rapid urbanization has made the densely populated areas even more vulnerable to flood risks. Hence, accurate and timely monitoring of rainfall at high spatiotemporal resolution is critical to severe weather warning and civil defense, especially in urban areas. However, it is still challenging to produce high-resolution products based on the large S-band National Weather Service (NWS) Next-Generation Weather Radar (NEXRAD), due to the sampling limitations and Earth curvature effect. Since 2012, the U.S. National Science Foundation Engineering Research Center (NSF-ERC) for Collaborative Adaptive Sensing of the Atmosphere (CASA) has initiated the development of Dallas-Fort Worth (DFW) radar remote sensing network for urban weather hazards mitigation. The DFW urban radar network consists of a combination of high-resolution X-band radars and a standard NWS NEXRAD radar operating at S-band frequency. High-resolution quantitative precipitation estimation (QPE) is one of the major research goals in the deployment of this urban radar network. It has been shown in the literature that the dual-polarization radar techniques can improve the QPE accuracy over traditional single-polarization radars by rendering more measurements to enhance the data quality, providing more information about rain drop size distribution (DSD), and implying more characteristics of different hydrometeor types. This paper will present the real-time dual-polarization CASA DFW QPE system, which is developed via fusion of observations from both the high-resolution X band radar network and the S-band NWS radar. The specific dual-polarization rainfall algorithms at different frequencies (i.e., S- and X-band) will be described in details. In addition, the fusion methodology combining observations at different temporal resolution will be presented. In order to demonstrate the capability of rainfall

  1. Continuous, high-resolution spatial mapping of water isotopes in oceanic environment using a CRDS analyzer combined with a continuous water sampler.

    NASA Astrophysics Data System (ADS)

    Kim-Hak, David; Huang, Kuan; Winkler, Renato

    2016-04-01

    The recent advancements of the laser-based technology -in particular Cavity Ring Down Spectroscopy, CRDS- gave birth to a new generation of water stable isotope analyzers that are user-friendly, compact and field deployable providing in-situ measurements. Furthermore, with last year's launch of the Continuous Water Sampler front-end, CWS, the analyzer system added two additional dimensions to liquid water measurements: real-time and continuous. These features enable the user to construct high resolution water isotope data sets through time and space. Campaigns on the Sacramento-San Joaquin River Delta with the US Geological Survey where the CWS-CRDS system was deployed onto a boat to spatially map sections of the delta, validated the CWS performance and demonstrated its durability on brackish water. The next step for the CWS is to explore oceanic applications with seawater. Early in-house laboratory experiments showed stable performance with brine waters (3% concentration). For the field experiment, we have collaborated with the China State Oceanic Administration to deploy the CWS-CRDS in oceanic environments on cruises along the costal China and Antarctic. Here, we present the results of the analysis collected onboard and compared them with discrete sampling measurements. The long-term test has also allowed us to assess the durability and expected lifetime of the CWS membrane and to recommend the proper maintenance procedure for optimum performance under oceanic conditions.

  2. Structural mapping over the 85°E Ridge and surroundings using EIGEN6C4 high-resolution global combined gravity field model: an integrated approach

    NASA Astrophysics Data System (ADS)

    Pal, S. K.; Narayan, Satya; Majumdar, T. J.; Kumar, Ujjawal

    2016-07-01

    A revised gravity anomaly map, generated from the EIGEN6C4 high resolution global gravity model, has been utilized for understanding structure and tectonics over the 85°E Ridge and surroundings. EIGEN6C4 data have been analysed using different derivatives and Analytical Signal techniques for delineation of structural features and comparative analysis with the published results, which shows good correlation. All the structural features observed in two seismic reflection sections over a small part of the 85°E Ridge have also been delineated very well. The lineament trends of N-S, NNW-SSE, ENE-WSW and E-W are consequences of the major changes occurred in the mid-Cretaceous towards the spreading trends from NNW-SSE to N-S and resulted in northward movement of the Indian Plate trailed by interaction with the Asian Plate in the Early Eocene. The lineaments in the eastern side of the ridge have greater circular variances and greater circular standard deviation than those of the western side, which reveals that the eastern side of the ridge has suffered more tectonic activities.

  3. Structural mapping over the 85°E Ridge and surroundings using EIGEN6C4 high-resolution global combined gravity field model: an integrated approach

    NASA Astrophysics Data System (ADS)

    Pal, S. K.; Narayan, Satya; Majumdar, T. J.; Kumar, Ujjawal

    2016-09-01

    A revised gravity anomaly map, generated from the EIGEN6C4 high resolution global gravity model, has been utilized for understanding structure and tectonics over the 85°E Ridge and surroundings. EIGEN6C4 data have been analysed using different derivatives and Analytical Signal techniques for delineation of structural features and comparative analysis with the published results, which shows good correlation. All the structural features observed in two seismic reflection sections over a small part of the 85°E Ridge have also been delineated very well. The lineament trends of N-S, NNW-SSE, ENE-WSW and E-W are consequences of the major changes occurred in the mid-Cretaceous towards the spreading trends from NNW-SSE to N-S and resulted in northward movement of the Indian Plate trailed by interaction with the Asian Plate in the Early Eocene. The lineaments in the eastern side of the ridge have greater circular variances and greater circular standard deviation than those of the western side, which reveals that the eastern side of the ridge has suffered more tectonic activities.

  4. The design and construction of a high-resolution velocity-map imaging apparatus for photoelectron spectroscopy studies of size-selected clusters

    SciTech Connect

    León, Iker; Yang, Zheng; Liu, Hong-Tao; Wang, Lai-Sheng

    2014-08-15

    A new velocity-map imaging apparatus equipped with a laser-vaporization supersonic cluster source and a time-of-flight mass spectrometer is described for high-resolution photoelectron spectroscopy studies of size-selected cluster anions. Vibrationally cold anion clusters are produced using a laser-vaporization supersonic cluster source, size-selected by a time-of-flight mass spectrometer, and then focused co-linearly into the interaction zone of the high-resolution velocity-map imaging (VMI) system. The multilens VMI system is optimized via systematic simulations and can reach a resolution of 1.2 cm{sup −1} (FWHM) for near threshold electrons while maintaining photoelectron kinetic energy resolutions (ΔKE/KE) of ∼0.53% for higher energy electrons. The new VMI lens has superior focusing power over a large energy range, yielding highly circular images with distortions no larger than 1.0025 between the long and short radii. The detailed design, simulation, construction, testing, and performance of the high-resolution VMI apparatus are presented.

  5. The design and construction of a high-resolution velocity-map imaging apparatus for photoelectron spectroscopy studies of size-selected clusters.

    PubMed

    León, Iker; Yang, Zheng; Liu, Hong-Tao; Wang, Lai-Sheng

    2014-08-01

    A new velocity-map imaging apparatus equipped with a laser-vaporization supersonic cluster source and a time-of-flight mass spectrometer is described for high-resolution photoelectron spectroscopy studies of size-selected cluster anions. Vibrationally cold anion clusters are produced using a laser-vaporization supersonic cluster source, size-selected by a time-of-flight mass spectrometer, and then focused co-linearly into the interaction zone of the high-resolution velocity-map imaging (VMI) system. The multilens VMI system is optimized via systematic simulations and can reach a resolution of 1.2 cm(-1) (FWHM) for near threshold electrons while maintaining photoelectron kinetic energy resolutions (ΔKE/KE) of ~0.53% for higher energy electrons. The new VMI lens has superior focusing power over a large energy range, yielding highly circular images with distortions no larger than 1.0025 between the long and short radii. The detailed design, simulation, construction, testing, and performance of the high-resolution VMI apparatus are presented. PMID:25173245

  6. The design and construction of a high-resolution velocity-map imaging apparatus for photoelectron spectroscopy studies of size-selected clusters

    NASA Astrophysics Data System (ADS)

    León, Iker; Yang, Zheng; Liu, Hong-Tao; Wang, Lai-Sheng

    2014-08-01

    A new velocity-map imaging apparatus equipped with a laser-vaporization supersonic cluster source and a time-of-flight mass spectrometer is described for high-resolution photoelectron spectroscopy studies of size-selected cluster anions. Vibrationally cold anion clusters are produced using a laser-vaporization supersonic cluster source, size-selected by a time-of-flight mass spectrometer, and then focused co-linearly into the interaction zone of the high-resolution velocity-map imaging (VMI) system. The multilens VMI system is optimized via systematic simulations and can reach a resolution of 1.2 cm-1 (FWHM) for near threshold electrons while maintaining photoelectron kinetic energy resolutions (ΔKE/KE) of ˜0.53% for higher energy electrons. The new VMI lens has superior focusing power over a large energy range, yielding highly circular images with distortions no larger than 1.0025 between the long and short radii. The detailed design, simulation, construction, testing, and performance of the high-resolution VMI apparatus are presented.

  7. Mapping bare soil in South West Wales, UK, using high resolution colour infra-red aerial photography for water quality and flood risk management applications

    NASA Astrophysics Data System (ADS)

    Sykes, Helena; Neale, Simon; Coe, Sarah

    2016-04-01

    Natural Resources Wales is a UK government body responsible for environmental regulation, among other areas. River walks in Water Framework Directive (WFD) priority catchments in South West Wales, UK, identified soil entering water courses due to poaching and bank erosion, leading to deterioration in the water quality and jeopardising the water quality meeting legal minimum standards. Bare soil has also been shown to cause quicker and higher hydrograph peaks in rural catchments than if those areas were vegetated, which can lead to flooding of domestic properties during peak storm flows. The aim was to target farm visits by operational staff to advise on practices likely to improve water quality and to identify areas where soft engineering solutions such as revegetation could alleviate flood risk in rural areas. High resolution colour-infrared aerial photography, 25cm in the three colour bands and 50cm in the near infrared band, was used to map bare soil in seven catchments using supervised classification of a five band stack including the Normalised Difference Vegetation Index (NDVI). Mapping was combined with agricultural land use and field boundary data to filter out arable fields, which are supposed to bare soil for part of their cycle, and was very successful when compared to ground truthing, with the exception of silage fields which contained sparse, no or unproductive vegetation at the time the imagery was acquired leading to spectral similarity to bare soil. A raindrop trace model was used to show the path sediment from bare soil areas would take when moving through the catchment to a watercourse, with hedgerows inserted as barriers following our observations from ground truthing. The findings have been used to help farmers gain funding for improvements such as fencing to keep animals away from vulnerable river banks. These efficient and automated methods can be rolled out to more catchments in Wales and updated using aerial imagery acquired more recently to

  8. High-resolution analysis of paraffin-embedded and formalin-fixed prostate tumors using comparative genomic hybridization to genomic microarrays.

    PubMed

    Paris, Pamela L; Albertson, Donna G; Alers, Janneke C; Andaya, Armann; Carroll, Peter; Fridlyand, Jane; Jain, Ajay N; Kamkar, Sherwin; Kowbel, David; Krijtenburg, Pieter-Jaap; Pinkel, Daniel; Schröder, Fritz H; Vissers, Kees J; Watson, Vivienne J E; Wildhagen, Mark F; Collins, Colin; Van Dekken, Herman

    2003-03-01

    We have used prostate cancer, the most commonly diagnosed noncutaneous neoplasm among men, to investigate the feasibility of performing genomic array analyses of archival tissue. Prostate-specific antigen and a biopsy Gleason grade have not proven to be accurate in predicting clinical outcome, yet they remain the only accepted biomarkers for prostate cancer. It is likely that distinct spectra of genomic alterations underlie these phenotypic differences, and that once identified, may be used to differentiate between indolent and aggressive tumors. Array comparative genomic hybridization allows quantitative detection and mapping of copy number aberrations in tumors and subsequent associations to be made with clinical outcome. Archived tissues are needed to have patients with sufficient clinical follow-up. In this report, 20 formalin-fixed and paraffin-embedded prostate cancer samples originating from 1986 to 1996 were studied. We present a straightforward protocol and demonstrate the utility of archived tissue for array comparative genomic hybridization with a 2400 element BAC array that provides high-resolution detection of both deletions and amplifications.

  9. Toward a high-resolution Plasmodium falciparum linkage map: Polymorphic markers from hundreds of simple sequence repeats

    SciTech Connect

    Su, Xin-Zhuan; Wellems, T.E.

    1996-05-01

    A total of 5.7 simple sequence repeats (SSRs or {open_quotes}microsatellites{close_quotes}) were identified from Plasmodium falciparum sequences in GenBank and from inserts in a genomic DNA library. Oligonucleotide primers from sequences that flank 224 of these SSRs were synthesized and used in PCR assays to test for simple sequence length polymorphisms (SSLPs). Of the 224 SSRs, 188 showed SSLPs were assigned to chromosome linkage groups by physical mapping and by comparing their inheritance patterns against those of restriction fragment length polymorphism markers in a genetic cross (HB3XDd2). The predominant SSLPs in P. falciparum were found to contain [TA]{sub n}, and [TAA]{sub n}, a feature that is reminiscent of plant genomes and is consistent with the proposed algal-like origin of malaria parasites. Since such SSLPs are abundant and readily isolated, they are a powerful resource for genetic analysis of P. falciparum. 38 refs., 2 figs., 2 tabs.

  10. High-resolution multibeam mapping and submersible surveys of topographic features in the northwestern Gulf of Mexico

    USGS Publications Warehouse

    Hickerson, E.L.; Schmahl, G.P.; Weaver, D.C.; Gardner, J.V.

    2003-01-01

    The Flower Garden Banks National Marine Sanctuary (FGBNMS) and the USGS Pacific Seafloor Mapping Project mapped about 2000 km2 of the northwestern Gulf of Mexico continental shelf during June 2002, using a Kongsberg Simrad EM1000 multibeam echosounder. Mapping focused on select topographic highs thave hae been idetnnfied as biological features warranting protection from oil and gas activities by the Minerals Management Service (MMS). The base maps will be used for all future ROV and submersible missions.

  11. High-resolution mapping of a major effect QTL from wild tomato Solanum habrochaites that influences water relations under root chilling.

    PubMed

    Arms, Erin M; Bloom, Arnold J; St Clair, Dina A

    2015-09-01

    QTL stm9 controlling rapid-onset water stress tolerance in S. habrochaites was high-resolution mapped to a chromosome 9 region that contains genes associated with abiotic stress tolerances. Wild tomato (Solanum habrochaites) exhibits tolerance to abiotic stresses, including drought and chilling. Root chilling (6 °C) induces rapid-onset water stress by impeding water movement from roots to shoots. S. habrochaites responds to such changes by closing stomata and maintaining shoot turgor, while cultivated tomato (S. lycopersicum) fails to close stomata and wilts. This response (shoot turgor maintenance under root chilling) is controlled by a major QTL (designated stm9) on chromosome 9, which was previously fine-mapped to a 2.7-cM region. Recombinant sub-near-isogenic lines for chromosome 9 were marker-selected, phenotyped for shoot turgor maintenance under root chilling in two sets of replicated experiments (Fall and Spring), and the data were used to high-resolution map QTL stm9 to a 0.32-cM region. QTL mapping revealed a single QTL that was coincident for both the Spring and Fall datasets, suggesting that the gene or genes contributing to shoot turgor maintenance under root chilling reside within the marker interval H9-T1673. In the S. lycopersicum reference genome sequence, this chromosome 9 region is gene-rich and contains representatives of gene families that have been associated with abiotic stress tolerance.

  12. Modeling defect cluster evolution in irradiated structural materials: Focus on comparing to high-resolution experimental characterization studies

    DOE PAGES

    Wirth, Brian D.; Hu, Xunxiang; Kohnert, Aaron; Xu, Donghua

    2015-03-02

    Exposure of metallic structural materials to irradiation environments results in significant microstructural evolution, property changes, and performance degradation, which limits the extended operation of current generation light water reactors and restricts the design of advanced fission and fusion reactors. Further, it is well recognized that these irradiation effects are a classic example of inherently multiscale phenomena and that the mix of radiation-induced features formed and the corresponding property degradation depend on a wide range of material and irradiation variables. This inherently multiscale evolution emphasizes the importance of closely integrating models with high-resolution experimental characterization of the evolving radiation-damaged microstructure. Lastly,more » this article provides a review of recent models of the defect microstructure evolution in irradiated body-centered cubic materials, which provide good agreement with experimental measurements, and presents some outstanding challenges, which will require coordinated high-resolution characterization and modeling to resolve.« less

  13. Modeling defect cluster evolution in irradiated structural materials: Focus on comparing to high-resolution experimental characterization studies

    SciTech Connect

    Wirth, Brian D.; Hu, Xunxiang; Kohnert, Aaron; Xu, Donghua

    2015-03-02

    Exposure of metallic structural materials to irradiation environments results in significant microstructural evolution, property changes, and performance degradation, which limits the extended operation of current generation light water reactors and restricts the design of advanced fission and fusion reactors. Further, it is well recognized that these irradiation effects are a classic example of inherently multiscale phenomena and that the mix of radiation-induced features formed and the corresponding property degradation depend on a wide range of material and irradiation variables. This inherently multiscale evolution emphasizes the importance of closely integrating models with high-resolution experimental characterization of the evolving radiation-damaged microstructure. Lastly, this article provides a review of recent models of the defect microstructure evolution in irradiated body-centered cubic materials, which provide good agreement with experimental measurements, and presents some outstanding challenges, which will require coordinated high-resolution characterization and modeling to resolve.

  14. High-Resolution Genetic Mapping of Complex Traits from a Combined Analysis of F2 and Advanced Intercross Mice

    PubMed Central

    Parker, Clarissa C.; Carbonetto, Peter; Sokoloff, Greta; Park, Yeonhee J.; Abney, Mark; Palmer, Abraham A.

    2014-01-01

    Genetic influences on anxiety disorders are well documented; however, the specific genes underlying these disorders remain largely unknown. To identify quantitative trait loci (QTL) for conditioned fear and open field behavior, we used an F2 intercross (n = 490) and a 34th-generation advanced intercross line (AIL) (n = 687) from the LG/J and SM/J inbred mouse strains. The F2 provided strong support for several QTL, but within wide chromosomal regions. The AIL yielded much narrower QTL, but the results were less statistically significant, despite the larger number of mice. Simultaneous analysis of the F2 and AIL provided strong support for QTL and within much narrower regions. We used a linear mixed-model approach, implemented in the program QTLRel, to correct for possible confounding due to familial relatedness. Because we recorded the full pedigree, we were able to empirically compare two ways of accounting for relatedness: using the pedigree to estimate kinship coefficients and using genetic marker estimates of “realized relatedness.” QTL mapping using the marker-based estimates yielded more support for QTL, but only when we excluded the chromosome being scanned from the marker-based relatedness estimates. We used a forward model selection procedure to assess evidence for multiple QTL on the same chromosome. Overall, we identified 12 significant loci for behaviors in the open field and 12 significant loci for conditioned fear behaviors. Our approach implements multiple advances to integrated analysis of F2 and AILs that provide both power and precision, while maintaining the advantages of using only two inbred strains to map QTL. PMID:25236452

  15. Comparative study of IDH1 mutations in gliomas by high resolution melting analysis, immunohistochemistry and direct DNA sequencing.

    PubMed

    Li, Juan; Zhang, Haiyan; Wang, Li; Yang, Chuanhong; Lai, Huangwen; Zhang, Wei; Chen, Xiaodong; Wang, Jie

    2015-09-01

    Patients with glioblastomas with a specific mutation in the isocitrate dehydrogenase 1 (IDH1) gene have a better prognosis than those with gliomas with wild‑type IDH1. IDH1 analysis has become part of the standard diagnostic procedure and a promising tool used for stratification in clinical trials. The present study aimed to compare high resolution melting (HRM) analysis, immunohistochemistry (IHC) and direct DNA sequencing for the detection of IDH mutations in gliomas. Fifty‑one formalin‑fixed paraffin‑embedded tumor samples were selected. For the HRM analysis and direct DNA sequencing, DNA was extracted from the tissues. For IHC, sections were stained with an anti‑IDH1‑R132H specific antibody. The HRM analysis method identified 33 cases of IDH1 gene mutations, and all mutations occurred at the R132H site. There were 33 cases of IDH1 gene mutations found by IHC, which was consistent with that identified using the HRM analysis method. However, only 30 IDH1 samples were confirmed by sequencing, in which mutations occurred at the IDH1 exon 4 R132H site. No mutation was detected in the other three of these 33 cases (two grade II oligodendroglioma and one grade II diffuse astrocytoma) by sequencing, while IHC was positive for IDH1‑R132H. The results showed that the mutation detection rate was not identified to be significantly different (P=0.250) when determined by the HRM analysis method or by direct DNA sequencing, as the concordant rate between the two methods was high (κ=0.866). The HRM analysis method in glioma IDH1 gene mutation detection has advantages of high sensitivity, good repeatability, simple operation and accurate results. It provides a novel method for detecting mutations of the IDH1 gene in paraffin embedded tissue samples of clinical glioma. Related to a small amount of sample, there was no evidence showing that HRM analysis method is superior to IHC. Direct DNA sequencing, HRM analysis and IHC results were consistent; however, HRM and

  16. High-resolution genetic linkage mapping, high-temperature tolerance and growth-related quantitative trait locus (QTL) identification in Marsupenaeus japonicus.

    PubMed

    Lu, Xia; Luan, Sheng; Hu, Long Yang; Mao, Yong; Tao, Ye; Zhong, Sheng Ping; Kong, Jie

    2016-06-01

    The Kuruma prawn, Marsupenaeus japonicus, is one of the most promising marine invertebrates in the industry in Asia, Europe and Australia. However, the increasing global temperatures result in considerable economic losses in M. japonicus farming. In the present study, to select genetically improved animals for the sustainable development of the Kuruma prawn industry, a high-resolution genetic linkage map and quantitative trait locus (QTL) identification were performed using the RAD technology. The maternal map contained 5849 SNP markers and spanned 3127.23 cM, with an average marker interval of 0.535 cM. Instead, the paternal map contained 3927 SNP markers and spanned 3326.19 cM, with an average marker interval of 0.847 cM. The consensus map contained 9289 SNP markers and spanned 3610.90 cM, with an average marker interval of 0.388 cM and coverage of 99.06 % of the genome. The markers were grouped into 41 linkage groups in the maps. Significantly, negative correlation was detected between high-temperature tolerance (UTT) and body weight (BW). The QTL mapping revealed 129 significant QTL loci for UTT and four significant QTL loci for BW at the genome-wide significance threshold. Among these QTLs, 129 overlapped with linked SNPs, and the remaining four were located in regions between contiguous SNPs. They explained the total phenotypic variance ranging from 8.9 to 12.4 %. Because of a significantly negative correlation between growth and high-temperature tolerance, we demonstrate that this high-resolution linkage map and QTLs would be useful for further marker-assisted selection in the genetic improvement of M. japonicus.

  17. High-resolution genetic linkage mapping, high-temperature tolerance and growth-related quantitative trait locus (QTL) identification in Marsupenaeus japonicus.

    PubMed

    Lu, Xia; Luan, Sheng; Hu, Long Yang; Mao, Yong; Tao, Ye; Zhong, Sheng Ping; Kong, Jie

    2016-06-01

    The Kuruma prawn, Marsupenaeus japonicus, is one of the most promising marine invertebrates in the industry in Asia, Europe and Australia. However, the increasing global temperatures result in considerable economic losses in M. japonicus farming. In the present study, to select genetically improved animals for the sustainable development of the Kuruma prawn industry, a high-resolution genetic linkage map and quantitative trait locus (QTL) identification were performed using the RAD technology. The maternal map contained 5849 SNP markers and spanned 3127.23 cM, with an average marker interval of 0.535 cM. Instead, the paternal map contained 3927 SNP markers and spanned 3326.19 cM, with an average marker interval of 0.847 cM. The consensus map contained 9289 SNP markers and spanned 3610.90 cM, with an average marker interval of 0.388 cM and coverage of 99.06 % of the genome. The markers were grouped into 41 linkage groups in the maps. Significantly, negative correlation was detected between high-temperature tolerance (UTT) and body weight (BW). The QTL mapping revealed 129 significant QTL loci for UTT and four significant QTL loci for BW at the genome-wide significance threshold. Among these QTLs, 129 overlapped with linked SNPs, and the remaining four were located in regions between contiguous SNPs. They explained the total phenotypic variance ranging from 8.9 to 12.4 %. Because of a significantly negative correlation between growth and high-temperature tolerance, we demonstrate that this high-resolution linkage map and QTLs would be useful for further marker-assisted selection in the genetic improvement of M. japonicus. PMID:26965508

  18. High-resolution terrain and landcover mapping with a lightweight, semi-autonomous, remotely-piloted aircraft (RPA): a case study and accuracy assessment

    NASA Astrophysics Data System (ADS)

    Hugenholtz, C.; Whitehead, K.; Moorman, B.; Brown, O.; Hamilton, T.; Barchyn, T.; Riddell, K.; LeClair, A.

    2012-04-01

    Remotely-piloted aircraft (RPA) have evolved into a viable research tool for a range of Earth science applications. Significant technological advances driven by military and surveillance programs have steadily become mainstream and affordable. Thus, RPA technology has the potential to reinvigorate various aspects of geomorphological research, especially at the landform scale. In this presentation we will report results and experiences using a lightweight, semi-autonomous RPA for high-resolution terrain and landcover mapping. The goal was to test the accuracy of the photogrammetrically-derived terrain model and assess the overall performance of the RPA system for landform characterization. The test site was comprised an area of semi-vegetated sand dunes in the Canadian Prairies. The RPA survey was conducted with a RQ-84Z AreoHawk (Hawkeye UAV Ltd) and a low-cost digital camera. During the survey the RPA acquired images semi-autonomously with the aid of proprietary mission planning software developed by Accuas Inc. A total of 44 GCPs were used in the block adjustment to create the terrain model, while an additional 400 independent GPS check points were used for accuracy assessment. The 1 m resolution terrain model developed with Trimble's INPHO photogrammetric software was compared to the independent check points, yielding a RMS error comparable to airborne LiDAR data. The resulting orthophoto mosaic had a resolution of 0.1 m, revealing a number of geomorphic features beyond the resolution of airborne and QuickBird imagery. Overall, this case study highlights the potential of RPA technology for resolving terrain and landcover attributes at the landform scale. We believe one of the most significant and emerging applications of RPA in geomorphology is their potential to quantify rates of landform erosion/deposition in an affordable and flexible manner, allowing investigators to reduce the gap between recorded and natural morphodynamics.

  19. Multi-dimensional water quality assessment of an urban drinking water source elucidated by high resolution underwater towed vehicle mapping.

    PubMed

    Lock, Alan; Spiers, Graeme; Hostetler, Blair; Ray, James; Wallschläger, Dirk

    2016-04-15

    Spatial surveys of Ramsey Lake, Sudbury, Ontario water quality were conducted using an innovative underwater towed vehicle (UTV) equipped with a multi-parameter probe providing real-time water quality data. The UTV revealed underwater vent sites through high resolution monitoring of different spatial chemical characteristics using common sensors (turbidity, chloride, dissolved oxygen, and oxidation/reduction sensors) that would not be feasible with traditional water sampling methods. Multi-parameter probe vent site identification is supported by elevated alkalinity and silica concentrations at these sites. The identified groundwater vent sites appear to be controlled by bedrock fractures that transport water from different sources with different contaminants of concern. Elevated contaminants, such as, arsenic and nickel and/or nutrient concentrations are evident at the vent sites, illustrating the potential of these sources to degrade water quality.

  20. Improved mapping of flood extent and flood depth using space based SAR data in combination with very high resolution digital elevation data

    NASA Astrophysics Data System (ADS)

    Zwenzner, H.

    2009-04-01

    than a few pixels. Major causes are flooded vegetation or urban structures which lead to an underestimation of the true water level because of higher backscatter values than a plain specular water surface. Also a rough water surface caused by wind or precipitation can result in higher backscatter values and thus misclassification of land instead of water. In these cases the water level can not be retrieved in a reliable manner. In the averaged water surface of the longitudinal profile, variations in the successive water levels due to small scale thematic/geometric errors could be balanced and a smooth and more realistic water surface was generated. Subsequently, each of the cross section flood profiles were trimmed or extended according to the modified water level from the longitudinal profile, and thereby the remotely sensed flood profiles were fitted onto the underlying topography. Having achieved coherence between the water surface and the topography, the flood depth could be derived and mapped. The resulting flood extent was compared against aerial photography taken 15 hours prior to the satellite pass and showed good agreement. Finally, the performance of the matching technique and scaling effects as well as the potential and the constraints of the approach are evaluated and discussed. In this context the demand for satellite-based high resolution SAR data and high resolution elevation data are stressed. The proposed semi-automatic method has been developed in the context of the rapid mapping of flood parameters, such as flood extent and flood depth, as contribution for disaster management operations or the rapid estimation of flood damages. The requirements of such applications are fulfilled by the fact that computation time is negligible and data requirements are low, i.e. only remote sensing data and high resolution topographic data are needed. The proposed method stands in contrast to hydrological modeling approaches which are more complex with respect to data

  1. Mapping DNA quantity into electrophoretic mobility through quantum dot nanotethers for high-resolution genetic and epigenetic analysis.

    PubMed

    Zhang, Yi; Liu, Kelvin J; Wang, Tian-Li; Shih, Ie-Ming; Wang, Tza-Huei

    2012-01-24

    Newly discovered nanoparticle properties have driven the development of novel applications and uses. We report a new observation where the electrophoretic mobility of a quantum dot/DNA nanoassembly can be precisely modulated by the degree of surface DNA conjugation. By using streptavidin-coated quantum dots (QDs) as nanotethers to gather biotin-labeled DNA into electrophoretic nanoassemblies, the QD surface charge is modulated and transformed into electrophoretic mobility shifts using standard agarose gel electrophoresis. Typical fluorescent assays quantify based on relative intensity. However, this phenomenon uses a novel approach that accurately maps DNA quantity into shifts in relative band position. This property was applied in a QD-enabled nanoassay called quantum dot electrophoretic mobility shift assay (QEMSA) that enables accurate quantification of DNA targets down to 1.1-fold (9%) changes in quantity, beyond what is achievable in qPCR. In addition to these experimental findings, an analytical model is presented to explain this behavior. Finally, QEMSA was applied to both genetic and epigenetic analysis of cancer. First, it was used to analyze copy number variation (CNV) of the RSF1/HBXAP gene, where conventional approaches for CNV analysis based on comparative genomic hybridization (CGH), microarrays, and qPCR are unable to reliably differentiate less than 2-fold changes in copy number. Then, QEMSA was used for DNA methylation analysis of the p16/CDK2A tumor suppressor gene, where its ability to detect subtle changes in methylation was shown to be superior to that of qPCR.

  2. High Resolution 13C MRI With Hyperpolarized Urea: In Vivo T2 Mapping and 15N Labeling Effects

    PubMed Central

    Reed, Galen D.; von Morze, Cornelius; Bok, Robert; Koelsch, Bertram L.; Van Criekinge, Mark; Smith, Kenneth J.; Shang, Hong; Larson, Peder E. Z.; Kurhanewicz, John; Vigneron, Daniel B.

    2014-01-01

    13C steady state free precession (SSFP) magnetic resonance imaging and effective spin-spin relaxation time (T2) mapping were performed using hyperpolarized [13C] urea and [13C, 15N2] urea injected intravenously in rats. 15N labeling gave large T2 increases both in solution and in vivo due to the elimination of a strong scalar relaxation pathway. The T2 increase was pronounced in the kidney, with [13C, 15N2] urea giving T2 values of 6.3±1.3 s in the cortex and medulla, and 11±2 s in the renal pelvis. The measured T2 in the aorta was 1.3±0.3 s. [13C] urea showed shortened T2 values in the kidney of 0.23±0.03 s compared to 0.28±0.03 s measured in the aorta. The enhanced T2 of [13C, 15N2] urea was utilized to generate large signal enhancement by SSFP acquisitions with flip angles approaching the fully refocused regime. Projection images at 0.94 mm in-plane resolution were acquired with both urea isotopes, with [13C, 15N2] urea giving a greater than four-fold increase in signal-to-noise ratio [13C] over urea. PMID:24235273

  3. High-resolution genetic maps of Lotus japonicus and L. burttii based on re-sequencing of recombinant inbred lines

    PubMed Central

    Sato, Shusei; Andersen, Stig Uggerhøj

    2016-01-01

    Recombinant inbred lines (RILs) derived from bi-parental populations are stable genetic resources, which are widely used for constructing genetic linkage maps. These genetic maps are essential for QTL mapping and can aid contig and scaffold anchoring in the final stages of genome assembly. In this study, two Lotus sp. RIL populations, Lotus japonicus MG-20 × Gifu and Gifu × L. burttii, were characterized by Illumina re-sequencing. Genotyping of 187 MG-20 × Gifu RILs at 87,140 marker positions and 96 Gifu × L. burttii RILs at 357,973 marker positions allowed us to accurately identify 1,929 recombination breakpoints in the MG-20 × Gifu RILs and 1,044 breakpoints in the Gifu × L. burttii population. The resulting high-density genetic maps now facilitate high-accuracy QTL mapping, identification of reference genome mis-assemblies, and characterization of structural variants. PMID:27374610

  4. High-resolution renal perfusion mapping using contrast-enhanced ultrasonography in ischemia-reperfusion injury monitors changes in renal microperfusion.

    PubMed

    Fischer, Krisztina; Meral, F Can; Zhang, Yongzhi; Vangel, Mark G; Jolesz, Ferenc A; Ichimura, Takaharu; Bonventre, Joseph V

    2016-06-01

    Alterations in renal microperfusion play an important role in the development of acute kidney injury with long-term consequences. Here we used contrast-enhanced ultrasonography as a novel method for depicting intrarenal distribution of blood flow. After infusion of microbubble contrast agent, bubbles were collapsed in the kidney and postbubble destruction refilling was measured in various regions of the kidney. Local perfusion was monitored in vivo at 15, 30, 45, 60 minutes and 24 hours after 28 minutes of bilateral ischemia in 12 mice. High-resolution, pixel-by-pixel analysis was performed on each imaging clip using customized software, yielding parametric perfusion maps of the kidney, representing relative blood volume in each pixel. These perfusion maps revealed that outer medullary perfusion decreased disproportionately to the reduction in the cortical and inner medullary perfusion after ischemia. Outer medullary perfusion was significantly decreased by 69% at 60 minutes postischemia and remained significantly less (40%) than preischemic levels at 24 hours postischemia. Thus, contrast-enhanced ultrasonography with high-resolution parametric perfusion maps can monitor changes in renal microvascular perfusion in space and time in mice. This novel technique can be translated to clinical use in man. PMID:27165821

  5. High-resolution threshold photoelectron study of the propargyl radical by the vacuum ultraviolet laser velocity-map imaging method

    NASA Astrophysics Data System (ADS)

    Gao, Hong; Xu, Yuntao; Yang, Lei; Lam, Chow-Shing; Wang, Hailing; Zhou, Jingang; Ng, C. Y.

    2011-12-01

    By employing the vacuum ultraviolet (VUV) laser velocity-map imaging (VMI) photoelectron scheme to discriminate energetic photoelectrons, we have measured the VUV-VMI-threshold photoelectrons (VUV-VMI-TPE) spectra of propargyl radical [C3H3({tilde X}{}^2B_1)] near its ionization threshold at photoelectron energy bandwidths of 3 and 7 cm-1 (full-width at half-maximum, FWHM). The simulation of the VUV-VMI-TPE spectra thus obtained, along with the Stark shift correction, has allowed the determination of a precise value 70 156 ± 4 cm-1 (8.6982 ± 0.0005 eV) for the ionization energy (IE) of C3H3. In the present VMI-TPE experiment, the Stark shift correction is determined by comparing the VUV-VMI-TPE and VUV laser pulsed field ionization-photoelectron (VUV-PFI-PE) spectra for the origin band of the photoelectron spectrum of the {tilde X}^ + {- tilde X} transition of chlorobenzene. The fact that the FWHMs for this origin band observed using the VUV-VMI-TPE and VUV-PFI-PE methods are nearly the same indicates that the energy resolutions achieved in the VUV-VMI-TPE and VUV-PFI-PE measurements are comparable. The IE(C3H3) value obtained based on the VUV-VMI-TPE measurement is consistent with the value determined by the VUV laser PIE spectrum of supersonically cooled C3H3({tilde X}{}^2B_1) radicals, which is also reported in this article.

  6. High-resolution mapping of biogenic carbon fluxes to improve urban CO2 monitoring, reporting, and verification

    NASA Astrophysics Data System (ADS)

    Hardiman, B. S.; Hutyra, L.; Gately, C.; Raciti, S. M.

    2014-12-01

    Urban areas are home to 80% of the US population and 70% of energy related fossil fuel emissions originate from urban areas. Efforts to accurately monitor, report, and verify anthropogenic CO2 missions using atmospheric measurements require reliable partitioning of anthropogenic and biogenic sources. Anthropogenic emissions peak during the daytime, coincident with biogenic drawdown of CO2. In contrast, biogenic respiration emissions peak at night when anthropogenic emissions are lower. This temporal aliasing of fluxes requires careful modeling of both biogenic and anthropogenic fluxes for accurate source attribution through inverse modeling. Biogenic fluxes in urban regions can be a significant component of the urban carbon cycle. However, vegetation in urban areas is subject to longer growing seasons, reduced competition, higher rates of nitrogen deposition, and altered patterns of biomass inputs, all interacting to elevate C turnover rates relative to analogous non-urban ecosystems. These conditions suggest that models that ignore urban vegetation or base biogenic flux estimates on non-urban forests are likely to produce inaccurate estimates of anthropogenic CO2 emissions. Biosphere models often omit biogenic fluxes in urban areas despite potentially extensive vegetation coverage. For example, in Massachusetts, models mask out as much as 40% of land area, effectively assuming they have no biological flux. This results in a ~32% underestimate of aboveground biomass (AGB) across the state as compared to higher resolution vegetation maps. Our analysis suggests that some common biomass maps may underestimate forest biomass by ~520 Tg C within the state of Massachusetts. Moreover, omitted portions of the state have the highest population density, indicating that we know least about regions where most people live. We combine remote sensing imagery of urban vegetation cover with ground surveys of tree growth and mortality to improve estimates of aboveground biomass and

  7. A digital map of the high center (HC) and low center (LC) polygon boundaries delineated from high resolution LiDAR data for Barrow, Alaska

    SciTech Connect

    Gangodagamage, Chandana; Wullschleger, Stan

    2014-07-03

    This dataset represent a map of the high center (HC) and low center (LC) polygon boundaries delineated from high resolution LiDAR data for the arctic coastal plain at Barrow, Alaska. The polygon troughs are considered as the surface expression of the ice-wedges. The troughs are in lower elevations than the interior polygon. The trough widths were initially identified from LiDAR data, and the boundary between two polygons assumed to be located along the lowest elevations on trough widths between them.

  8. NOAA's Use of High-Resolution Imagery

    NASA Technical Reports Server (NTRS)

    Hund, Erik

    2007-01-01

    NOAA's use of high-resolution imagery consists of: a) Shoreline mapping and nautical chart revision; b) Coastal land cover mapping; c) Benthic habitat mapping; d) Disaster response; and e) Imagery collection and support for coastal programs.

  9. Mapping Primary Gyrogenesis During Fetal Development in Primate Brains: High-Resolution in Utero Structural MRI of Fetal Brain Development in Pregnant Baboons

    PubMed Central

    Kochunov, Peter; Castro, Carlos; Davis, Duff; Dudley, Donald; Brewer, Jordan; Zhang, Yi; Kroenke, Christopher D.; Purdy, David; Fox, Peter T.; Simerly, Calvin; Schatten, Gerald

    2010-01-01

    The global and regional changes in the fetal cerebral cortex in primates were mapped during primary gyrification (PG; weeks 17–25 of 26 weeks total gestation). Studying pregnant baboons using high-resolution MRI in utero, measurements included cerebral volume, cortical surface area, gyrification index and length and depth of 10 primary cortical sulci. Seven normally developing fetuses were imaged in two animals longitudinally and sequentially. We compared these results to those on PG that from the ferret studies and analyzed them in the context of our recent studies of phylogenetics of cerebral gyrification. We observed that in both primates and non-primates, the cerebrum undergoes a very rapid transformation into the gyrencephalic state, subsequently accompanied by an accelerated growth in brain volume and cortical surface area. However, PG trends in baboons exhibited some critical differences from those observed in ferrets. For example, in baboons, the growth along the long (length) axis of cortical sulci was unrelated to the growth along the short (depth) axis and far outpaced it. Additionally, the correlation between the rate of growth along the short sulcal axis and heritability of sulcal depth was negative and approached significance (r = −0.60; p < 0.10), while the same trend for long axis was positive and not significant (p = 0.3; p = 0.40). These findings, in an animal that shares a highly orchestrated pattern of PG with humans, suggest that ontogenic processes that influence changes in sulcal length and depth are diverse and possibly driven by different factors in primates than in non-primates. PMID:20631812

  10. The Panchromatic Hubble Andromeda Treasury. VIII. A Wide-area, High-resolution Map of Dust Extinction in M31

    NASA Astrophysics Data System (ADS)

    Dalcanton, Julianne J.; Fouesneau, Morgan; Hogg, David W.; Lang, Dustin; Leroy, Adam K.; Gordon, Karl D.; Sandstrom, Karin; Weisz, Daniel R.; Williams, Benjamin F.; Bell, Eric F.; Dong, Hui; Gilbert, Karoline M.; Gouliermis, Dimitrios A.; Guhathakurta, Puragra; Lauer, Tod R.; Schruba, Andreas; Seth, Anil C.; Skillman, Evan D.

    2015-11-01

    We map the distribution of dust in M31 at 25 pc resolution using stellar photometry from the Panchromatic Hubble Andromeda Treasury survey. The map is derived with a new technique that models the near-infrared color-magnitude diagram (CMD) of red giant branch (RGB) stars. The model CMDs combine an unreddened foreground of RGB stars with a reddened background population viewed through a log-normal column density distribution of dust. Fits to the model constrain the median extinction, the width of the extinction distribution, and the fraction of reddened stars in each 25 pc cell. The resulting extinction map has a factor of ≳4 times better resolution than maps of dust emission, while providing a more direct measurement of the dust column. There is superb morphological agreement between the new map and maps of the extinction inferred from dust emission by Draine et al. However, the widely used Draine & Li dust models overpredict the observed extinction by a factor of ˜2.5, suggesting that M31's true dust mass is lower and that dust grains are significantly more emissive than assumed in Draine et al. The observed factor of ˜2.5 discrepancy is consistent with similar findings in the Milky Way by the Plank Collaboration et al., but we find a more complex dependence on parameters from the Draine & Li dust models. We also show that the the discrepancy with the Draine et al. map is lowest where the current interstellar radiation field has a harder spectrum than average. We discuss possible improvements to the CMD dust mapping technique, and explore further applications in both M31 and other galaxies.

  11. THE PANCHROMATIC HUBBLE ANDROMEDA TREASURY. VIII. A WIDE-AREA, HIGH-RESOLUTION MAP OF DUST EXTINCTION IN M31

    SciTech Connect

    Dalcanton, Julianne J.; Fouesneau, Morgan; Weisz, Daniel R.; Williams, Benjamin F.; Hogg, David W.; Lang, Dustin; Leroy, Adam K.; Gordon, Karl D.; Gilbert, Karoline M.; Sandstrom, Karin; Bell, Eric F.; Dong, Hui; Lauer, Tod R.; Gouliermis, Dimitrios A.; Guhathakurta, Puragra; Schruba, Andreas; Seth, Anil C.; Skillman, Evan D.

    2015-11-20

    We map the distribution of dust in M31 at 25 pc resolution using stellar photometry from the Panchromatic Hubble Andromeda Treasury survey. The map is derived with a new technique that models the near-infrared color–magnitude diagram (CMD) of red giant branch (RGB) stars. The model CMDs combine an unreddened foreground of RGB stars with a reddened background population viewed through a log-normal column density distribution of dust. Fits to the model constrain the median extinction, the width of the extinction distribution, and the fraction of reddened stars in each 25 pc cell. The resulting extinction map has a factor of ≳4 times better resolution than maps of dust emission, while providing a more direct measurement of the dust column. There is superb morphological agreement between the new map and maps of the extinction inferred from dust emission by Draine et al. However, the widely used Draine and Li dust models overpredict the observed extinction by a factor of ∼2.5, suggesting that M31's true dust mass is lower and that dust grains are significantly more emissive than assumed in Draine et al. The observed factor of ∼2.5 discrepancy is consistent with similar findings in the Milky Way by the Plank Collaboration et al., but we find a more complex dependence on parameters from the Draine and Li dust models. We also show that the the discrepancy with the Draine et al. map is lowest where the current interstellar radiation field has a harder spectrum than average. We discuss possible improvements to the CMD dust mapping technique, and explore further applications in both M31 and other galaxies.

  12. Soil depth map definition on a terraced slope for a following distributed, high resolution, numerical modelling analysis

    NASA Astrophysics Data System (ADS)

    Camera, C.; Apuani, T.; Mele, M.; Kuriakose, S. L.; Giudici, M.

    2012-04-01

    The soil thickness represents a key data for every environmental analysis involving soil, but its determination is not always simple. In this particular case, the study area is represented by a small terraced slope (0.6 km2) of Valtellina (Northern Italy), and the soil depth map is necessary for a coupled hydrogeological-stability analysis in a raster environment. During this work geometrical/morphological and geostatistical interpolation techniques were tested to obtain a satisfying soil depth map. At the end, the final product has been validated with geo-electrical resistivity inverse models. In this particular context, the presence of dry-stone retaining walls is of primary importance, since they have an influence on the morphology of the entire area as well as on the physical processes of water infiltration and slope stability. In order to consider the dry-stone walls in the analysis, it is necessary to have base maps with an adequate resolution (cells 1 m x 1 m). Assuming that the walls might be founded on bedrock or in its proximity, it was decided to use the heights of walls and the distribution of rock outcrops as soil depth input data. It was impossible to obtain direct measures with the knocking pole method, being pebbles frequently presents in the backfill soil . Except zero depth values, 682 measures were performed. The initial data set was divided into two subsets in order to use one as training points (76 % of the total) and the second as test points (24 %). Various techniques were tested, from linear multiple regressions with environmental predictors, to ordinary kriging, regression kriging with the same environmental variables, and Gaussian stochastic simulations. At the end, the best result was obtained with co-kriging, using a soil depth class map drawn from the field measures as co-variable. The result is a little bit guided but it was the only solution to obtain a map that partially takes into account the morphology of the slope. To verify the

  13. Design of a High Resolution Open Access Global Snow Cover Web Map Service Using Ground and Satellite Observations

    NASA Astrophysics Data System (ADS)

    Kadlec, J.; Ames, D. P.

    2014-12-01

    The aim of the presented work is creating a freely accessible, dynamic and re-usable snow cover map of the world by combining snow extent and snow depth datasets from multiple sources. The examined data sources are: remote sensing datasets (MODIS, CryoLand), weather forecasting model outputs (OpenWeatherMap, forecast.io), ground observation networks (CUAHSI HIS, GSOD, GHCN, and selected national networks), and user-contributed snow reports on social networks (cross-country and backcountry skiing trip reports). For adding each type of dataset, an interface and an adapter is created. Each adapter supports queries by area, time range, or combination of area and time range. The combined dataset is published as an online snow cover mapping service. This web service lowers the learning curve that is required to view, access, and analyze snow depth maps and snow time-series. All data published by this service are licensed as open data; encouraging the re-use of the data in customized applications in climatology, hydrology, sports and other disciplines. The initial version of the interactive snow map is on the website snow.hydrodata.org. This website supports the view by time and view by site. In view by time, the spatial distribution of snow for a selected area and time period is shown. In view by site, the time-series charts of snow depth at a selected location is displayed. All snow extent and snow depth map layers and time series are accessible and discoverable through internationally approved protocols including WMS, WFS, WCS, WaterOneFlow and WaterML. Therefore they can also be easily added to GIS software or 3rd-party web map applications. The central hypothesis driving this research is that the integration of user contributed data and/or social-network derived snow data together with other open access data sources will result in more accurate and higher resolution - and hence more useful snow cover maps than satellite data or government agency produced data by

  14. The songbird syrinx morphome: a three-dimensional, high-resolution, interactive morphological map of the zebra finch vocal organ

    PubMed Central

    2013-01-01

    Background Like human infants, songbirds learn their species-specific vocalizations through imitation learning. The birdsong system has emerged as a widely used experimental animal model for understanding the underlying neural mechanisms responsible for vocal production learning. However, how neural impulses are translated into the precise motor behavior of the complex vocal organ (syrinx) to create song is poorly understood. First and foremost, we lack a detailed understanding of syringeal morphology. Results To fill this gap we combined non-invasive (high-field magnetic resonance imaging and micro-computed tomography) and invasive techniques (histology and micro-dissection) to construct the annotated high-resolution three-dimensional dataset, or morphome, of the zebra finch (Taeniopygia guttata) syrinx. We identified and annotated syringeal cartilage, bone and musculature in situ in unprecedented detail. We provide interactive three-dimensional models that greatly improve the communication of complex morphological data and our understanding of syringeal function in general. Conclusions Our results show that the syringeal skeleton is optimized for low weight driven by physiological constraints on song production. The present refinement of muscle organization and identity elucidates how apposed muscles actuate different syringeal elements. Our dataset allows for more precise predictions about muscle co-activation and synergies and has important implications for muscle activity and stimulation experiments. We also demonstrate how the syrinx can be stabilized during song to reduce mechanical noise and, as such, enhance repetitive execution of stereotypic motor patterns. In addition, we identify a cartilaginous structure suited to play a crucial role in the uncoupling of sound frequency and amplitude control, which permits a novel explanation of the evolutionary success of songbirds. PMID:23294804

  15. Functional heart diagnosis by the visualization of time-dependent potential deviation and topologic map-based shape analysis from high-resolution ECG

    NASA Astrophysics Data System (ADS)

    Schulz-Bruenken, Barbara; Pelikan, Erich

    1996-04-01

    Our work focuses on functional heart analysis during acute myocardial infarction based on time-sequence data derived with a high-resolution ECG technique. This data stream can be interpreted as a sequence of potential deviation images. The analysis is performed by both visualizing the potential deviation onto the thorax as well as by shape analysis of the underlying ECG signals using a topologic map. The algorithm deals with the measurement of similarity between different pathological signal types. In contrast to other techniques, the whole ECG signal, coded as a feature vector, is used as input for the self-organizing map. The results show that this approach is suitable for handling unsharp class transitions common to the medical domain.

  16. Construction of high resolution genetic linkage maps to improve the soybean genome sequence assembly Glyma1.01

    Technology Transfer Automated Retrieval System (TEKTRAN)

    A landmark in soybean research, Glyma1.01, the first whole genome sequence of variety Williams 82 (Glycine max L. Merr.) was completed in 2010 and is widely used. However, because the assembly was primarily built based on the linkage maps constructed with a limited number of markers and recombinant...

  17. Evaluation of a Moderate Resolution, Satellite-Based Impervious Surface Map Using an Independent, High-Resolution Validation Dataset

    EPA Science Inventory

    Given the relatively high cost of mapping impervious surfaces at regional scales, substantial effort is being expended in the development of moderate-resolution, satellite-based methods for estimating impervious surface area (ISA). To rigorously assess the accuracy of these data ...

  18. A high-resolution whole-genome map of the distinctive epigenomic landscape induced by butyrate in bovine cells

    Technology Transfer Automated Retrieval System (TEKTRAN)

    This report presents a study utilizing next-generation sequencing technology, combined with chromatin immunoprecipitation (ChIP-seq) technology to analyze histone modification induced by butyrate and to construct a high-definition map of the epigenomic landscape with normal histone H3, H4, and their...

  19. High-resolution linkage map and chromosome-scale genome assembly for cassava (Manihot esculenta Crantz) from 10 populations.

    PubMed

    2014-12-11

    Cassava (Manihot esculenta Crantz) is a major staple crop in Africa, Asia, and South America, and its starchy roots provide nourishment for 800 million people worldwide. Although native to South America, cassava was brought to Africa 400-500 years ago and is now widely cultivated across sub-Saharan Africa, but it is subject to biotic and abiotic stresses. To assist in the rapid identification of markers for pathogen resistance and crop traits, and to accelerate breeding programs, we generated a framework map for M. esculenta Crantz from reduced representation sequencing [genotyping-by-sequencing (GBS)]. The composite 2412-cM map integrates 10 biparental maps (comprising 3480 meioses) and organizes 22,403 genetic markers on 18 chromosomes, in agreement with the observed karyotype. We used the map to anchor 71.9% of the draft genome assembly and 90.7% of the predicted protein-coding genes. The chromosome-anchored genome sequence will be useful for breeding improvement by assisting in the rapid identification of markers linked to important traits, and in providing a framework for genomic selection-enhanced breeding of this important crop.

  20. High-Resolution Linkage Map and Chromosome-Scale Genome Assembly for Cassava (Manihot esculenta Crantz) from 10 Populations

    PubMed Central

    2014-01-01

    Cassava (Manihot esculenta Crantz) is a major staple crop in Africa, Asia, and South America, and its starchy roots provide nourishment for 800 million people worldwide. Although native to South America, cassava was brought to Africa 400–500 years ago and is now widely cultivated across sub-Saharan Africa, but it is subject to biotic and abiotic stresses. To assist in the rapid identification of markers for pathogen resistance and crop traits, and to accelerate breeding programs, we generated a framework map for M. esculenta Crantz from reduced representation sequencing [genotyping-by-sequencing (GBS)]. The composite 2412-cM map integrates 10 biparental maps (comprising 3480 meioses) and organizes 22,403 genetic markers on 18 chromosomes, in agreement with the observed karyotype. We used the map to anchor 71.9% of the draft genome assembly and 90.7% of the predicted protein-coding genes. The chromosome-anchored genome sequence will be useful for breeding improvement by assisting in the rapid identification of markers linked to important traits, and in providing a framework for genomic selection-enhanced breeding of this important crop. PMID:25504737

  1. High-resolution AUV mapping and sampling of a deep hydrocarbon plume in the Gulf of Mexico

    NASA Astrophysics Data System (ADS)

    Ryan, J. P.; Zhang, Y.; Thomas, H.; Rienecker, E.; Nelson, R.; Cummings, S.

    2010-12-01

    During NOAA cruise GU-10-02 on the Ship Gordon Gunter, the Monterey Bay Aquarium Research Institute (MBARI) autonomous underwater vehicle (AUV) Dorado was deployed to map and sample a deep (900-1200 m) volume centered approximately seven nautical miles southwest of the Deepwater Horizon wellhead. Dorado was equipped to detect optical and chemical signals of hydrocarbons and to acquire targeted samples. The primary sensor reading used for hydrocarbon detection was colored dissolved organic matter (CDOM) fluorescence (CF). On June 2 and 3, ship cast and subsequent AUV surveys detected elevated CF in a layer between 1100 and 1200 m depth. While the deep volume was mapped in a series of parallel vertical sections, the AUV ran a peak-capture algorithm to target sample acquisition at layer signal peaks. Samples returned by ship CTD/CF rosette sampling and by AUV were preliminarily examined at sea, and they exhibited odor and fluorometric signal consistent with oil. More definitive and detailed results on these samples are forthcoming from shore-based laboratory analyses. During post-cruise analysis, all of the CF data were analyzed to objectively define and map the deep plume feature. Specifically, the maximum expected background CF over the depth range 1000-1200 m was extrapolated from a linear relationship between depth and maximum CF over the depth range 200 to 1000 m. Values exceeding the maximum expected background in the depth range 1000-1200 m were interpreted as signal from a hydrocarbon-enriched plume. Using this definition we examine relationships between CF and other AUV measurements within the plume, illustrate the three-dimensional structure of the plume boundary region that was mapped, describe small-scale layering on isopycnals, and examine short-term variations in plume depth, intensity and hydrographic relationships. Three-dimensional representation of part of a deep hydrocarbon plume mapped and sampled by AUV on June 2-3, 2010.

  2. High-Resolution fMRI Maps of Cortical Activation in Nonhuman Primates: Correlation with Intrinsic Signal Optical Images

    PubMed Central

    Roe, Anna W.; Chen, Li Min

    2009-01-01

    One of the most widely used functional brain mapping tools is blood oxygen level–dependent (BOLD) functional magnetic resonance imaging (fMRI). This method has contributed to new understandings of the functional roles of different areas in the human brain. However, its ability to map cerebral cortex at high spatial (submillimeter) resolution is still unknown. Other methods such as single- and multiunit electrophysiology and intrinsic signal optical imaging have revealed submillimeter resolution of sensory topography and cortical columnar activations. However, they are limited either by spatial scale (electrophysiology characterizes only local groups of neurons) or by the inability to monitor deep structures in the brain (i.e., cortical regions buried in sulci or subcortical structures). A method that could monitor all regions of the brain at high spatial resolution would be ideal. This capacity would open the doors to investigating, for example, how networks of cerebral cortical columns relate to or produce behavior. In this article we demonstrate that, without benefit of contrast agents, at a magnetic field strength of 9.4 tesla, BOLD fMRI can reveal millimeter-sized topographic maps of digit representation in the somatosensory cortex of the anesthetized squirrel monkey. Furthermore, by mapping the “funneling illusion,” it is possible to detect even submillimeter shifts in activation in the cortex. Our data suggest that at high magnetic field strength, the positive BOLD signal can be used to reveal high spatial resolution maps of brain activity, a finding that weakens previous notions about the ultimate spatial specificity of the positive BOLD signal. PMID:18172338

  3. Advances in Shallow-Water, High-Resolution Seafloor Mapping: Integrating an Autonomous Surface Vessel (ASV) Into Nearshore Geophysical Studies

    NASA Astrophysics Data System (ADS)

    Denny, J. F.; O'Brien, T. F.; Bergeron, E.; Twichell, D.; Worley, C. R.; Danforth, W. W.; Andrews, B. A.; Irwin, B.

    2006-12-01

    The U.S. Geological Survey (USGS) has been heavily involved in geological mapping of the seafloor since the 1970s. Early mapping efforts such as GLORIA provided broad-scale imagery of deep waters (depths > 400 meters) within the Exclusive Economic Zone (EEZ). In the early 1990's, the USGS research emphasis shifted from deep- to shallow-water environments (inner continental shelf, nearshore, estuaries) to address pertinent coastal issues such as erosion, sediment availability, sediment transport, vulnerability of coastal areas to natural and anthropogenic hazards, and resource management. Geologic framework mapping in these shallow- water environments has provided valuable data used to 1) define modern sediment distribution and thickness, 2) determine underlying stratigraphic and structural controls on shoreline behavior, and 3) enable onshore-to- offshore geologic mapping within the coastal zone when coupled with subaerial techniques such as GPR and topographic LIDAR. Research in nearshore areas presents technological challenges due to the dynamics of the environment, high volume of data collected, and the geophysical limitations of operating in very shallow water. In 2004, the USGS, in collaboration with NOAA's Coastal Services Center, began a multi-year seafloor mapping effort to better define oyster habitats within Apalachicola Bay, Florida, a shallow water estuary along the northern Gulf of Mexico. The bay poses a technological challenge due to its shallow depths (< 4-m) and high turbidity that prohibits the use of bathymetric LIDAR. To address this extreme shallow water setting, the USGS incorporated an Autonomous Surface Vessel (ASV) into seafloor mapping operations, in June 2006. The ASV is configured with a chirp sub-bottom profiler (4 24 kHz), dual-frequency chirp sidescan-sonar (100/500 kHz), single-beam echosounder (235 kHz), and forward-looking digital camera, and will be used to delineate the distribution and thickness of surficial sediment, presence

  4. Modeling Photo-Bleaching Kinetics to Create High Resolution Maps of Rod Rhodopsin in the Human Retina.

    PubMed

    Ehler, Martin; Dobrosotskaya, Julia; Cunningham, Denise; Wong, Wai T; Chew, Emily Y; Czaja, Wojtek; Bonner, Robert F

    2015-01-01

    We introduce and describe a novel non-invasive in-vivo method for mapping local rod rhodopsin distribution in the human retina over a 30-degree field. Our approach is based on analyzing the brightening of detected lipofuscin autofluorescence within small pixel clusters in registered imaging sequences taken with a commercial 488nm confocal scanning laser ophthalmoscope (cSLO) over a 1 minute period. We modeled the kinetics of rhodopsin bleaching by applying variational optimization techniques from applied mathematics. The physical model and the numerical analysis with its implementation are outlined in detail. This new technique enables the creation of spatial maps of the retinal rhodopsin and retinal pigment epithelium (RPE) bisretinoid distribution with an ≈ 50μm resolution. PMID:26196397

  5. Modeling Photo-Bleaching Kinetics to Create High Resolution Maps of Rod Rhodopsin in the Human Retina

    PubMed Central

    Ehler, Martin; Dobrosotskaya, Julia; Cunningham, Denise; Wong, Wai T.; Chew, Emily Y.; Czaja, Wojtek; Bonner, Robert F.

    2015-01-01

    We introduce and describe a novel non-invasive in-vivo method for mapping local rod rhodopsin distribution in the human retina over a 30-degree field. Our approach is based on analyzing the brightening of detected lipofuscin autofluorescence within small pixel clusters in registered imaging sequences taken with a commercial 488nm confocal scanning laser ophthalmoscope (cSLO) over a 1 minute period. We modeled the kinetics of rhodopsin bleaching by applying variational optimization techniques from applied mathematics. The physical model and the numerical analysis with its implementation are outlined in detail. This new technique enables the creation of spatial maps of the retinal rhodopsin and retinal pigment epithelium (RPE) bisretinoid distribution with an ≈ 50μm resolution. PMID:26196397

  6. High-resolution direct microstimulation mapping of spinal cord motor pathways during resection of an intramedullary tumor.

    PubMed

    Gandhi, Ravi; Curtis, Corinne M; Cohen-Gadol, Aaron A

    2015-02-01

    Despite the use of advanced microsurgical techniques, resection of intramedullary tumors may result in significant postoperative deficits because of the vicinity or invasion of important functional tracts. Intraoperative monitoring of somatosensory evoked potentials and transcranial electrical motor evoked potentials has been used previously to limit such complications. Electromyography offers an opportunity for the surgeon to map the eloquent tissue associated with the tumor using intraoperative motor fiber stimulation. Similar to the use of cortical simulation in the resection of supratentorial gliomas, this technique can potentially advance the safety of intramedullary spinal cord tumor resection. The authors describe the use of intraoperative motor fiber tract stimulation to map the corticospinal tracts associated with an intramedullary tumor. This technique led to protection of these tracts during resection of the tumor. PMID:25431960

  7. Degree scale high resolution mapping of CO J=2-1 and 3-2 in giant molecular clouds

    NASA Astrophysics Data System (ADS)

    Peters, W. L.; Bieging, J. H.; Groppi, C. E.; Kulesa, C. A.; Walker, C. K.; Hedden, A. S.; Puetz, P. S.

    We present the first results from a project to map selected Giant Molecular Clouds (GMCs) in several transitions of CO using the Heinrich Hertz Submillimeter Telescope (HHT) at the University of Arizona. We have observed the ^12CO J=2-1, ^13CO J=2-1, and ^12CO J=3-2 lines over several square degrees in the W3 and W51 GMC's at an angular resolution of 33 arcsec in the J=2-1 lines and 24 arcsec in the J=3-2 line. The maps are fully sampled spatially, using the "on the fly" mapping technique. The ^12CO J=3-2 observations were made with a new 7-beam array receiver, Desert Star, being commissioned on the HHT. These data complement and extend earlier studies of these GMC's mapped in other spectral lines such as the CO J=1-0 line. The higher CO transitions are better probes of the more energetic portions of GMC's than the CO J=1-0 lines. The higher angular resolution better reveals the structures associated with the portions of the clouds actively undergoing star formation. These data will be important to define the distribution of density and temperature using multi-line analysis tools such as Large Velocity Gradient and Monte Carlo codes. The W3 and W51 clouds are active GMC's in the Perseus and Sagittarius arms, respectively. They are each associated with giant H II regions and are currently forming OB stars in large numbers. We show examples of the influence of the H II region and the OB stars in these clouds.

  8. A high-resolution linkage map for the Z chromosome in chicken reveals hot spots for recombination.

    PubMed

    Wahlberg, P; Strömstedt, L; Tordoir, X; Foglio, M; Heath, S; Lechner, D; Hellström, A R; Tixier-Boichard, M; Lathrop, M; Gut, I G; Andersson, L

    2007-01-01

    A comprehensive linkage map for chicken chromosome Z was constructed as the result of a large-scale screening of single nucleotide polymorphisms (SNPs). A total of 308 SNPs were assigned to Z based on the genotype distribution among 182 birds representing several populations. A linkage map comprising 210 markers and spanning 200.9 cM was established by analyzing a small Red junglefowl/White Leghorn intercross. There was excellent agreement between the linkage map for Z and a recently released assembly of the chicken genome (May 2006). Almost all SNPs assigned to chromosome Z in the present study are on Z in the new genome assembly. The remaining 12 loci are all found on unassigned contigs that can now be assigned to Z. The average recombination rate was estimated at 2.7 cM/Mb but there was a very uneven distribution of recombination events with both cold and hot spots of recombination. The existence of one of the major hot spots of recombination, located around position 39.4 Mb, was supported by the observed pattern of linkage disequilibrium. Thirteen markers from unassigned contigs were shown to be located on chromosome W. Three of these contigs included genes that have homologues on chromosome Z. The preliminary assignment of three more genes to the gene-poor W chromosome may be important for studies on the mechanism of sex determination and dosage compensation in birds. PMID:17675841

  9. Development of New Accurate, High Resolution DEMs and Merged Topographic-Bathymetric Grids for Inundation Mapping in Seward Alaska

    NASA Astrophysics Data System (ADS)

    Marriott, D.; Suleimani, E.; Hansen, R.

    2004-05-01

    The Geophysical Institute of the University of Alaska Fairbanks and the Alaska Division of Geological and Geophysical Surveys continue to participate in the National Tsunami Hazard Mitigation Program by evaluating and mapping potential inundation of selected coastal communities in Alaska. Seward, the next Alaskan community to be mapped, has excellent bathymetric data but very poor topographic data available. Since one of the most significant sources of errors in tsunami inundation mapping is inaccuracy of topographic and bathymetric data, the Alaska Tsunami Modeling Team cooperated with the local USGS glaciology office to perform photogrammetry in the Seward area to produce a new DEM. Using ten air photos and the APEX photogrammetry and analysis software, along with several precisely located GPS points, we developed a new georeferenced and highly accurate DEM with a 5-meter grid spacing. A variety of techniques were used to remove the effects of buildings and trees to yield a bald earth model. Finally, we resampled the new DEM to match the finest resolution model grid, and combined it with all other data, using the most recent and accurate data in each region. The new dataset has contours that deviate by more than 100 meters in some places from the contours in the previous dataset, showing significant improvement in accuracy for the purpose of tsunami modeling.

  10. High-Resolution Mapping of Flows in the Solar Interior: Fully Consistent OLA Inversion of Helioseismic Travel Times

    NASA Astrophysics Data System (ADS)

    Jackiewicz, J.; Gizon, L.; Birch, A. C.

    2008-09-01

    To recover the flow information encoded in travel-time data of time distance helioseismology, accurate forward modeling and a robust inversion of the travel times are required. We accomplish this using three-dimensional finite-frequency travel-time sensitivity kernels for flows along with a (2+1)-dimensional (2+1D) optimally localized averaging (OLA) inversion scheme. Travel times are measured by ridge filtering MDI full-disk Doppler data and the corresponding Born sensitivity kernels are computed for these particular travel times. We also utilize the full noise-covariance properties of the travel times, which allow us to accurately estimate the errors for all inversions. The whole procedure is thus fully consistent. Because of ridge filtering, the kernel functions separate in the horizontal and vertical directions, motivating our choice of a 2+1D inversion implementation. The inversion procedure also minimizes cross-talk effects among the three flow components, and the averaging kernels resulting from the inversion show very small amounts of cross-talk. We obtain three-dimensional maps of vector solar flows in the quiet Sun at horizontal spatial resolutions of 7-10 Mm using generally 24 hours of data. For all of the flow maps we provide averaging kernels and the noise estimates. We present examples to test the inferred flows, such as a comparison with Doppler data, in which we find a correlation of 0.9. We also present results for quiet-Sun supergranular flows at different depths in the upper convection zone. Our estimation of the vertical velocity shows good qualitative agreement with the horizontal vector flows. We also show vertical flows measured solely from f-mode travel times. In addition, we demonstrate how to directly invert for the horizontal divergence and flow vorticity. Finally we study inferred flow-map correlations at different depths and find a rapid decrease in this correlation with depth, consistent with other recent local helioseismic analyses.

  11. High-resolution genetic mapping of the sucrose octaacetate taste aversion (Soa) locus on mouse Chromosome 6

    PubMed Central

    Bachmanov, Alexander A.; Li, Xia; Li, Shanru; Neira, Mauricio; Beauchamp, Gary K.; Azen, Edwin A.

    2013-01-01

    An acetylated sugar, sucrose octaacetate (SOA), tastes bitter to humans and has an aversive taste to at least some mice and other animals. In mice, taste aversion to SOA depends on allelic variation of a single locus, Soa. Three Soa alleles determine ‘taster’ (Soaa), ‘nontaster’ (Soab), and ‘demitaster’ (Soac) phenotypes of taste sensitivity to SOA. Although Soa has been mapped to distal Chromosome (Chr) 6, the limits of the Soa region have not been defined. In this study, mice from congenic strains SW.B6-Soab, B6.SW-Soaa, and C3.SW-Soaa/c and from an outbred CFW strain were genotyped with polymorphic markers on Chr 6. In the congenic strains, the limits of introgressed donor fragments were determined. In the outbred mice, linkage disequilibrium and haplotype analyses were conducted. Positions of the markers were further resolved by using radiation hybrid mapping. The results show that the Soa locus is contained in a ~1-cM (3.3–4.9 Mb) region including the Prp locus. PMID:11641717

  12. Genome-wide high-resolution mapping of UV-induced mitotic recombination events in Saccharomyces cerevisiae.

    PubMed

    Yin, Yi; Petes, Thomas D

    2013-10-01

    In the yeast Saccharomyces cerevisiae and most other eukaryotes, mitotic recombination is important for the repair of double-stranded DNA breaks (DSBs). Mitotic recombination between homologous chromosomes can result in loss of heterozygosity (LOH). In this study, LOH events induced by ultraviolet (UV) light are mapped throughout the genome to a resolution of about 1 kb using single-nucleotide polymorphism (SNP) microarrays. UV doses that have little effect on the viability of diploid cells stimulate crossovers more than 1000-fold in wild-type cells. In addition, UV stimulates recombination in G1-synchronized cells about 10-fold more efficiently than in G2-synchronized cells. Importantly, at high doses of UV, most conversion events reflect the repair of two sister chromatids that are broken at approximately the same position whereas at low doses, most conversion events reflect the repair of a single broken chromatid. Genome-wide mapping of about 380 unselected crossovers, break-induced replication (BIR) events, and gene conversions shows that UV-induced recombination events occur throughout the genome without pronounced hotspots, although the ribosomal RNA gene cluster has a significantly lower frequency of crossovers.

  13. High-Resolution Sex-Specific Linkage Maps of the Mouse Reveal Polarized Distribution of Crossovers in Male Germline

    PubMed Central

    Liu, Eric Yi; Morgan, Andrew P.; Chesler, Elissa J.; Wang, Wei; Churchill, Gary A.; Pardo-Manuel de Villena, Fernando

    2014-01-01

    Since the publication of the first comprehensive linkage map for the laboratory mouse, the architecture of recombination as a basic biological process has become amenable to investigation in mammalian model organisms. Here we take advantage of high-density genotyping and the unique pedigree structure of the incipient Collaborative Cross to investigate the roles of sex and genetic background in mammalian recombination. Our results confirm the observation that map length is longer when measured through female meiosis than through male meiosis, but we find that this difference is modified by genotype at loci on both the X chromosome and the autosomes. In addition, we report a striking concentration of crossovers in the distal ends of autosomes in male meiosis that is absent in female meiosis. The presence of this pattern in both single- and double-recombinant chromosomes, combined with the absence of a corresponding asymmetry in the distribution of double-strand breaks, indicates a regulated sequence of events specific to male meiosis that is anchored by chromosome ends. This pattern is consistent with the timing of chromosome pairing and evolutionary constraints on male recombination. Finally, we identify large regions of reduced crossover frequency that together encompass 5% of the genome. Many of these “cold regions” are enriched for segmental duplications, suggesting an inverse local correlation between recombination rate and mutation rate for large copy number variants. PMID:24578350

  14. High resolution spectroscopic mapping imaging applied in situ to multilayer structures for stratigraphic identification of painted art objects

    NASA Astrophysics Data System (ADS)

    Karagiannis, Georgios Th.

    2016-04-01

    The development of non-destructive techniques is a reality in the field of conservation science. These techniques are usually not so accurate, as the analytical micro-sampling techniques, however, the proper development of soft-computing techniques can improve their accuracy. In this work, we propose a real-time fast acquisition spectroscopic mapping imaging system that operates from the ultraviolet to mid infrared (UV/Vis/nIR/mIR) area of the electromagnetic spectrum and it is supported by a set of soft-computing methods to identify the materials that exist in a stratigraphic structure of paint layers. Particularly, the system acquires spectra in diffuse-reflectance mode, scanning in a Region-Of-Interest (ROI), and having wavelength range from 200 up to 5000 nm. Also, a fuzzy c-means clustering algorithm, i.e., the particular soft-computing algorithm, produces the mapping images. The evaluation of the method was tested on a byzantine painted icon.

  15. Experiment LEND of the NASA Lunar Reconnaissance Orbiter for high-resolution mapping of neutron emission of the Moon.

    PubMed

    Mitrofanov, I G; Sanin, A B; Golovin, D V; Litvak, M L; Konovalov, A A; Kozyrev, A S; Malakhov, A V; Mokrousov, M I; Tretyakov, V I; Troshin, V S; Uvarov, V N; Varenikov, A B; Vostrukhin, A A; Shevchenko, V V; Shvetsov, V N; Krylov, A R; Timoshenko, G N; Bobrovnitsky, Y I; Tomilina, T M; Grebennikov, A S; Kazakov, L L; Sagdeev, R Z; Milikh, G N; Bartels, A; Chin, G; Floyd, S; Garvin, J; Keller, J; McClanahan, T; Trombka, J; Boynton, W; Harshman, K; Starr, R; Evans, L

    2008-08-01

    The scientific objectives of neutron mapping of the Moon are presented as 3 investigation tasks of NASA's Lunar Reconnaissance Orbiter mission. Two tasks focus on mapping hydrogen content over the entire Moon and on testing the presence of water-ice deposits at the bottom of permanently shadowed craters at the lunar poles. The third task corresponds to the determination of neutron contribution to the total radiation dose at an altitude of 50 km above the Moon. We show that the Lunar Exploration Neutron Detector (LEND) will be capable of carrying out all 3 investigations. The design concept of LEND is presented together with results of numerical simulations of the instrument's sensitivity for hydrogen detection. The sensitivity of LEND is shown to be characterized by a hydrogen detection limit of about 100 ppm for a polar reference area with a radius of 5 km. If the presence of ice deposits in polar "cold traps" is confirmed, a unique record of many millions of years of lunar history would be obtained, by which the history of lunar impacts could be discerned from the layers of water ice and dust. Future applications of a LEND-type instrument for Mars orbital observations are also discussed. PMID:18844457

  16. Experiment LEND of the NASA Lunar Reconnaissance Orbiter for high-resolution mapping of neutron emission of the Moon.

    PubMed

    Mitrofanov, I G; Sanin, A B; Golovin, D V; Litvak, M L; Konovalov, A A; Kozyrev, A S; Malakhov, A V; Mokrousov, M I; Tretyakov, V I; Troshin, V S; Uvarov, V N; Varenikov, A B; Vostrukhin, A A; Shevchenko, V V; Shvetsov, V N; Krylov, A R; Timoshenko, G N; Bobrovnitsky, Y I; Tomilina, T M; Grebennikov, A S; Kazakov, L L; Sagdeev, R Z; Milikh, G N; Bartels, A; Chin, G; Floyd, S; Garvin, J; Keller, J; McClanahan, T; Trombka, J; Boynton, W; Harshman, K; Starr, R; Evans, L

    2008-08-01

    The scientific objectives of neutron mapping of the Moon are presented as 3 investigation tasks of NASA's Lunar Reconnaissance Orbiter mission. Two tasks focus on mapping hydrogen content over the entire Moon and on testing the presence of water-ice deposits at the bottom of permanently shadowed craters at the lunar poles. The third task corresponds to the determination of neutron contribution to the total radiation dose at an altitude of 50 km above the Moon. We show that the Lunar Exploration Neutron Detector (LEND) will be capable of carrying out all 3 investigations. The design concept of LEND is presented together with results of numerical simulations of the instrument's sensitivity for hydrogen detection. The sensitivity of LEND is shown to be characterized by a hydrogen detection limit of about 100 ppm for a polar reference area with a radius of 5 km. If the presence of ice deposits in polar "cold traps" is confirmed, a unique record of many millions of years of lunar history would be obtained, by which the history of lunar impacts could be discerned from the layers of water ice and dust. Future applications of a LEND-type instrument for Mars orbital observations are also discussed.

  17. Using high-resolution aeromagnetic data to recognise and map intra-sedimentary volcanic rocks and geological structures across the Cretaceous middle Benue Trough, Nigeria

    NASA Astrophysics Data System (ADS)

    Anudu, Goodluck K.; Stephenson, Randell A.; Macdonald, David I. M.

    2014-11-01

    Recently acquired high-resolution aeromagnetic data over the Cretaceous middle Benue Trough of Nigeria have been analysed employing various edge-enhancement (magnetic derivative) methods: vertical derivatives, total horizontal derivative, analytic signal, and total horizontal derivative of tilt derivative. The study was aimed at mapping intra-sedimentary volcanic rocks and their areal extents/distribution as well as delineating geological structures, their structural trends and tectonic implications. The magnetic derivative anomaly maps produced in this project greatly enhanced the high amplitude, short-wavelength (high wavenumber) anomalies associated with the surface/near-surface intra-sedimentary volcanic rocks and associated geological structures. The maps show that volcanic rocks of Late Cretaceous to Palaeocene age are much more widespread than implied by surface geological mapping, with an areal extent of greater than 12,000 km2 in the relatively shallow subsurface. The results also highlight some known and several previously unknown geological lineaments. Rose (azimuth-frequency) plots of orientations of geological structures show trends being predominantly NE-SW, NW-SE and ESE-WNW with minor ENE-WSW and N-S trends. These main groups of structural trends are associated with the Brasiliano/Pan-African orogeny (600 ± 200 Ma) and likely predate rifting of the Gondwana supercontinent. They may have been enhanced during continental break-up in Late Jurassic to Early Cretaceous.

  18. Urban land use/land cover mapping with high-resolution SAR imagery by integrating support vector machines into object-based analysis

    NASA Astrophysics Data System (ADS)

    Hu, Hongtao; Ban, Yifang

    2008-10-01

    This paper investigates the capability of high-resolution SAR data for urban landuse/land-cover mapping by integrating support vector machines (SVMs) into object-based analysis. Five-date RADARSAT fine-beam C-HH SAR images with a pixel spacing of 6.25 meter were acquired over the rural-urban fringe of the Great Toronto Area (GTA) during May to August in 2002. First, the SAR images were segmented using multi-resolution segmentation algorithm and two segmentation levels were created. Next, a range of spectral, shape and texture features were selected and calculated for all image objects on both levels. The objects on the lower level then inherited features of their super objects. In this way, the objects on the lower level received detailed descriptions about their neighbours and contexts. Finally, SVM classifiers were used to classify the image objects on the lower level based on the selected features. For training the SVM, sample image objects on the lower level were used. One-against-one approach was chosen to apply SVM to multiclass classification of SAR images in this research. The results show that the proposed method can achieve a high accuracy for the classification of high-resolution SAR images over urban areas.

  19. High-resolution nuclear microprobe elemental mapping of teeth enamel-dentine interface exposed to acidic conditions

    NASA Astrophysics Data System (ADS)

    Pineda-Vargas, C. A.; Eisa, M. E.; Chikte, U. M. E.; Conradie, J. L.

    2004-10-01

    The process of demineralisation in tooth erosion due to exposure to acidic media was investigated in a group of test and control healthy human molar teeth. Analysis by micro-PIXE and proton-backscattering showed that the levels of trace elements were enriched and/or depleted according to experimental treatment. The atomic ratios of major constituents in the matrix were characteristic of test or controls with typical ratios: O 5P 1Ca 3F 1 for tests and O 6P 0.5Ca 3F 0.5 for controls. The correlation between maps of Ca and Zn in and around the interface between dentine and enamel in control samples showed two kinds of correlation strengths (for enamel and dentine). The strongest correlation was related to the enamel area.

  20. High resolution digital mapping and geomorphological analysis of the 2010 Mount Meager rock-debris avalanche (BC, Canada).

    NASA Astrophysics Data System (ADS)

    Roberti, Gioachino; van Wyk de vries, Benjamin; Ward, Brent; Clague, John; Friele, Pierre; Perotti, Luigi; Giardino, Marco

    2016-04-01

    This study examines the large landslide that occurred at Mt. Meager, 200 km NNW of Vancouver, British Columbia, Canada, on August 6, 2010. We studied the source area and deposits to reconstruct the failure of the south flank of Mt. Meager from slow deformation to catastrophic collapse, the subsequent transformation into a debris avalanche, and the 11 km run-out. We use a Structure from Motion (SfM) photogrammetric approach and processed both historical British Columbia Provincial airphotos (1948, 1962, 1964-1965, 1973, 1981, 1990, and 2006) and digital images taken with a commercial camera during low-level helicopter traverses. The SfM products have been used to calculate volumes and the geometry of the south flank of Mt. Meager before and after the catastrophic failure, and to produce an orthophoto that we have used to map and describe the deposit. Oblique helicopter photos provide information on the scar geometry and rock units exposed by the failure. The SfM-derived orthophoto and ground observations allowed us to map deposit facies, lithologies, and structures, including thrust, normal, and strike-slip faults. We identified five sub-areas in the accumulation zone based on the association of facies and deformation structures. Based on our interpretation of the remotely sensed data and ground observations, we propose that the landslide had two main rheological phases: one richer in water and highly mobile, and another massive and water-poor. The water-rich phase spread quickly and superelevated high on valley walls as it moved down valley. It left a discontinuous veneer of debris, typically <1 m thick. The main, unsaturated mass moved more slowly and left a thicker (up to about 20 m) deposit with hummocks and brittle-ductile faults and shear zone in the distal part of the run-out zone.

  1. High-resolution mapping of soil moisture at the field scale using ground-penetrating radar for improving remote sensing data products

    NASA Astrophysics Data System (ADS)

    Lambot, Sébastien; Mahmoudzadeh, Mohammad Reza; Phuong Tran, Anh; Nottebaere, Martijn; Leonard, Aline; Defourny, Pierre; Neyt, Xavier

    2014-05-01

    Characterizing the spatiotemporal distribution of soil moisture at various scales is essential in agricultural, hydrological, meteorological, and climatological research and applications. Soil moisture determines the boundary condition between the soil and the atmosphere and governs key processes of the hydrological cycle such as infiltration, runoff, root water uptake, evaporation, as well as energy exchanges between the Earth's surface and the atmosphere. In that respect, ground-penetrating radar (GPR) is of particular interest for field-scale soil moisture mapping as soil moisture is highly correlated to its permittivity, which controls radar wave propagation in the soil. Yet, accurate determination of the electrical properties of a medium using GPR requires full-wave inverse modeling, which has remained a major challenge in applied geophysics for many years. We present a new near-field radar modeling approach for wave propagation in layered media. Radar antennas are modeled using an equivalent set of infinitesimal electric dipoles and characteristic, frequency-dependent, global reflection and transmission coefficients. These coefficients determine wave propagation between the radar reference plane, point sources, and field points. The interactions between the antenna and the soil are inherently accounted for. The fields are calculated using three-dimensional Green's functions. We validated the model using both time and frequency domain radars. The radars were mounted on a quad and controlled by a computer for real-time radar and dGPS data acquisition. Several fields were investigated and time-lapse measurements were performed on some of them to analyze temporal stability in soil moisture patterns and the repeatability of the measurements. The results were compared to ground-truths. The proposed technique is presently being applied to improve space-borne remote sensing data products for soil moisture by providing high-resolution observational information that

  2. High-Resolution Mapping of Homologous Recombination Events in rad3 Hyper-Recombination Mutants in Yeast

    PubMed Central

    Dominska, Margaret; Moriel-Carretero, María; Herrera-Moyano, Emilia; Aguilera, Andrés; Petes, Thomas D.

    2016-01-01

    The Saccharomyces cerevisae RAD3 gene is the homolog of human XPD, an essential gene encoding a DNA helicase of the TFIIH complex involved in both nucleotide excision repair (NER) and transcription. Some mutant alleles of RAD3 (rad3-101 and rad3-102) have partial defects in DNA repair and a strong hyper-recombination (hyper-Rec) phenotype. Previous studies showed that the hyper-Rec phenotype associated with rad3-101 and rad3-102 can be explained as a consequence of persistent single-stranded DNA gaps that are converted to recombinogenic double-strand breaks (DSBs) by replication. The systems previously used to characterize the hyper-Rec phenotype of rad3 strains do not detect the reciprocal products of mitotic recombination. We have further characterized these events using a system in which the reciprocal products of mitotic recombination are recovered. Both rad3-101 and rad3-102 elevate the frequency of reciprocal crossovers about 100-fold. Mapping of these events shows that three-quarters of these crossovers reflect DSBs formed at the same positions in both sister chromatids (double sister-chromatid breaks, DSCBs). The remainder reflects DSBs formed in single chromatids (single chromatid breaks, SCBs). The ratio of DSCBs to SCBs is similar to that observed for spontaneous recombination events in wild-type cells. We mapped 216 unselected genomic alterations throughout the genome including crossovers, gene conversions, deletions, and duplications. We found a significant association between the location of these recombination events and regions with elevated gamma-H2AX. In addition, there was a hotspot for deletions and duplications at the IMA2 and HXT11 genes near the left end of chromosome XV. A comparison of these data with our previous analysis of spontaneous mitotic recombination events suggests that a sub-set of spontaneous events in wild-type cells may be initiated by incomplete NER reactions, and that DSCBs, which cannot be repaired by sister

  3. High-resolution mapping of sources contributing to urban air pollution using adjoint sensitivity analysis: benzene and diesel black carbon.

    PubMed

    Bastien, Lucas A J; McDonald, Brian C; Brown, Nancy J; Harley, Robert A

    2015-06-16

    The adjoint of the Community Multiscale Air Quality (CMAQ) model at 1 km horizontal resolution is used to map emissions that contribute to ambient concentrations of benzene and diesel black carbon (BC) in the San Francisco Bay area. Model responses of interest include population-weighted average concentrations for three highly polluted receptor areas and the entire air basin. We consider both summer (July) and winter (December) conditions. We introduce a novel approach to evaluate adjoint sensitivity calculations that complements existing methods. Adjoint sensitivities to emissions are found to be accurate to within a few percent, except at some locations associated with large sensitivities to emissions. Sensitivity of model responses to emissions is larger in winter, reflecting weaker atmospheric transport and mixing. The contribution of sources located within each receptor area to the same receptor's air pollution burden increases from 38-74% in summer to 56-85% in winter. The contribution of local sources is higher for diesel BC (62-85%) than for benzene (38-71%), reflecting the difference in these pollutants' atmospheric lifetimes. Morning (6-9am) and afternoon (4-7 pm) commuting-related emissions dominate region-wide benzene levels in winter (14 and 25% of the total response, respectively). In contrast, afternoon rush hour emissions do not contribute significantly in summer. Similar morning and afternoon peaks in sensitivity to emissions are observed for the BC response; these peaks are shifted toward midday because most diesel truck traffic occurs during off-peak hours. PMID:26001097

  4. High-resolution mapping of sources contributing to urban air pollution using adjoint sensitivity analysis: benzene and diesel black carbon.

    PubMed

    Bastien, Lucas A J; McDonald, Brian C; Brown, Nancy J; Harley, Robert A

    2015-06-16

    The adjoint of the Community Multiscale Air Quality (CMAQ) model at 1 km horizontal resolution is used to map emissions that contribute to ambient concentrations of benzene and diesel black carbon (BC) in the San Francisco Bay area. Model responses of interest include population-weighted average concentrations for three highly polluted receptor areas and the entire air basin. We consider both summer (July) and winter (December) conditions. We introduce a novel approach to evaluate adjoint sensitivity calculations that complements existing methods. Adjoint sensitivities to emissions are found to be accurate to within a few percent, except at some locations associated with large sensitivities to emissions. Sensitivity of model responses to emissions is larger in winter, reflecting weaker atmospheric transport and mixing. The contribution of sources located within each receptor area to the same receptor's air pollution burden increases from 38-74% in summer to 56-85% in winter. The contribution of local sources is higher for diesel BC (62-85%) than for benzene (38-71%), reflecting the difference in these pollutants' atmospheric lifetimes. Morning (6-9am) and afternoon (4-7 pm) commuting-related emissions dominate region-wide benzene levels in winter (14 and 25% of the total response, respectively). In contrast, afternoon rush hour emissions do not contribute significantly in summer. Similar morning and afternoon peaks in sensitivity to emissions are observed for the BC response; these peaks are shifted toward midday because most diesel truck traffic occurs during off-peak hours.

  5. High-resolution Rayleigh-wave velocity maps of central Europe from a dense ambient-noise data set

    NASA Astrophysics Data System (ADS)

    Verbeke, J.; Boschi, L.; Stehly, L.; Kissling, E.; Michelini, A.

    2012-03-01

    We present a new database of surface wave group and phase-velocity dispersion curves derived from seismic ambient noise, cross-correlating continuous seismic recordings from the Swiss Network, the German Regional Seismological Network (GRSN), the Italian national broad-band network operated by the Istituto Nazionale di Geosica e Vulcanologia (INGV). To increase the aperture of the station array, additional measurements from the Mediterranean Very Broad-band Seismographic Network (MedNet), the Austrian Central Institute for Meteorology and Geodynamics (ZAMG), the French, Bulgarian, Hungarian, Romanian and Greek stations obtained through Orfeus are also included. The ambient noise, we are using to assemble our database, was recorded at the above-mentioned stations between 2006 January and 2006 December. Correlating continuous signal recorded at pairs of stations, allows to extract coherent surface wave signal travelling between the two stations. Usually the ambient-noise cross-correlation technique allows to have informations at periods of 30 s or shorter. By expanding the database of noise correlations, we seek to increase the resolution of the central Europe crustal model. We invert the resulting data sets of group and phase velocities associated with 8-35 s Rayleigh waves, to determine 2-D group and phase-velocity maps of the European region. Inversions are conducted by means of a 2-D linearized tomographic inversion algorithm. The generally good agreement of our models with previous studies and good correlation of well-resolved velocity anomalies with geological features, such as sedimentary basins, crustal roots and mountain ranges, documents the effectiveness of our approach.

  6. Surface circulation in the Iroise Sea (western Brittany) derived from high resolution current mapping by HF radars

    NASA Astrophysics Data System (ADS)

    Sentchev, Alexei; Forget, Philippe; Barbin, Yves; Marié, Louis; Ardhuin, Fabrice

    2010-05-01

    The use of high frequency radar (HFR) systems for near-real-time coastal ocean monitoring necessities that short time scale motions of the radar-derived velocities are better understood. While the ocean radar systems are able to describe coastal flow patterns with unprecedented details, the data they produce are often too sparse or gappy for applications such as the identification of coherent structures and fronts or understanding transport and mixing processes. In this study, we address two challenges. First, we report results from the HF radar system (WERA) which is routinely operating since 2006 on the western Brittany coast to monitor surface circulation in the Iroise Sea, over an area extending up to 100 km offshore. To obtain more reliable records of vector current fields at high space and time resolution, the Multiple Signal Classification (MUSIC) direction finding algorithm is employed in conjunction with the variational interpolation (2dVar) of radar-derived velocities. This provides surface current maps at 1 km spacing and time resolution of 20 min. Removing the influence of the sea state on radar-derived current measurements is discussed and performed on some data sequences. Second, we examine in deep continuous 2d velocity records for a number of periods, exploring the different modes of variability of surface currents in the region. Given the extent, duration, and resolution of surface current velocity measurements, new quantitative insights from various time series and spatial analysis on higher frequency kinematics will be discussed. By better characterizing the full spectrum of flow regimes that contribute to the surface currents and their shears, a more complete picture of the circulation in the Iroise Sea can be obtained.

  7. ST-segment changes in high-resolution body surface potential maps measured during exercise to assess myocardial ischemia: a pilot study

    PubMed Central

    Zaczek, Rajmund; Zavala-Fernandez, Heriberto; Janusek, Dariusz; Kobylecka, Małgorzata; Królicki, Leszek; Opolski, Grzegorz; Maniewski, Roman

    2014-01-01

    Introduction The aim of the study was to assess myocardial ischemia by analysis of ST-segment changes in high-resolution body surface potential maps (HR-BSPM) measured at rest and during an exercise stress test. Material and methods The study was carried out on a group of 28 patients with stable coronary artery disease and 15 healthy volunteers. The HR-BSPM were measured at rest and during the exercise stress test on a supine ergometer. The workload was increased in stages by 25 W every 2 min, beginning at 50 W. The maps of ST-segment depression (ST60) were calculated from time averaged recordings at rest and at maximal workload. Results The efficiency in detection of myocardial ischemia was higher for HR-BSPM than for standard 12-lead electrocardiography (ECG) when both methods were evaluated by outcomes of coronarography. The sensitivity of HR-BSPM was 82.4% while for the standard 12-lead ECG exercise stress test it was 58.8%. For some patients significant changes in the ST segment were observed at stress HR-BSPM but were not visible in standard 12-lead ECG recorded under the same conditions. Conclusions Obtained high values of sensitivity and specificity in myocardial ischemia detection suggest that maps of ST60 calculated from HR-BSPM can improve detection of patients with ischemic heart disease in comparison to the standard electrocardiographic exercise stress test examinations. PMID:25624843

  8. Mapping the distribution of mangrove species in the Core Zone of Mai Po Marshes Nature Reserve, Hong Kong, using hyperspectral data and high-resolution data

    NASA Astrophysics Data System (ADS)

    Jia, Mingming; Zhang, Yuanzhi; Wang, Zongming; Song, Kaishan; Ren, Chunying

    2014-12-01

    Mangrove species compositions and distributions are essential for conservation and restoration efforts. In this study, hyperspectral data of EO-1 HYPERION sensor and high spatial resolution data of SPOT-5 sensor were used in Mai Po mangrove species mapping. Objected-oriented method was used in mangrove species classification processing. Firstly, mangrove objects were obtained via segmenting high spatial resolution data of SPOT-5. Then the objects were classified into different mangrove species based on the spectral differences of HYPERION image. The classification result showed that in the top canopy, Kandelia obovata and Avicennia marina dominated Mai Po Marshes Natural Reserve, with area of 196.8 ha and 110.8 ha, respectively, Acanthus ilicifolius and Aegiceras corniculatum were mixed together and living at the edge of channels with an area of 11.7 ha. Additionally, mangrove species shows clearly zonations and associations in the Mai Po Core Zone. The overall accuracy of our mangrove map was 88% and the Kappa confidence was 0.83, which indicated great potential of using hyperspectral and high-resolution data for distinguishing and mapping mangrove species.

  9. High-resolution fluorescence mapping of impurities in historical zinc oxide pigments: hard X-ray nanoprobe applications to the paints of Pablo Picasso

    NASA Astrophysics Data System (ADS)

    Casadio, Francesca; Rose, Volker

    2013-04-01

    Here for the first time we describe the use of high resolution nanoprobe X-ray fluorescence (XRF) mapping for the analysis of artists' paints, hierarchically complex materials typically composed of binder, pigments, fillers, and other additives. The work undertaken at the nanoprobe sought to obtain highly spatially resolved, highly sensitive mapping of metal impurities (Pb, Cd, Fe, and other metals) in submicron particles of zinc oxide pigments used in early 20th century artists' tube paints and enamel paints, with particular emphasis on Ripolin, a popular brand of French house paint used extensively by Pablo Picasso and some of his contemporaries. Analysis revealed that the Zn oxide particles only contain a little Fe, proving that the highest quality Zn oxide pigment, free of Pb and Cd, was used for Ripolin house paints as well as artists' paints. Nanoprobe XRF mapping also demonstrated that artists' tube paints generally have more abundant fillers and additional whites (based on Pb, Ti, Ca) than Ripolin paints, which contain mostly pure zinc oxide. The chemical characterization of paints at the nanoscale opens the path to a better understanding of their fabrication and chemical reactivity.

  10. Variability of Antarctic ozone loss in the last decade (2004-2013): high resolution simulations compared to Aura MLS observations

    NASA Astrophysics Data System (ADS)

    Kuttippurath, J.; Godin-Beekmann, S.; Lefèvre, F.; Santee, M. L.; Froidevaux, L.; Hauchecorne, A.

    2014-11-01

    A detailed analysis of the polar ozone loss processes during ten recent Antarctic winters is presented with high resolution Mimosa-Chim model simulations and high frequency polar vortex observations from the Aura Microwave Limb Sounder (MLS) instrument. Our model results for the Antarctic winters 2004-2013 show that chemical ozone loss starts in the edge region of the vortex at equivalent latitudes (EqLs) of 65-69° S in mid-June/July. The loss progresses with time at higher EqLs and intensifies during August-September over the range 400-600 K. The loss peaks in late September/early October, where all EqLs (65-83°) show similar loss and the maximum loss (>2 ppmv [parts per million by volume]) is found over a broad vertical range of 475-550 K. In the lower stratosphere, most winters show similar ozone loss and production rates. In general, at 500 K, the loss rates are about 2-3 ppbv sh-1 (parts per billion by volume/sunlit hour) in July and 4-5 ppbv sh-1 in August/mid-September, while they drop rapidly to zero by late September. In the middle stratosphere, the loss rates are about 3-5 ppbv sh-1 in July-August and October at 675 K. It is found that the Antarctic ozone hole (June-September) is controlled by the halogen cycles at about 90-95% (ClO-ClO, BrO-ClO, and ClO-O) and the loss above 700 K is dominated by the NOx cycle at about 70-75%. On average, the Mimosa-Chim simulations show that the very cold winters of 2005 and 2006 exhibit a maximum loss of ~3.5 ppmv around 550 K or about 149-173 DU over 350-850 K and the warmer winters of 2004, 2010, and 2012 show a loss of ~2.6 ppmv around 475-500 K or 131-154 DU over 350-850 K. The winters of 2007, 2008, and 2011 were moderately cold and thus both ozone loss and peak loss altitudes are between these two ranges (3 ppmv around 500 K or 150 ± 10 DU). The modeled ozone loss values are in reasonably good agreement with those estimated from Aura MLS measurements, but the model underestimates the observed ClO, largely due

  11. Detection of Growth-Related Quantitative Trait Loci and High-Resolution Genetic Linkage Maps Using Simple Sequence Repeat Markers in the Kelp Grouper (Epinephelus bruneus).

    PubMed

    Kessuwan, Kanonkporn; Kubota, Satoshi; Liu, Qi; Sano, Motohiko; Okamoto, Nobuaki; Sakamoto, Takashi; Yamashita, Hirofumi; Nakamura, Yoji; Ozaki, Akiyuki

    2016-02-01

    To initiate breeding programs for kelp grouper (Epinephelus bruneus), the establishment of genetic linkage maps becomes essential accompanied by the search for quantitative trait loci that may be utilized in selection programs. We constructed a high-resolution genetic linkage map using 1055 simple sequence repeat (SSR) markers in an F1 family. Genome-wide and chromosome-wide significances of growth-related quantitative trait loci (QTLs) (body weight (BW) and total length (TL)) were detected using non-parametric mapping, Kruskal-Wallis (K-W) analysis, simple interval mapping (IM) and a permutation test (PT). Two stages and two families of fish were used to confirm the QTL regions. Ultimately, 714 SSR markers were matched that evenly covered the 24 linkage groups. In total, 509 and 512 markers were localized to the female and male maps, respectively. The genome lengths were approximately 1475.95 and 1370.39 cM and covered 84.68 and 83.21% of the genome, with an average interval of 4.1 and 4.0 cM, in females and males, respectively. One major QTL affecting BW and TL was found on linkage group EBR 17F that identified for 1% of the genome-wide significance and accounted for 14.6-18.9 and 14.7-18.5% of the phenotypic variance, and several putative QTL with 5% chromosome-wide significance were detected on eight linkage groups. Furthermore, the confirmed results of the regions harboring the major and putative QTLs showed consistent significant experiment-wide values of 1 and 5% as well as a chromosome-wide value of 5%. We identified growth-related QTLs that could be applied to find candidate genes for growth traits in further studies, and potentially useful in MAS breeding. PMID:26511529

  12. Detection of Growth-Related Quantitative Trait Loci and High-Resolution Genetic Linkage Maps Using Simple Sequence Repeat Markers in the Kelp Grouper (Epinephelus bruneus).

    PubMed

    Kessuwan, Kanonkporn; Kubota, Satoshi; Liu, Qi; Sano, Motohiko; Okamoto, Nobuaki; Sakamoto, Takashi; Yamashita, Hirofumi; Nakamura, Yoji; Ozaki, Akiyuki

    2016-02-01

    To initiate breeding programs for kelp grouper (Epinephelus bruneus), the establishment of genetic linkage maps becomes essential accompanied by the search for quantitative trait loci that may be utilized in selection programs. We constructed a high-resolution genetic linkage map using 1055 simple sequence repeat (SSR) markers in an F1 family. Genome-wide and chromosome-wide significances of growth-related quantitative trait loci (QTLs) (body weight (BW) and total length (TL)) were detected using non-parametric mapping, Kruskal-Wallis (K-W) analysis, simple interval mapping (IM) and a permutation test (PT). Two stages and two families of fish were used to confirm the QTL regions. Ultimately, 714 SSR markers were matched that evenly covered the 24 linkage groups. In total, 509 and 512 markers were localized to the female and male maps, respectively. The genome lengths were approximately 1475.95 and 1370.39 cM and covered 84.68 and 83.21% of the genome, with an average interval of 4.1 and 4.0 cM, in females and males, respectively. One major QTL affecting BW and TL was found on linkage group EBR 17F that identified for 1% of the genome-wide significance and accounted for 14.6-18.9 and 14.7-18.5% of the phenotypic variance, and several putative QTL with 5% chromosome-wide significance were detected on eight linkage groups. Furthermore, the confirmed results of the regions harboring the major and putative QTLs showed consistent significant experiment-wide values of 1 and 5% as well as a chromosome-wide value of 5%. We identified growth-related QTLs that could be applied to find candidate genes for growth traits in further studies, and potentially useful in MAS breeding.

  13. Mapping in vitro local material properties of intact and disrupted virions at high resolution using multi-harmonic atomic force microscopy

    NASA Astrophysics Data System (ADS)

    Cartagena, Alexander; Hernando-Pérez, Mercedes; Carrascosa, José L.; de Pablo, Pedro J.; Raman, Arvind

    2013-05-01

    Understanding the relationships between viral material properties (stiffness, strength, charge density, adhesion, hydration, viscosity, etc.), structure (protein sub-units, genome, surface receptors, appendages), and functions (self-assembly, stability, disassembly, infection) is of significant importance in physical virology and nanomedicine. Conventional Atomic Force Microscopy (AFM) methods have measured a single physical property such as the stiffness of the entire virus from nano-indentation at a few points which severely limits the study of structure-property-function relationships. We present an in vitro dynamic AFM technique operating in the intermittent contact regime which synthesizes anharmonic Lorentz-force excited AFM cantilevers to map quantitatively at nanometer resolution the local electro-mechanical force gradient, adhesion, and hydration layer viscosity within individual φ29 virions. Furthermore, the changes in material properties over the entire φ29 virion provoked by the local disruption of its shell are studied, providing evidence of bacteriophage depressurization. The technique significantly generalizes recent multi-harmonic theory (A. Raman, et al., Nat. Nanotechnol., 2011, 6, 809-814) and enables high-resolution in vitro quantitative mapping of multiple material properties within weakly bonded viruses and nanoparticles with complex structure that otherwise cannot be observed using standard AFM techniques.Understanding the relationships between viral material properties (stiffness, strength, charge density, adhesion, hydration, viscosity, etc.), structure (protein sub-units, genome, surface receptors, appendages), and functions (self-assembly, stability, disassembly, infection) is of significant importance in physical virology and nanomedicine. Conventional Atomic Force Microscopy (AFM) methods have measured a single physical property such as the stiffness of the entire virus from nano-indentation at a few points which severely limits the

  14. Palaeoclimatic significance of Phosphorus variability in Tropical and SubTropical speleothems revealed by high-resolution synchrotron micro XRF mapping

    NASA Astrophysics Data System (ADS)

    Frisia, S.; Borsato, A.; Drysdale, R.; Paul, B.; Cotte, M.; Greig, A