WorldWideScience

Sample records for breed mapping approach

  1. Localization of Canine Brachycephaly Using an Across Breed Mapping Approach

    OpenAIRE

    Bannasch, Danika; Young, Amy; Myers, Jeffrey; Truvé, Katarina; Dickinson, Peter; Gregg, Jeffrey; Davis, Ryan; Bongcam-Rudloff, Eric; Webster, Matthew T.; Lindblad-Toh, Kerstin; Pedersen, Niels

    2010-01-01

    The domestic dog, Canis familiaris, exhibits profound phenotypic diversity and is an ideal model organism for the genetic dissection of simple and complex traits. However, some of the most interesting phenotypes are fixed in particular breeds and are therefore less tractable to genetic analysis using classical segregation-based mapping approaches. We implemented an across breed mapping approach using a moderately dense SNP array, a low number of animals and breeds carefully selected for the p...

  2. Localization of canine brachycephaly using an across breed mapping approach.

    Directory of Open Access Journals (Sweden)

    Danika Bannasch

    Full Text Available The domestic dog, Canis familiaris, exhibits profound phenotypic diversity and is an ideal model organism for the genetic dissection of simple and complex traits. However, some of the most interesting phenotypes are fixed in particular breeds and are therefore less tractable to genetic analysis using classical segregation-based mapping approaches. We implemented an across breed mapping approach using a moderately dense SNP array, a low number of animals and breeds carefully selected for the phenotypes of interest to identify genetic variants responsible for breed-defining characteristics. Using a modest number of affected (10-30 and control (20-60 samples from multiple breeds, the correct chromosomal assignment was identified in a proof of concept experiment using three previously defined loci; hyperuricosuria, white spotting and chondrodysplasia. Genome-wide association was performed in a similar manner for one of the most striking morphological traits in dogs: brachycephalic head type. Although candidate gene approaches based on comparable phenotypes in mice and humans have been utilized for this trait, the causative gene has remained elusive using this method. Samples from nine affected breeds and thirteen control breeds identified strong genome-wide associations for brachycephalic head type on Cfa 1. Two independent datasets identified the same genomic region. Levels of relative heterozygosity in the associated region indicate that it has been subjected to a selective sweep, consistent with it being a breed defining morphological characteristic. Genotyping additional dogs in the region confirmed the association. To date, the genetic structure of dog breeds has primarily been exploited for genome wide association for segregating traits. These results demonstrate that non-segregating traits under strong selection are equally tractable to genetic analysis using small sample numbers.

  3. Breeding of ozone resistant rice: Relevance, approaches and challenges

    International Nuclear Information System (INIS)

    Tropospheric ozone concentrations have been rising across Asia, and will continue to rise during the 21st century. Ozone affects rice yields through reductions in spikelet number, spikelet fertility, and grain size. Moreover, ozone leads to changes in rice grain and straw quality. Therefore the breeding of ozone tolerant rice varieties is warranted. The mapping of quantitative trait loci (QTL) using bi-parental populations identified several tolerance QTL mitigating symptom formation, grain yield losses, or the degradation of straw quality. A genome-wide association study (GWAS) demonstrated substantial natural genotypic variation in ozone tolerance in rice, and revealed that the genetic architecture of ozone tolerance in rice is dominated by multiple medium and small effect loci. Transgenic approaches targeting tolerance mechanisms such as antioxidant capacity are also discussed. It is concluded that the breeding of ozone tolerant rice can contribute substantially to the global food security, and is feasible using different breeding approaches. - Highlights: • Tropospheric ozone affects millions of hectares of rice land. • Ozone affects rice yield and quality. • Breeding approaches to adapt rice to high ozone are discussed. • Challenges in the breeding of ozone resistant rice are discussed. - This review summarizes the effects of tropospheric ozone on rice and outlines approaches and challenges in the breeding of adapted varieties

  4. Construction of dense linkage maps "on the fly" using early generation wheat breeding populations

    Science.gov (United States)

    In plant species, construction of framework linkage maps to facilitate quantitative trait loci mapping and molecular breeding has been confined to experimental mapping populations. However, development and evaluation of these populations is detached from breeding efforts for cultivar development. In...

  5. Validating selective breeding approaches for disease resistance

    Science.gov (United States)

    Selective breeding of rainbow trout at the USDA/ARS National Center for Cool and Cold Water Aquaculture (NCCCWA) in Leetown, West Virginia is designed to accomplish four goals: 1) define commercially important traits such as disease resistance, growth rate, stress response, and feed efficiency; 2) d...

  6. Biotechnological approach in crop improvement by mutation breeding in Indonesia

    International Nuclear Information System (INIS)

    Mutation breeding has become a proven method of improving crop varieties. Most research on plant mutation breeding in Indonesia is carried out at the Center for Research and Development of Isotope and Radiation Technology, National Nuclear Energy Agency (BATAN). Nowadays, a biotechnological approach has been incorporated in some mutation breeding researches in order to improve crop cultivars. This approach is simply based on cellular totipotency, or the ability to regenerate whole, flowering plants from isolated organs, pieces of tissue, individual cells, and protoplasts. Tissue culture technique has bee extensively used for micro propagation of disease-free plants. Other usage of this technique involves in various steps of the breeding process such as germplasm preservation, clonal propagation, and distant hybridization. Mutation breeding combined with tissue culture technique has made a significant contribution in inducing plant genetic variation, by improving selection technology, and by accelerating breeding time as for that by using anther or pollen culture. In Indonesia, research on mutation breeding combined with tissue culture techniques has been practiced in different crop species including rice, ginger, banana, sorghum etc. Specially in rice, a research on identification of DNA markers linked to blast disease resistance is now still progressing. A compiled report from some research activities is presented in this paper. (author)

  7. Mapping of mosquito breeding sites in malaria endemic areas in Pos Lenjang, Kuala Lipis, Pahang, Malaysia

    Directory of Open Access Journals (Sweden)

    Ahmad Rohani

    2011-12-01

    Full Text Available Abstract Background The application of the Geographic Information Systems (GIS to the study of vector transmitted diseases considerably improves the management of the information obtained from the field survey and facilitates the study of the distribution patterns of the vector species. Methods As part of a study to assess remote sensing data as a tool for vector mapping, geographical features like rivers, small streams, forest, roads and residential area were digitized from the satellite images and overlaid with entomological data. Map of larval breeding habitats distribution and map of malaria transmission risk area were developed using a combination of field data, satellite image analysis and GIS technique. All digital data in the GIS were displayed in the WGS 1984 coordinate system. Six occasions of larval surveillance were also conducted to determine the species of mosquitoes, their characteristics and the abundance of habitats. Results Larval survey studies showed that anopheline and culicine larvae were collected and mapped from 79 and 67 breeding sites respectively. Breeding habitats were located at 100-400 m from human settlement. Map of villages with 400 m buffer zone visualizes that more than 80% of Anopheles maculatus s.s. immature habitats were found within the buffer zone. Conclusions This study amplifies the need for a broadening of the GIS approach which is emphasized with the aim of rejuvenating the dynamic aspect of entomological studies in Malaysia. In fact, the use of such basic GIS platforms promote a more rational basis for strategic planning and management in the control of endemic diseases at the national level.

  8. Targeted Proteomics Approach for Precision Plant Breeding.

    Science.gov (United States)

    Chawade, Aakash; Alexandersson, Erik; Bengtsson, Therese; Andreasson, Erik; Levander, Fredrik

    2016-02-01

    Selected reaction monitoring (SRM) is a targeted mass spectrometry technique that enables precise quantitation of hundreds of peptides in a single run. This technique provides new opportunities for multiplexed protein biomarker measurements. For precision plant breeding, DNA-based markers have been used extensively, but the potential of protein biomarkers has not been exploited. In this work, we developed an SRM marker panel with assays for 104 potato (Solanum tuberosum) peptides selected using univariate and multivariate statistics. Thereafter, using random forest classification, the prediction markers were identified for Phytopthora infestans resistance in leaves, P. infestans resistance in tubers, and plant yield in potato leaf secretome samples. The results suggest that the marker panel has the predictive potential for three traits, two of which have no commercial DNA markers so far. Furthermore, the marker panel was also tested and found to be applicable to potato clones not used during the marker development. The proposed workflow is thus a proof-of-concept for targeted proteomics as an efficient readout in accelerated breeding for complex and agronomically important traits. PMID:26704985

  9. Characterization and mapping of QTL used in breeding of Scots pine (Pinus sylvestris L.)

    OpenAIRE

    Nowicka, Aleksandra; Ukalska, Joanna; Simińska, Joanna; Szyp-Borowska, Iwona

    2013-01-01

    This paper reports the construction a map based on Amplified Fragment Length Polymorphic DNA (AFLP) in Scots pine (Pinus sylvestris L.). The main purpose of map construction was its application to quantitative traits loci (QTL) mapping for breeding traits economically important in Scots pine breeding program such as tree height and diameter at breast height, number of needles and their length, width, and area. Genomic DNA of needles and haploid megagamethophytes from seeds originating from a ...

  10. Genome-wide Association Mapping of Fusarium Head Blight Resistance in Contemporary Barley Breeding Germplasm

    Science.gov (United States)

    Utilization of quantitative trait loci (QTL) identified in bi-parental mapping populations has had limited success for complex quantitative traits. The use of association mapping in contemporary breeding germplasm may lead to more effective marker strategies for crop improvement. To map Fusarium he...

  11. Integrated genomics, physiology and breeding approaches for improving drought tolerance in crops.

    Science.gov (United States)

    Mir, Reyazul Rouf; Zaman-Allah, Mainassara; Sreenivasulu, Nese; Trethowan, Richard; Varshney, Rajeev K

    2012-08-01

    Drought is one of the most serious production constraint for world agriculture and is projected to worsen with anticipated climate change. Inter-disciplinary scientists have been trying to understand and dissect the mechanisms of plant tolerance to drought stress using a variety of approaches; however, success has been limited. Modern genomics and genetic approaches coupled with advances in precise phenotyping and breeding methodologies are expected to more effectively unravel the genes and metabolic pathways that confer drought tolerance in crops. This article discusses the most recent advances in plant physiology for precision phenotyping of drought response, a vital step before implementing the genetic and molecular-physiological strategies to unravel the complex multilayered drought tolerance mechanism and further exploration using molecular breeding approaches for crop improvement. Emphasis has been given to molecular dissection of drought tolerance by QTL or gene discovery through linkage and association mapping, QTL cloning, candidate gene identification, transcriptomics and functional genomics. Molecular breeding approaches such as marker-assisted backcrossing, marker-assisted recurrent selection and genome-wide selection have been suggested to be integrated in crop improvement strategies to develop drought-tolerant cultivars that will enhance food security in the context of a changing and more variable climate. PMID:22696006

  12. Germplasm and breeding research of tea plant based on DNA marker approaches

    Institute of Scientific and Technical Information of China (English)

    2008-01-01

    Tea is the most popular non-alcoholic and healthy beverage worldwide.Tea production contributes greatly to the economy and the job opportunities for many countries in Asia and Africa.Meanwhile,the germplasm of tea,with a huge potential for the future of the whole tea industry,is presently one of the most valuable and fundamental materials for tea breeding and tea biotechnology.DNA molecular markers have been proven to be robust and valuable approaches in the studies of genetic diversity and variation,molecular identification,molecular phylogenetics,genetic stability and integrity of tea germplasm,and the genetic linkage map for breeding of tea.In this paper,a brief prospect on the molecular marker studies of tea has been summarized.The purpose is to provide an effective way for undertaking a massive tea germplasm appraisal and evaluation,to develop new applicable and cheap DNA markers,to establish a high density genetic linkage map and analyze the agronomically important QTLs,and finally,to facilitate the marker assisted early selection and shorten breeding procedures in tea.

  13. Approaches in breeding for high quality protein maize

    Directory of Open Access Journals (Sweden)

    Denić Miloje

    2008-01-01

    Full Text Available Maize is the principal crop and major staple food in the most African and South American countries. The main problem in human nutrition in developing countries, and in livestock feed in developed countries, is insufficient production and poor quality of cereal proteins. In the case of maize, due to the very low content of essential amino acids lysine and tryptophan in grain endosperm, biological value is very low, which is main limiting factor of common maize in human nutrition and feeding of monogastric animals. Quality protein maize (QPM can help in solving of this problem. Maize production also faces serious constraints caused by agro-ecological conditions and poor socio-economic situation. To alleviate the effect of the constraints, selected genotypes with more desirable traits and appropriate field-plot techniques to create multiple-stress conditions, were used. It was found that, in downy mildew nursery distance up to 35 m from spreader plot is providing sufficient down load of spores for plant infection, provided that the testing breeding materials are planted towards to down-stream direction of the dominant wind. Using these breeding approaches large number of early, white and flint synthetics, composites and inbred lines were created with resistance or tolerance to downy mildew (DMR, maize streak virus (SR and drought (DT. Created genotypes exhibited very good kernel modification and yield potential under low and normal inputs. In the case of synthetics and composites, besides tolerance to multiple stress factors, they were competing in yield with local QPM and normal maize checks. In the case of created inbred lines high combining ability was exhibited both in non-conventional and conventional maize hybrids. Trial data revealed that in the most cases the best entries were over-yielding the best checks.

  14. Fine Mapping QTL for mastitis resistance on BTA9 in three Nordic red cattle breeds

    DEFF Research Database (Denmark)

    Sahana, G; Lund, M S; Andersson-Eklund, L;

    2008-01-01

    A QTL affecting clinical mastitis and/or somatic cell score (SCS) has been reported previously on chromosome 9 from studies in 16 families from the Swedish Red and White (SRB), Finnish Ayrshire (FA) and Danish Red (DR) breeds. In order to refine the QTL location, 67 markers were genotyped over the...... mastitis to be mapped to a small interval (BM4208 and INRA084. This QTL showed a pleiotropic effect on SCS in the DR and SRB breeds. Haplotypes associated with variations in mastitis resistance were identified. The haplotypes were predictive in the general population and can be used in marker......-assisted selection. Pleiotropic effects of the mastitis QTL were studied for three milk production traits and eight udder conformation traits. This QTL was also associated with yield traits in DR but not in FA or SRB. No QTL were found for udder conformation traits on chromosome 9...

  15. The Porcine Mitochondrial Transcription Factor a Gene: Molecular Characterization, Radiation Hybrid Mapping and Genetic Diversity among 12 Pig Breeds

    Directory of Open Access Journals (Sweden)

    Tanja Kunej

    2009-01-01

    Full Text Available Problem statement: Mitochondrial transcription factor A (TFAM is a nucleus-encoded protein that is a key activator of mitochondrial transcription as well as a major participant in mitochondrial genome replication. Genomic characterization of the porcine TFAM gene is, therefore, necessary to determine its involvement in regulation of fat depots and meat quality traits in pigs. Approach: Genomic DNA sequence was determined using a comparative in silico annotation approach. RT-PCR was used for analysis of alternative splicing. Genome location was determined using Radiation Hybrid (RH mapping. Genetic marker was identified by sequencing and genotyped by the PCR-RFLP method with SacI. GENEPOP version 3.3 software was used for statistic analysis. Results: We determined both full-length cDNA and genomic DNA sequences of the porcine TFAM gene. Gene expression analysis revealed an alternative 5’ splice site, which excludes exon 4 of the pig gene. We assigned this gene to porcine chromosome 14 (SSC14. A G/A substitution was detected in intron 1 of porcine TFAM gene and genotyped on a total of 252 animals, including 165 from seven Chinese and 87 from five Western pig breeds. The Bayesian analysis via MCMC (Markov chain Monte Carlo revealed that these two groups of pigs were well separated at this locus during the breed history; 95% of the posterior difference of TFAM allelic frequency between these two pig groups was greater than zero. Conclusion/Recommendations: All these data provided basic genomic information needed for further functional characterization of the porcine TFAM gene. Because marked differences in fat and lean tissue deposition exist between Western and Chinese pig breeds, the G557A mutation in the TFAM gene deserves further evaluation to determine its phenotypic effect on fattening and carcass traits in commercial pig populations.

  16. Residual feed intake and breeding approaches for enteric methane mitigation

    NARCIS (Netherlands)

    Berry, D.P.; Lassen, J.; Haas, de Y.

    2015-01-01

    The expanding world human population will require greater food production within the constraints of increasing societal pressure to minimize the resulting impact on the environment. Breeding goals in the past have achieved substantial gains in environmental load per unit product produced, despite no

  17. Induced mutations and marker assisted breeding approaches to crop improvement

    International Nuclear Information System (INIS)

    The crop improvement programme at the Nuclear Institute for Agriculture and Biology involves use of mutation breeding techniques, particularly for improving plant architecture, maturity, period and induction/incorporation of genes for biotic and abiotic tolerance in important food and fibre crops. Recent advances in molecular genetics offered us new techniques to elucidate differences at the molecular level in the mutated genes with the help of marker assisted breeding techniques, i.e. restriction fragment length polymorphism (RFLP) and random amplified polymorphic DNA (RAPD). Efforts are therefore being made to incorporate salt tolerance in cultivated wheat and rice from their wild relatives through wide hybridization. Thirteen improved varieties of rice, cotton, mungbeam and chickpea have been developed using the mutation breeding technique and then released for commercial cultivation. These improved varieties have played a significant role in increasing agricultural production in the country. In addition, a wealth of genetic variability has been developed for use in the cross-breeding programmes, and a few varieties of cotton have been developed in Pakistan with an induced mutation as one of their parents. Marker assisted wide hybridization in rice has helped to monitor the flow of genetic material carrying salt tolerance from wild to cultivated species. In wheat, DNA fingerprinting has been attempted to differentiate salt tolerant line (hybrids) from their parents

  18. Rice genome mapping and its application in rice genetics and breeding

    International Nuclear Information System (INIS)

    An 'MG' recombinant inbred population which consists of 164 F13 lines has been developed from a cross between a Tongil type variety Milyang 23 and a Japonica type Gihobyeo by single seed descent. A Restriction Fragment Length Polymorphism (RFLP) framework map using this population has been constructed. Morphological markers, isozyme loci, microsatellites, Amplified Fragment Length Polymorphisms (AFLP), and new complementary DNA (cDNA) markers are being integrated in the framework map for a highly saturated comprehensive map. So far, 207 RFLPs, 89 microsatellites, 5 isozymes, 232 AFLPs, and 2 morphological markers have been mapped through international collaboration. The map contains 1,826 cM with an average interval size of 4.5 cM on the framework map and 3.4 cM overall (as of 29 October 1996). The framework map is being used for analyzing, quantitative trait loci (QTL) of agronomic characters and some physico-chemical properties relating to rice quality. The number of significant QTLs affecting each trait ranged from one to five, and 38 QTLs were detected for 17 traits. The percentage of variance explained by each QTL ranged from 5.6 to 66.9%. The isozyme marker, EstI-2, and two RFLP markers, RG109 and RG220, were linked most tightly at a distance less than 1 cM with the semidwarf (sd-1) gene on chromosome 1. These markers could be used for precise in vitro selection of individuals carrying the semidwarf gene using single seeds or very young leaf tissue, before this character is fully expressed. Appropriate application of marker-assisted selection, using EstI-2 and RFLP markers for the semidwarf character, in combination with other markers linked to genes of agronomic importance in rice, holds promise for improving, the efficiency of breeding, and the high-resolution genetic and physical mapping near sd-1, aimed at ultimately cloning this valuable gene

  19. Empowering breeding programs with new approaches to overcome constraints for selecting superior quality traits of rice

    OpenAIRE

    Calingacion, M.N.

    2015-01-01

    Empowering breeding programs with new approaches to overcome constraints for selecting superior quality traits of rice Mariafe N. Calingacion Most rice breeding programs have focused on improving agronomic traits such as yield, while enhancing grain quality traits such as flavour and aroma, especially of non-fragrant rices, has not been given high priority. In this study, we utilised a multi-disciplinary approach to understand better quality traits of aroma and flavour in rice grains, and to ...

  20. An example of association mapping in Cacao.

    Science.gov (United States)

    Association mapping and genomic selection have become important methodologies in perennial crop breeding improvement programs for accelerating breeding efforts and increasing the efficiency of selection. They are good alternatives to the classical Quantitative Trait Loci (QTL) mapping approach.The ...

  1. Mapping urban and peri-urban breeding habitats of Aedes mosquitoes using a fuzzy analytical hierarchical process based on climatic and physical parameters.

    Science.gov (United States)

    Sarfraz, Muhammad Shahzad; Tripathi, Nagesh K; Faruque, Fazlay S; Bajwa, Usama Ijaz; Kitamoto, Asanobu; Souris, Marc

    2014-01-01

    The spread of dengue fever depends mainly on the availability of favourable breeding sites for its mosquito vectors around human dwellings. To investigate if the various factors influencing breeding habitats can be mapped from space, dengue indices, such as the container index, the house index and the Breteau index, were calculated from Ministry of Public health data collected three times annually in Phitsanulok, Thailand between 2009 and 2011. The most influential factors were found to be temperature, humidity, rainfall, population density, elevation and land cover. Models were worked out using parameters mostly derived from freely available satellite images and fuzzy logic software with parameter synchronisation and a predication algorithm based on data mining and the Decision Tree method. The models developed were found to be sufficiently flexible to accommodate additional parameters and sampling data that might improve prediction of favourable breeding hotspots. The algorithm applied can not only be used for the prediction of near real-time scenarios with respect to dengue, but can also be applied for monitoring other diseases influenced by environmental and climatic factors. The multi-criteria model presented is a cost-effective way of identifying outbreak hotspots and early warning systems lend themselves for development based on this strategy. The proposed approach demonstrates the successful utilisation of remotely sensed images to map mosquito breeding habitats. PMID:25599639

  2. Mapping urban and peri-urban breeding habitats of Aedes mosquitoes using a fuzzy analytical hierarchical process based on climatic and physical parameters

    Directory of Open Access Journals (Sweden)

    Muhammad Shahzad Sarfraz

    2014-12-01

    Full Text Available The spread of dengue fever depends mainly on the availability of favourable breeding sites for its mosquito vectors around human dwellings. To investigate if the various factors influencing breeding habitats can be mapped from space, dengue indices, such as the container index, the house index and the Breteau index, were calculated from Ministry of Public health data collected three times annually in Phitsanulok, Thailand between 2009 and 2011. The most influential factors were found to be temperature, humidity, rainfall, population density, elevation and land cover. Models were worked out using parameters mostly derived from freely available satellite images and fuzzy logic software with parameter synchronisation and a predication algorithm based on data mining and the Decision Tree method. The models developed were found to be sufficiently flexible to accommodate additional parameters and sampling data that might improve prediction of favourable breeding hotspots. The algorithm applied can not only be used for the prediction of near real-time scenarios with respect to dengue, but can also be applied for monitoring other diseases influenced by environmental and climatic factors. The multi-criteria model presented is a cost-effective way of identifying outbreak hotspots and early warning systems lend themselves for development based on this strategy. The proposed approach demonstrates the successful utilisation of remotely sensed images to map mosquito breeding habitats.

  3. Towards a risk map of malaria for Sri Lanka: the importance of house location relative to vector breeding sites

    DEFF Research Database (Denmark)

    Van Der Hoek, Wim; Konradsen, Flemming; Amerasinghe, Priyanie H;

    2003-01-01

    central Sri Lanka, malaria cases were compared with community controls for distance from house to breeding sites and a number of other variables, including type of housing construction and use of anti-mosquito measures. The presence of An. culicifacies in bedrooms was determined by indoor insecticide...... of house location relative to vector breeding sites for the occurrence of malaria in order to assess the usefulness of this parameter in future malaria risk maps. Such risk maps could be important tools for planning efficient malaria control measures. METHODS: In a group of seven villages in north...

  4. Residual feed intake and breeding approaches for enteric methane mitigation

    DEFF Research Database (Denmark)

    Berry, Donagh P; Lassen, Jan; de Hass, Y

    2015-01-01

    The expanding world human population will require greater food production within the constraints of increasing societal pressure to minimize the resulting impact on the environment. Breeding goals in the past have achieved substantial gains in environmental load per unit product produced, despite...... no explicit inclusion of environmental load (and in most instances, even feed efficiency) in these goals. Heritability of feed intake-related traits in cattle is moderate to high, implying that relatively high accuracy of selection can be achieved with relatively low information content per animal...

  5. Analysis on potential approaches to utilize genic male sterility in plant hybrid breeding

    Institute of Scientific and Technical Information of China (English)

    Li Xinqi; Yuan Longping; Xiao Jinhua; Xie fangming

    2005-01-01

    @@ The exploitation of plant heterosis is an effective approach to increasing the food production. The heterotic hybrid varieties in major crops such as rice,cotton, and wheat can show more than 20% yield advantage over best conventional ones under the same cultivation conditions. The difficulties in breeding elite male sterile lines and the inconveniences for commercial hybrid seed production are hampering the development of hybrid crops breeding.

  6. Quantitative trait loci for rice blast resistance detected in a local rice breeding population by genome-wide association mapping.

    Science.gov (United States)

    Shinada, Hiroshi; Yamamoto, Toshio; Sato, Hirokazu; Yamamoto, Eiji; Hori, Kiyosumi; Yonemaru, Junichi; Sato, Takashi; Fujino, Kenji

    2015-12-01

    Plant breeding programs aim to develop cultivars with high adaptability to the specific conditions in a local region. As a result, unique genes and gene combinations have been accumulated in local elite breeding populations during the long history of plant breeding. Genetic analyses on such genes and combinations may be useful for developing new cultivars with more-desirable agronomic traits. Here, we attempted to detect quantitative trait loci (QTL) for rice blast resistance (BR) using a local breeding rice population from Hokkaido, Japan. Using genotyping data on single nucleotide polymorphisms and simple sequence repeat markers distributed throughout the whole genomic region, we detected genetic regions associated with phenotypic variation in BR by a genome-wide association mapping study (GWAS). An additional association analysis using other breeding cultivars verified the effect and inheritance of the associated region. Furthermore, the existence of a gene for BR in the associated region was confirmed by QTL mapping. The results from these studies enabled us to estimate potential of the Hokkaido rice population as a gene pool for improving BR. The results of this study could be useful for developing novel cultivars with vigorous BR in rice breeding programs. PMID:26719741

  7. Optogenetic approaches for functional mouse brain mapping

    OpenAIRE

    Diana H Lim; LeDue, Jeffrey; Mohajerani, Majid H.; Vanni, Matthieu P.; Murphy, Timothy H.

    2013-01-01

    To better understand the connectivity of the brain, it is important to map both structural and functional connections between neurons and cortical regions. In recent years, a set of optogenetic tools have been developed that permit selective manipulation and investigation of neural systems. These tools have enabled the mapping of functional connections between stimulated cortical targets and other brain regions. Advantages of the approach include the ability to arbitrarily stimulate brain reg...

  8. Identification of genomic regions associated with phenotypic variation between dog breeds using selection mapping.

    OpenAIRE

    Vaysse, Amaury; Ratnakumar, Abhirami; Derrien, Thomas; Axelsson, Erik; Rosengren Pielberg, Gerli; Sigurdsson, Snaevar; Fall, Tove; Seppälä, Eija; Hansen, Mark,; Lawley, Cindy; Karlsson, Elinor; Bannasch, Danika; Vilà, Carles; Lohi, Hannes; Galibert, Francis

    2011-01-01

    The extraordinary phenotypic diversity of dog breeds has been sculpted by a unique population history accompanied by selection for novel and desirable traits. Here we perform a comprehensive analysis using multiple test statistics to identify regions under selection in 509 dogs from 46 diverse breeds using a newly developed high-density genotyping array consisting of >170,000 evenly spaced SNPs. We first identify 44 genomic regions exhibiting extreme differentiation across multiple breeds. Ge...

  9. Identification of Genomic Regions Associated with Phenotypic Variation between Dog Breeds using Selection Mapping

    OpenAIRE

    Vaysse, Amaury; Ratnakumar, Abhirami; Derrien, Thomas; Axelsson, Erik; Rosengren Pielberg, Gerli; Sigurdsson, Snaevar; Fall, Tove; Seppälä, Eija H; Hansen, Mark S. T.; Lawley, Cindy T.; Karlsson, Elinor K.; Bannasch, Danika; Vilà, Carles; Lohi, Hannes; Galibert, Francis

    2011-01-01

    The extraordinary phenotypic diversity of dog breeds has been sculpted by a unique population history accompanied by selection for novel and desirable traits. Here we perform a comprehensive analysis using multiple test statistics to identify regions under selection in 509 dogs from 46 diverse breeds using a newly developed high-density genotyping array consisting of >170,000 evenly spaced SNPs. We first identify 44 genomic regions exhibiting extreme differentiation across multiple breeds. Ge...

  10. Integrated genomics, physiology and breeding approaches for improving drought tolerance in crops

    OpenAIRE

    Mir, Reyazul Rouf; Zaman-Allah, Mainassara; Sreenivasulu, Nese; TRETHOWAN, Richard; Rajeev K. Varshney

    2012-01-01

    Drought is one of the most serious production constraint for world agriculture and is projected to worsen with anticipated climate change. Inter-disciplinary scientists have been trying to understand and dissect the mechanisms of plant tolerance to drought stress using a variety of approaches; however, success has been limited. Modern genomics and genetic approaches coupled with advances in precise phenotyping and breeding methodologies are expected to more effectively unravel the genes and m...

  11. Concepts Map Approach in e-Classroom

    OpenAIRE

    Gabriel ZAMFIR

    2012-01-01

    This article is designed as an educational research study focused on e-Classroom as a medium of instruction based on assisted didactics design and teacher assisted learning in order to develop interactive applications, integrating concepts map approach. In this context, the paper proposes a specific conceptual framework applied in a theoretical model, as a base of an analytical framework used in a case study. Such a paradigm defines the classwork as the basic activity of the student which con...

  12. Concepts Map Approach in e-Classroom

    Directory of Open Access Journals (Sweden)

    Gabriel ZAMFIR

    2012-01-01

    Full Text Available This article is designed as an educational research study focused on e-Classroom as a medium of instruction based on assisted didactics design and teacher assisted learning in order to develop interactive applications, integrating concepts map approach. In this context, the paper proposes a specific conceptual framework applied in a theoretical model, as a base of an analytical framework used in a case study. Such a paradigm defines the classwork as the basic activity of the student which connects the fieldwork and the deskwork, and finally, it develops the basic and specific competencies of the individual according with the educational objectives.

  13. Identification of genomic regions associated with phenotypic variation between dog breeds using selection mapping

    DEFF Research Database (Denmark)

    Vaysse, Amaury; Ratnakumar, Abhirami; Derrien, Thomas;

    2011-01-01

    The extraordinary phenotypic diversity of dog breeds has been sculpted by a unique population history accompanied by selection for novel and desirable traits. Here we perform a comprehensive analysis using multiple test statistics to identify regions under selection in 509 dogs from 46 diverse...... between breeds, and we identify novel associations with both morphological and behavioral traits. We next scan the genome for signatures of selective sweeps in single breeds, characterized by long regions of reduced heterozygosity and fixation of extended haplotypes. These scans identify hundreds of...... regions, including 22 blocks of homozygosity longer than one megabase in certain breeds. Candidate selection loci are strongly enriched for developmental genes. We chose one highly differentiated region, associated with body size and ear morphology, and characterized it using high-throughput sequencing to...

  14. Constructing Linkage Disequilibrium Map with Iterative Approach

    Science.gov (United States)

    Ao, S. I.

    2008-05-01

    With recent advance of the genotyping single nucleotide polymorphisms (SNPs) in mass scale of high density in a candidate region of the human genome, the linkage disequilibrium analysis can offer a much higher resolution of the biological samples than the traditional linkage maps. We have formulated this LD mapping problem as a constrained unidimensional scaling problem. Our method, which is directly based on the measurement of LD among SNPs, is non-parametric. Therefore it is different from LD maps derived from the given Malecot model. We have formulated with the quadratic programming approach for solving this constrained unidimensional scaling problem. Different from the classical metric unidimensional scaling problem, the constrained problem is not an NP-hard combinatorial problem. The optimal solution is determined by using the quadratic programming solver. Nevertheless, because of the large requirement for memory during the running time that may cause the out of memory problems, and the high computational time of the quadratic programming algorithm, the iterative algorithm has been developed for solving this LD constrained unidimensional scaling problem.

  15. Hydrochromic Approaches to Mapping Human Sweat Pores.

    Science.gov (United States)

    Park, Dong-Hoon; Park, Bum Jun; Kim, Jong-Man

    2016-06-21

    colorimetric change near body temperature. This feature enables the use of this technique to generate high-quality images of sweat pores. This Account also focuses on the results of the most recent phase of this investigation, which led to the development of a simple yet efficient and reliable technique for sweat pore mapping. The method utilizes a hydrophilic polymer composite film containing fluorescein, a commercially available dye that undergoes a fluorometric response as a result of water-dependent interconversion between its ring-closed spirolactone (nonfluorescent) and ring-opened fluorone (fluorescent) forms. Surface-modified carbon nanodots (CDs) have also been found to be efficient for hydrochromic mapping of human sweat pores. The results discovered by Lou et al. [ Adv. Mater. 2015 , 27 , 1389 ] are also included in this Account. Sweat pore maps obtained from fingertips using these materials were found to be useful for fingerprint analysis. In addition, this hydrochromism-based approach is sufficiently sensitive to enable differentiation between sweat-secreting active pores and inactive pores. As a result, the techniques can be applied to clinical diagnosis of malfunctioning sweat pores. The directions that future research in this area will follow are also discussed. PMID:27159417

  16. Arbitrarily amplified DNA: New molecular approaches to plant breeding, ecology and evolution

    International Nuclear Information System (INIS)

    Several DNA fingerprinting techniques that use arbitrary primers to characterize, scan and tag genomic DNA were optimized and used to study plants and microbial pathogens. The generated arbitrarily amplified DNA (AAD) profiles could be tailored in their complexity and polymorphic content, allowing analysis of closely related organisms, such as vegetatively-propagated horticultural crops or clonal fungal populations. AAD markers were used in cultivar and strain identification, map-based cloning, and marker-assisted breeding, sometimes as sequence-tagged sites. Phenetic analysis using parsimony, cluster, and numerical methods was applied successfully to the identification of genetic relationships in turfgrass species such as bermudagrass, woody plants such as dogwoods, and floricultural species such as petunia and chrysanthemum. AAD profiles were used to measure for the first time a genome-wide mutation rate, directly in a plant. Mutation rates in vegetatively propagated bermudagrass were comparable to those in human, mice, fruit flies, and worms. In combination with established tools used in molecular systematics (e.g. rDNA sequence analysis), AAD markers tracked the introduction of exotic dogwood anthracnose-causing fungi in North America. As part of a breeding effort to combat dogwood diseases, AAD was used in pseudo-testcross mapping of the tree at the intra-specific level. Markers were efficiently generated despite the close relatedness of parental dogwood material. Finally, DNA markers and tags were also generated in soybean, and were used to construct high density maps and walk towards defined genomic regions in the positional cloning of the supernodulation nts-1 symbiotic gene. (author)

  17. Ontology mapping approach based on set & relation theory and OCL

    Institute of Scientific and Technical Information of China (English)

    QIAN Peng-fei; ZHANG Shen-sheng; LIU Ying-hua

    2009-01-01

    An ontology mapping approach based on set & relation theory and OCL is introduced, then an ontolo-gy mapping meta-model is established which is composed of ontology related elements, mapping related elements and definition rule related elements. This ontology mapping meta-model can be regarded as a unified mechanism to realize different kinds of ontology mappings. The powerful computation capability of set and relation theory and the flexible expressive capability of OCL can be used in the computation of ontology mapping meta-model to realize the unified mapping among different ontology models. Based on the mapping meta-model, a general mapping management framework is developed to provide a common mapping storage mechanism, some mapping APIs and mapping rule APIs.

  18. Genome Mapping of Kernel Characteristics in Hard Red Spring Wheat Breeding Lines

    Science.gov (United States)

    Kernel characteristics, particularly kernel weight, kernel size, and grain protein content, are important components of grain yield and quality in wheat. Development of high performing wheat cultivars, with high grain yield and quality, is a major focus in wheat breeding programs worldwide. Here, we...

  19. Reproductive Biotechnology and Gene Mapping: Tools for Conserving Rare Breeds of Livestock

    Science.gov (United States)

    Approximately 40 livestock species, shaped by a long history of domestication and development, contribute to today’s agriculture and food production. During the past 100 years, however, there has been a net loss of diversity because of an increased rate of extinction of livestock breeds and varieti...

  20. Short-term selective breeding for High and Low prepulse inhibition of the acoustic startle response; pharmacological characterization and QTL mapping in the selected lines

    OpenAIRE

    Hitzemann, Robert; Malmanger, Barry; Belknap, John; Darakjian, Priscila; McWeeney, Shannon

    2008-01-01

    Selective breeding offers several important advantages over using inbred strain panels in detecting genetically correlated traits to the selection phenotype. The purpose of the current study was to selectively breed for prepulse inhibition (PPI) of the acoustic startle response (ASR), to pharmacologically and behaviorally characterize the selected lines and to use the lines for quantitative trait loci (QTL) mapping. Starting with heterogeneous stock mice formed by crossing the C57BL/6J, DBA/2...

  1. Integrated genomics and molecular breeding approaches for dissecting the complex quantitative traits in crop plants

    Indian Academy of Sciences (India)

    Alice Kujur; Maneesha S Saxena; Deepak Bajaj; Laxmi; Swarup K Parida

    2013-12-01

    The enormous population growth, climate change and global warming are now considered major threats to agriculture and world’s food security. To improve the productivity and sustainability of agriculture, the development of high-yielding and durable abiotic and biotic stress-tolerant cultivars and/climate resilient crops is essential. Henceforth, understanding the molecular mechanism and dissection of complex quantitative yield and stress tolerance traits is the prime objective in current agricultural biotechnology research. In recent years, tremendous progress has been made in plant genomics and molecular breeding research pertaining to conventional and next-generation whole genome, transcriptome and epigenome sequencing efforts, generation of huge genomic, transcriptomic and epigenomic resources and development of modern genomics-assisted breeding approaches in diverse crop genotypes with contrasting yield and abiotic stress tolerance traits. Unfortunately, the detailed molecular mechanism and gene regulatory networks controlling such complex quantitative traits is not yet well understood in crop plants. Therefore, we propose an integrated strategies involving available enormous and diverse traditional and modern –omics (structural, functional, comparative and epigenomics) approaches/resources and genomics-assisted breeding methods which agricultural biotechnologist can adopt/utilize to dissect and decode the molecular and gene regulatory networks involved in the complex quantitative yield and stress tolerance traits in crop plants. This would provide clues and much needed inputs for rapid selection of novel functionally relevant molecular tags regulating such complex traits to expedite traditional and modern marker-assisted genetic enhancement studies in target crop species for developing high-yielding stress-tolerant varieties.

  2. Hitchhiking Effect Mapping: A New Approach for Discovering Agronomic Important Genes

    Institute of Scientific and Technical Information of China (English)

    ZHANG Xue-yong; TONG Yi-ping; YOU Guang-xia; HAO Chen-yang; GE Hong-mei; WANG Lan-fen; LI Bin; DONG Yu-shen; LI Zhen-sheng

    2007-01-01

    Besides the natural selection, the crops cultivated today have experienced two episodes of strong artificial selection,domestic and modern breeding. Domestication led to giant genetic structure differentiation between cultivars and their wild species, while modern breeding made further genetic structure differentiation between the modern varieties and the landraces. In a population, diversity of the loci under strong selection is significantly lower than that of other loci. At the same time, diversity in the genomic regions flanking these selected loci also declines in the process of selection. This phenomenon is called hitchhiking effects or selection sweep in genetics. Genomic regions with selection sweep (haplotype block) could be detected after draft genome scanning (genome typing) with molecular markers in a number of released varieties or natural populations. Marker/trait association analysis in these regions would detect the loci (or QTLs) even the favored alleles (genes) in breeding or natural adaptation. Fine scanning of these genomic regions would help to determine the sizes of haplotype blocks and to discover the key genes, thereby providing very valuable information for isolation of the key genes and molecular design of new varieties. Establishment of high density genetic linkage maps in the major crops and availability of high throughput genotyping platform make it possible to discover agronomic important genes through marker/trait association analysis. On the basis of available publications, we give a brief introduction of the hitchhiking effect mapping approach in this paper using plant height, 1 000-grain weight, and phosphorus-deficiency tolerance as examples in wheat.

  3. A unified approach to mapping and clustering of bibliometric networks

    OpenAIRE

    Waltman, L.R.; Eck, van, Pascal; Noyons, E.C.M.

    2010-01-01

    In the analysis of bibliometric networks, researchers often use mapping and clustering techniques in a combined fashion. Typically, however, mapping and clustering techniques that are used together rely on very different ideas and assumptions. We propose a unified approach to mapping and clustering of bibliometric networks. We show that the VOS mapping technique and a weighted and parameterized variant of modularity-based clustering can both be derived from the same underlying principle. We i...

  4. Pollen Sterility—A Promising Approach to Gene Confinement and Breeding for Genetically Modified Bioenergy Crops

    Directory of Open Access Journals (Sweden)

    Albert P. Kausch

    2012-10-01

    Full Text Available Advanced genetic and biotechnology tools will be required to realize the full potential of food and bioenergy crops. Given current regulatory concerns, many transgenic traits might never be deregulated for commercial release without a robust gene confinement strategy in place. The potential for transgene flow from genetically modified (GM crops is widely known. Pollen-mediated transfer is a major component of gene flow in flowering plants and therefore a potential avenue for the escape of transgenes from GM crops. One approach for preventing and/or mitigating transgene flow is the production of trait linked pollen sterility. To evaluate the feasibility of generating pollen sterility lines for gene confinement and breeding purposes we tested the utility of a promoter (Zm13Pro from a maize pollen-specific gene (Zm13 for driving expression of the reporter gene GUS and the cytotoxic gene barnase in transgenic rice (Oryza sativa ssp. Japonica cv. Nipponbare as a monocot proxy for bioenergy grasses. This study demonstrates that the Zm13 promoter can drive pollen-specific expression in stably transformed rice and may be useful for gametophytic transgene confinement and breeding strategies by pollen sterility in food and bioenergy crops.

  5. A Geometric Approach to Mapping Bitext Correspondence

    CERN Document Server

    Melamed, I D

    1996-01-01

    The first step in most corpus-based multilingual NLP work is to construct a detailed map of the correspondence between a text and its translation. Several automatic methods for this task have been proposed in recent years. Yet even the best of these methods can err by several typeset pages. The Smooth Injective Map Recognizer (SIMR) is a new bitext mapping algorithm. SIMR's errors are smaller than those of the previous front-runner by more than a factor of 4. Its robustness has enabled new commercial-quality applications. The greedy nature of the algorithm makes it independent of memory resources. Unlike other bitext mapping algorithms, SIMR allows crossing correspondences to account for word order differences. Its output can be converted quickly and easily into a sentence alignment. SIMR's output has been used to align over 200 megabytes of the Canadian Hansards for publication by the Linguistic Data Consortium.

  6. A HapMap leads to a Capsicum annuum SNP infinium array: a new tool for pepper breeding.

    Science.gov (United States)

    Hulse-Kemp, Amanda M; Ashrafi, Hamid; Plieske, Joerg; Lemm, Jana; Stoffel, Kevin; Hill, Theresa; Luerssen, Hartmut; Pethiyagoda, Charit L; Lawley, Cindy T; Ganal, Martin W; Van Deynze, Allen

    2016-01-01

    The Capsicum genus (Pepper) is a part of the Solanacae family. It has been important in many cultures worldwide for its key nutritional components and uses as spices, medicines, ornamentals and vegetables. Worldwide population growth is associated with demand for more nutritionally valuable vegetables while contending with decreasing resources and available land. These conditions require increased efficiency in pepper breeding to deal with these imminent challenges. Through resequencing of inbred lines we have completed a valuable haplotype map (HapMap) for the pepper genome based on single-nucleotide polymorphisms (SNP). The identified SNPs were annotated and classified based on their gene annotation in the pepper draft genome sequence and phenotype of the sequenced inbred lines. A selection of one marker per gene model was utilized to create the PepperSNP16K array, which simultaneously genotyped 16 405 SNPs, of which 90.7% were found to be informative. A set of 84 inbred and hybrid lines and a mapping population of 90 interspecific F2 individuals were utilized to validate the array. Diversity analysis of the inbred lines shows a distinct separation of bell versus chile/hot pepper types and separates them into five distinct germplasm groups. The interspecific population created between Tabasco (C. frutescens chile type) and P4 (C. annuum blocky type) produced a linkage map with 5546 markers separated into 1361 bins on twelve 12 linkage groups representing 1392.3 cM. This publically available genotyping platform can be used to rapidly assess a large number of markers in a reproducible high-throughput manner for pepper. As a standardized tool for genetic analyses, the PepperSNP16K can be used worldwide to share findings and analyze QTLs for important traits leading to continued improvement of pepper for consumers. Data and information on the array are available through the Solanaceae Genomics Network. PMID:27602231

  7. QTLs for Tolerance of Drought and Breeding for Tolerance of Abiotic and Biotic Stress: An Integrated Approach

    OpenAIRE

    Shalabh Dixit; B Emma Huang; Ma Teresa Sta Cruz; Maturan, Paul T; Jhon Christian E Ontoy; Arvind Kumar

    2014-01-01

    BACKGROUND: The coupling of biotic and abiotic stresses leads to high yield losses in rainfed rice (Oryza sativa L.) growing areas. While several studies target these stresses independently, breeding strategies to combat multiple stresses seldom exist. This study reports an integrated strategy that combines QTL mapping and phenotypic selection to develop rice lines with high grain yield (GY) under drought stress and non-stress conditions, and tolerance of rice blast. METHODOLOGY: A blast-tole...

  8. Iterated-map approach to die tossing

    DEFF Research Database (Denmark)

    Feldberg, Rasmus; Szymkat, Maciej; Knudsen, Carsten;

    1990-01-01

    Nonlinear dissipative mapping is applied to determine the trajectory of a two-dimensional die thrown onto an elastic table. The basins of attraction for different outcomes are obtained and their distribution in the space of initial conditions discussed. The system has certain properties in common...

  9. An Optimization Approach to Improving Collections of Shape Maps

    DEFF Research Database (Denmark)

    Nguyen, Andy; Ben‐Chen, Mirela; Welnicka, Katarzyna;

    2011-01-01

    Finding an informative, structure‐preserving map between two shapes has been a long‐standing problem in geometry processing, involving a variety of solution approaches and applications. However, in many cases, we are given not only two related shapes, but a collection of them, and considering eac......‐of‐the‐art mapping methods on various shape databases....

  10. Tritium breeding in fusion reactors

    Energy Technology Data Exchange (ETDEWEB)

    Abdou, M.A.

    1982-10-01

    Key technological problems that influence tritium breeding in fusion blankets are reviewed. The breeding potential of candidate materials is evaluated and compared to the tritium breeding requirements. The sensitivity of tritium breeding to design and nuclear data parameters is reviewed. A framework for an integrated approach to improve tritium breeding prediction is discussed with emphasis on nuclear data requirements.

  11. A Neural Network Approach to Flood Mapping Using Satellite Imagery

    OpenAIRE

    Sergii Skakun

    2012-01-01

    This paper presents a new approach to flood mapping using satellite synthetic-aperture radar (SAR) images that is based on intelligent techniques. In particular, we apply artificial neural networks, self-organizing Kohonen's maps (SOMs), for SAR image segmentation and classification. Our approach was used to process data from different satellite SAR instruments (ERS-2/SAR, ENVISAT/ASAR, RADARSAT-1) for different flood events: the Tisza river, Ukraine and Hungary, 2001; the Huaihe river, China...

  12. Heterosis in plants: Manifestation in early seed development and prediction approaches to assist hybrid breeding

    Institute of Scientific and Technical Information of China (English)

    THIEMANN Alexander; MEYER Stephanie; SCHOLTEN Stefan

    2009-01-01

    Heterosis, or hybrid vigour, describes the superior performance of heterozygous hybrid individuals compared with their homozygous parental inbred lines. Although heterosis has been intensively used in plant breeding, the molecular and genetic mechanism underlying the phenomenon remains largely unknown. During the last years numerous laboratories initiated genomic approaches with new, often genome wide tools toward the elucidation of the molecular basis of heterosis. Various studies described differences in genome organization and gene expression of hybrids and their parental inbred lines. In maize, a considerable loss of co-linearity at many loci between different inbred lines was observed. Expression profile comparisons between inbred lines and hybrids revealed complex transcrip-tional networks specific for different developmental stages and tissues mainly in maize (Zea mays), rice (Oryza sativa) and Arabidopsis (Arabidopsis thaliana). Allele-specific expression data resolved the relative parental contributions and allowed figuring out the regulatory basis for expression variation in hybrids. Integrating all these complex expression data might help to get an idea about the molecular basis of heterosis. Thereby molecular processes during early seed development shortly after fertilization might be of particular importance, because the allelic interplay has to be coordinated after the unification of two diverse genomes and these processes might contribute to establish the basis for future performance of the sporophyte. Besides these fundamental interests in the molecular basis and manifestation of hybrid vigour applied aspects of the phenomenon are of high importance to support plant breeding and agriculture. Prediction methods are of special interest to identify the most promising parental lines of hybrid varieties, greatly reducing the financial effort and increasing the efficiency to develop new hybrid cultivars. Until now, most prediction approaches were based on

  13. Stakeholder involvement in establishing a milk quality sub-index in dairy cow breeding goals: a Delphi approach.

    Science.gov (United States)

    Henchion, M; McCarthy, M; Resconi, V C; Berry, D P; McParland, S

    2016-05-01

    The relative weighting on traits within breeding goals are generally determined by bio-economic models or profit functions. While such methods have generally delivered profitability gains to producers, and are being expanded to consider non-market values, current approaches generally do not consider the numerous and diverse stakeholders that affect, or are affected, by such tools. Based on principles of respondent anonymity, iteration, controlled feedback and statistical aggregation of feedback, a Delphi study was undertaken to gauge stakeholder opinion of the importance of detailed milk quality traits within an overall dairy breeding goal for profit, with the aim of assessing its suitability as a complementary, participatory approach to defining breeding goals. The questionnaires used over two survey rounds asked stakeholders: (a) their opinion on incorporating an explicit sub-index for milk quality into a national breeding goal; (b) the importance they would assign to a pre-determined list of milk quality traits and (c) the (relative) weighting they would give such a milk quality sub-index. Results from the survey highlighted a good degree of consensus among stakeholders on the issues raised. Similarly, revelation of the underlying assumptions and knowledge used by stakeholders to make their judgements illustrated their ability to consider a range of perspectives when evaluating traits, and to reconsider their answers based on the responses and rationales given by others, which demonstrated social learning. Finally, while the relative importance assigned by stakeholders in the Delphi survey (4% to 10%) and the results of calculations based on selection index theory of the relative emphasis that should be placed on milk quality to halt any deterioration (16%) are broadly in line, the difference indicates the benefit of considering more than one approach to determining breeding goals. This study thus illustrates the role of the Delphi technique, as a complementary

  14. Breeding approaches in simultaneous selection for multiple stress tolerance of maize in tropical environments

    Directory of Open Access Journals (Sweden)

    Denić M.

    2007-01-01

    Full Text Available Maize is the principal crop and major staple food in the most countries of Sub-Saharan Africa. However, due to the influence of abiotic and biotic stress factors, maize production faces serious constraints. Among the agro-ecological conditions, the main constraints are: lack and poor distribution of rainfall; low soil fertility; diseases (maize streak virus, downy mildew, leaf blights, rusts, gray leaf spot, stem/cob rots and pests (borers and storage pests. Among the socio-economic production constraints are: poor economy, serious shortage of trained manpower; insufficient management expertise, lack of use of improved varieties and poor cultivation practices. To develop desirable varieties, and thus consequently alleviate some of these constraints, appropriate breeding approaches and field-based methodologies in selection for multiple stress tolerance, were implemented. These approaches are mainly based on: a Crossing selected genotypes with more desirable stress tolerant and other agronomic traits; b Using the disease/pest spreader row method, combined with testing and selection of created progenies under strong to intermediate pressure of drought and low soil fertility in nurseries; and c Evaluation of the varieties developed in multi-location trials under low and "normal" inputs. These approaches provide testing and selection of large number of progenies, which is required for simultaneous selection for multiple stress tolerance. Data obtained revealed that remarkable improvement of the traits under selection was achieved. Biggest progress was obtained in selection for maize streak virus and downy mildew resistance, flintiness and earliness. In the case of drought stress, statistical analyses revealed significant negative correlation between yield and anthesis-silking interval, and between yield and days to silk, but positive correlation between yield and grain weight per ear.

  15. A microsatellite linkage map for the cultivated strawberry (Fragaria × ananassa) suggests extensive regions of homozygosity in the genome that may have resulted from breeding and selection.

    Science.gov (United States)

    Sargent, D J; Passey, T; Surbanovski, N; Lopez Girona, E; Kuchta, P; Davik, J; Harrison, R; Passey, A; Whitehouse, A B; Simpson, D W

    2012-05-01

    The linkage maps of the cultivated strawberry, Fragaria × ananassa (2n = 8x = 56) that have been reported to date have been developed predominantly from AFLPs, along with supplementation with transferrable microsatellite (SSR) markers. For the investigation of the inheritance of morphological characters in the cultivated strawberry and for the development of tools for marker-assisted breeding and selection, it is desirable to populate maps of the genome with an abundance of transferrable molecular markers such as microsatellites (SSRs) and gene-specific markers. Exploiting the recent release of the genome sequence of the diploid F. vesca, and the publication of an extensive number of polymorphic SSR markers for the genus Fragaria, we have extended the linkage map of the 'Redgauntlet' × 'Hapil' (RG × H) mapping population to include a further 330 loci, generated from 160 primer pairs, to create a linkage map for F. × ananassa containing 549 loci, 490 of which are transferrable SSR or gene-specific markers. The map covers 2140.3 cM in the expected 28 linkage groups for an integrated map (where one group is composed of two separate male and female maps), which represents an estimated 91% of the cultivated strawberry genome. Despite the relative saturation of the linkage map on the majority of linkage groups, regions of apparent extensive homozygosity were identified in the genomes of 'Redgauntlet' and 'Hapil' which may be indicative of allele fixation during the breeding and selection of modern F. × ananassa cultivars. The genomes of the octoploid and diploid Fragaria are largely collinear, but through comparison of mapped markers on the RG × H linkage map to their positions on the genome sequence of F. vesca, a number of inversions were identified that may have occurred before the polyploidisation event that led to the evolution of the modern octoploid strawberry species. PMID:22218676

  16. Development and exploitation of biotechnological approaches for breeding of grass pea (Lathyrus sativus L.)

    International Nuclear Information System (INIS)

    The grass pea (Lathyrus sativus) is a wild relative of pea, which may be a useful genetic resource for the acquisition of interesting stress resistance traits. However, as grass pea is cross incompatible with pea and its seeds contain a toxic amino acid, hybrids will have to be generated following protoplast fusion, and low-toxin containing plants produced by genetic transformation. It is therefore essential that regenerated plants are fertile, true-to-type and not chimaeric in nature, when they have been obtained in absence of any selection treatment. Various biotechnological approaches have been developed and are being exploited for the breeding of novel grass pea genotypes. The auxin/cytokinin balance of regeneration media affected the rooting ability of regenerants. Conventional and somatic hybridisations with pea were attempted. Flow cytometry permitted to characterise in vitro regenerants in terms of nuclear DNA content. Plant regeneration competence was genotype-dependent and strongly correlated with a normal DNA content. Isoenzymes, molecular biology and FISH techniques were also developed and used for the characterization of all regenerants produced. (author)

  17. Approach of simultaneous localization and mapping based on local maps for robot

    Institute of Scientific and Technical Information of China (English)

    CHEN Bai-fan; CAI Zi-xing; HU De-wen

    2006-01-01

    An extended Kalman filter approach of simultaneous localization and mapping(SLAM) was proposed based on local maps.A local frame of reference was established periodically at the position of the robot, and then the observations of the robot and landmarks were fused into the global frame of reference. Because of the independence of the local map, the approach does not cumulate the estimate and calculation errors which are produced by SLAM using Kalman filter directly. At the same time, it reduces the computational complexity. This method is proven correct and feasible in simulation experiments.

  18. Physiological breeding.

    Science.gov (United States)

    Reynolds, Matthew; Langridge, Peter

    2016-06-01

    Physiological breeding crosses parents with different complex but complementary traits to achieve cumulative gene action for yield, while selecting progeny using remote sensing, possibly in combination with genomic selection. Physiological approaches have already demonstrated significant genetic gains in Australia and several developing countries of the International Wheat Improvement Network. The techniques involved (see Graphical Abstract) also provide platforms for research and refinement of breeding methodologies. Recent examples of these include screening genetic resources for novel expression of Calvin cycle enzymes, identification of common genetic bases for heat and drought adaptation, and genetic dissection of trade-offs among yield components. Such information, combined with results from physiological crosses designed to test novel trait combinations, lead to more precise breeding strategies, and feed models of genotype-by-environment interaction to help build new plant types and experimental environments for future climates. PMID:27161822

  19. A Hybrid Topological and Geometrical Robot Mapping Approach

    OpenAIRE

    Nordstoga, Aasmund

    2009-01-01

    Robotic mapping systems are traditionally separated into the metric and the topological paradigm. The metric approach provides geometrical accuracy, but is fragile because it is bounded in an absolute coordinate system and depends on the use of odometry for navigation. The topological paradigm provides a compact presentation and navigation free of accumulated error. In this thesis the topological and the metric paradigm is combined into a hybrid representation where a topological map joins a ...

  20. Geostatistics approach to radon potential mapping

    International Nuclear Information System (INIS)

    Soil-gas radon potential assessment is an important component of the most of national radon programs. With regard to recent intensive advances in all fields of science and increasing demands on accuracy in data there is an urgent need to support current approaches by alternative methods. Important finding of this study is the benefit of variographic analysis based on random sampling for prediction of the overall radon potential, as a counterpart of a widely used regular sampling. In addition, as could be seen the temporal variability might be a crucial factor affecting consequent accuracy of radon risk assessment. We hope that introduced combination of geo-statistics tools, results of long-term radon activity monitoring and, in general, dealing with uncertainties affecting radon potential/risk assessment can bring synergic effect providing more exhaustive data treatment. (authors)

  1. Mapping Smart Regions. An Exploratory Approach

    Directory of Open Access Journals (Sweden)

    Sylvie Occelli

    2014-05-01

    Full Text Available The paper presents the results of an exploratory approach aimed at extending the ranking procedures normally used in studying the socioeconomics determinants of smart growth at the regional level.   Most of these studies adopt a methodological procedure which essentially consists of the following steps: a identification of the pertinent elementary indicators according to the study objectives; b data selection and processing; c combination of the elementary indicators by multivariate statistical techniques aimed at obtaining a robust synthetic index to rank the observation units. In the procedure a relational dimension is mainly subsumed in the system oriented perspective adopted in selecting the indicators which would best represent the system determinants depending on the goals of the analysis (step a.  In order to get deeper insights into the smartness profile of the European regions, this study makes an effort to account of the relational dimension also in steps b and c of the procedure. The novelties of the proposed approach are twofold. First, by computing region-to-region distances associated with the selected indicators it extends the conventional ranking procedure (step c. Second, it uses a relational database (step b, dealing with the regional participation to the FP7-ICT project, to modify the distances and investigate its impact on the interpretation of the regional positioning.  The main results of this exercise seem to suggest that regional collaborations would have a positive role in regional convergence process. By providing an opportunity to get contacts with the areas endowed with a comparatively more robust smartness profile, regions may have a chance to enhance their own smartness profile.

  2. Effects of the number of markers per haplotype and clustering of haplotypes on the accuracy of QTL mapping and prediction of genomic breeding values

    Directory of Open Access Journals (Sweden)

    Schrooten Chris

    2009-01-01

    Full Text Available Abstract The aim of this paper was to compare the effect of haplotype definition on the precision of QTL-mapping and on the accuracy of predicted genomic breeding values. In a multiple QTL model using identity-by-descent (IBD probabilities between haplotypes, various haplotype definitions were tested i.e. including 2, 6, 12 or 20 marker alleles and clustering base haplotypes related with an IBD probability of > 0.55, 0.75 or 0.95. Simulated data contained 1100 animals with known genotypes and phenotypes and 1000 animals with known genotypes and unknown phenotypes. Genomes comprising 3 Morgan were simulated and contained 74 polymorphic QTL and 383 polymorphic SNP markers with an average r2 value of 0.14 between adjacent markers. The total number of haplotypes decreased up to 50% when the window size was increased from two to 20 markers and decreased by at least 50% when haplotypes related with an IBD probability of > 0.55 instead of > 0.95 were clustered. An intermediate window size led to more precise QTL mapping. Window size and clustering had a limited effect on the accuracy of predicted total breeding values, ranging from 0.79 to 0.81. Our conclusion is that different optimal window sizes should be used in QTL-mapping versus genome-wide breeding value prediction.

  3. Fine mapping of quantitative trait loci underlying sensory meat quality traits in three French beef cattle breeds.

    Science.gov (United States)

    Allais, S; Levéziel, H; Hocquette, J F; Rousset, S; Denoyelle, C; Journaux, L; Renand, G

    2014-10-01

    Improving the traits that underlie meat quality is a major challenge in the beef industry. The objective of this paper was to detect QTL linked to sensory meat quality traits in 3 French beef cattle breeds. We genotyped 1,059, 1,219, and 947 young bulls and their sires belonging to the Charolais, Limousin, and Blonde d'Aquitaine breeds, respectively, using the Illumina BovineSNP50 BeadChip (Illumina Inc., San Diego, CA). After estimating relevant genetic parameters using VCE software, we performed a linkage disequilibrium and linkage analysis on 4 meat traits: intramuscular fat content, muscle lightness, shear force, and tenderness score. Heritability coefficients largely ranged between 0.10 and 0.24; however, they reached a maximum of 0.44 and 0.50 for intramuscular fat content and tenderness score, respectively, in the Charolais breed. The 2 meat texture traits, shear force and tenderness score, were strongly genetically correlated (-0.91 in the Charolais and Limousin breed and -0.86 in the Blonde d'Aquitaine breed), indicating that they are 2 different measures of approximately the same trait. The genetic correlation between tenderness and intramuscular fat content differed across breeds. Using a significance threshold of 5 × 10(-4) for QTL detection, we found more than 200 significant positions across the 29 autosomal chromosomes for the 4 traits in the Charolais and Blonde d'Aquitaine breeds; in contrast, there were only 78 significant positions in the Limousin breed. Few QTL were common across breeds. We detected QTL for intramuscular fat content located near the myostatin gene in the Charolais and Blonde d'Aquitaine breeds. No mutation in this gene has been reported for the Blonde d'Aquitaine breed; therefore, it suggests that an unknown mutation could be segregating in this breed. We confirmed that, in certain breeds, markers in the calpastatin and calpain 1 gene regions affect tenderness. We also found new QTL as several QTL on chromosome 3 that are

  4. Tank Update System: A novel asset mapping approach for verifying and updating lakes using Google Maps

    Science.gov (United States)

    Reddy Pulsani, Bhaskar

    2016-06-01

    Mission Kakatiya is one of prestigious programs of Telangana state government under which restoration of tank across ten districts is being implemented. As part of the program, government plans to restore about 9,000 lakes. Therefore, to have a comprehensive list of lakes existing in Telangana state, Samagra Tank Survey was carried out. Data collected in this survey contained about 45,000 tanks. Since the mode of collection of data was not in a standard format and was made using excel, a web interface was created to fill the gaps and to standardise the data. A new approach for spatially identifying the lakes through Google maps was successfully implemented by developing a web interface. This approach is less common since it implements the nature of asset mapping for the lakes of Telangana state and shows the advantages of using online mapping applications such as Google maps in identifying and cross checking already existing lakes on it.

  5. HI intensity mapping : a single dish approach

    CERN Document Server

    Battye, R A; Dickinson, C; Heron, G; Maffei, B; Pourtsidou, A

    2013-01-01

    We discuss the detection of large scale HI intensity fluctuations using a single dish approach with the ultimate objective of measuring the Baryonic Acoustic Oscillations and constraining the properties of dark energy. We present 3D power spectra, 2D angular power spectra for individual redshift slices, and also individual line-of-sight spectra, computed using the S^3 simulated HI catalogue which is based on the Millennium Simulation. We consider optimal instrument design and survey strategies for a single dish observation at low and high redshift for a fixed sensitivity. For a survey corresponding to an instrument with T_sys=50 K, 50 feed horns and 1 year of observations, we find that at low redshift (z \\approx 0.3), a resolution of 40 arc min and a survey of 5000 deg^2 is close to optimal, whereas at higher redshift (z \\approx 0.9) a resolution of 10 arcmin and 500 deg^2 would be necessary. Continuum foreground emission from the Galaxy and extragalactic radio sources are potentially a problem. We suggest th...

  6. Corporate Governance Behavioral Approach and Cognitive Mapping Technique

    Directory of Open Access Journals (Sweden)

    Garoui Nassreddine

    2012-05-01

    Full Text Available The idea of this paper is to determine the mental models of actors in the Tunisian firms with respect to the behavioral approach of corporate governance. We use the cognitive map to view these diagrams and to visualize the ways of thinking conceptualization of the behavioral approach. The objective of this study was to understand the concept of "mental models" from the presentation and analysis of cognitive maps of Tunisian firms actors. The paper takes a corporate governance perspective, discusses mental models. Returning to the systematic exploration grids for each actor, there is a balance of concepts expressing their cognitive orientation.

  7. A high-density, SNP-based consensus map of tetraploid wheat as a bridge to integrate durum and bread wheat genomics and breeding.

    Science.gov (United States)

    Maccaferri, Marco; Ricci, Andrea; Salvi, Silvio; Milner, Sara Giulia; Noli, Enrico; Martelli, Pier Luigi; Casadio, Rita; Akhunov, Eduard; Scalabrin, Simone; Vendramin, Vera; Ammar, Karim; Blanco, Antonio; Desiderio, Francesca; Distelfeld, Assaf; Dubcovsky, Jorge; Fahima, Tzion; Faris, Justin; Korol, Abraham; Massi, Andrea; Mastrangelo, Anna Maria; Morgante, Michele; Pozniak, Curtis; N'Diaye, Amidou; Xu, Steven; Tuberosa, Roberto

    2015-06-01

    Consensus linkage maps are important tools in crop genomics. We have assembled a high-density tetraploid wheat consensus map by integrating 13 data sets from independent biparental populations involving durum wheat cultivars (Triticum turgidum ssp. durum), cultivated emmer (T. turgidum ssp. dicoccum) and their ancestor (wild emmer, T. turgidum ssp. dicoccoides). The consensus map harboured 30 144 markers (including 26 626 SNPs and 791 SSRs) half of which were present in at least two component maps. The final map spanned 2631 cM of all 14 durum wheat chromosomes and, differently from the individual component maps, all markers fell within the 14 linkage groups. Marker density per genetic distance unit peaked at centromeric regions, likely due to a combination of low recombination rate in the centromeric regions and even gene distribution along the chromosomes. Comparisons with bread wheat indicated fewer regions with recombination suppression, making this consensus map valuable for mapping in the A and B genomes of both durum and bread wheat. Sequence similarity analysis allowed us to relate mapped gene-derived SNPs to chromosome-specific transcripts. Dense patterns of homeologous relationships have been established between the A- and B-genome maps and between nonsyntenic homeologous chromosome regions as well, the latter tracing to ancient translocation events. The gene-based homeologous relationships are valuable to infer the map location of homeologs of target loci/QTLs. Because most SNP and SSR markers were previously mapped in bread wheat, this consensus map will facilitate a more effective integration and exploitation of genes and QTL for wheat breeding purposes. PMID:25424506

  8. Phenotypic diversity of Tuscany’s endangered sheep breeds: a canonical discriminant approach

    Directory of Open Access Journals (Sweden)

    R. Bozzi

    2011-03-01

    Full Text Available The determination of the degree of differentiation of animal populations at breed level is an important issue for conservation purposes. Morphometric divergences can be an indicator of adaptative or selective differences between breeds. In fact, due to the natural and artificial selection that continuously acts on the adaptative traits, the determination of the level of divergence of the quantitative traits across several populations, allows to make inferences on the degree of adaptation to a certain environment or on the productive specialization of a given population. Somatic measures have already been used to estimate the divergence in Italian cattle (Camussi et al., 1985, goat (Cicogna et al., 1995, Herrera et al. 1996 and sheep breeds (Panella et al., 1993...

  9. Corporate Governance Behavioral Approach and Cognitive Mapping Technique

    OpenAIRE

    Garoui Nassreddine; Jarboui Anis

    2012-01-01

    Psychological biases represent new paradigms that complement traditional behavioral finance theory while introducing "behaviorist" aspects to the decision-making process. The aim of this paper is to examine the mental models of actors in Tunisian firms with respect to the behavioral approach to corporate governance. We use a cognitive map to observe these mental diagrams and to visualize ways to conceptualize the behavioral approach. The objective of this study is to understand the concept of...

  10. Birds - Breeding [ds60

    Data.gov (United States)

    California Department of Resources — This data set provides access to information gathered on annual breeding bird surveys in California using a map layer developed by the Department. This data layer...

  11. A unified approach to the theory of separately holomorphic mappings

    International Nuclear Information System (INIS)

    We extend the theory of separately holomorphic mappings between complex analytic spaces. Our method is based on Poletsky theory of discs, Rosay Theorem on holomorphic discs and our recent joint-work with Pflug on boundary cross theorems in dimension 1. It also relies on our new technique of conformal mappings and a generalization of Siciak's relative extremal function. Our approach illustrates the unified character: 'From local informations to global extensions'. Moreover, it avoids systematically the use of the classical method of doubly orthogonal bases of Bergman type. (author)

  12. Comparing the performance of various digital soil mapping approaches to map physical soil properties

    Science.gov (United States)

    Laborczi, Annamária; Takács, Katalin; Pásztor, László

    2015-04-01

    Spatial information on physical soil properties is intensely expected, in order to support environmental related and land use management decisions. One of the most widely used properties to characterize soils physically is particle size distribution (PSD), which determines soil water management and cultivability. According to their size, different particles can be categorized as clay, silt, or sand. The size intervals are defined by national or international textural classification systems. The relative percentage of sand, silt, and clay in the soil constitutes textural classes, which are also specified miscellaneously in various national and/or specialty systems. The most commonly used is the classification system of the United States Department of Agriculture (USDA). Soil texture information is essential input data in meteorological, hydrological and agricultural prediction modelling. Although Hungary has a great deal of legacy soil maps and other relevant soil information, it often occurs, that maps do not exist on a certain characteristic with the required thematic and/or spatial representation. The recent developments in digital soil mapping (DSM), however, provide wide opportunities for the elaboration of object specific soil maps (OSSM) with predefined parameters (resolution, accuracy, reliability etc.). Due to the simultaneous richness of available Hungarian legacy soil data, spatial inference methods and auxiliary environmental information, there is a high versatility of possible approaches for the compilation of a given soil map. This suggests the opportunity of optimization. For the creation of an OSSM one might intend to identify the optimum set of soil data, method and auxiliary co-variables optimized for the resources (data costs, computation requirements etc.). We started comprehensive analysis of the effects of the various DSM components on the accuracy of the output maps on pilot areas. The aim of this study is to compare and evaluate different

  13. Epistatic Association Mapping in Homozygous Crop Cultivars

    OpenAIRE

    Lü, Hai-Yan; Liu, Xiao-Fen; Wei, Shi-Ping; Zhang, Yuan-Ming

    2011-01-01

    The genetic dissection of complex traits plays a crucial role in crop breeding. However, genetic analysis and crop breeding have heretofore been performed separately. In this study, we designed a new approach that integrates epistatic association analysis in crop cultivars with breeding by design. First, we proposed an epistatic association mapping (EAM) approach in homozygous crop cultivars. The phenotypic values of complex traits, along with molecular marker information, were used to perfor...

  14. MODERN APPROACH IN SHEEP BREEDING MANAGEMENT IN CENTRAL-CHERNOZEM REGION

    OpenAIRE

    Kornienko, P.; Yusupova, Sh; Eremenko, E.; Kornienko, R.

    2008-01-01

    Experimentally has been defined positive influence on sheep' meat productivity of using in selection the following animal breeds: prekos, teksel, northcaucasian meatwool, romanovskaya. It is noticed milk increasing of sheep and vitality of lambs if include in their ration saltmineral addition «felupen». It has been defined the advantage of lambs of autumn lambing term in comparison with spring term; it has been also defined the possibility of two-stage receiving of sterling lambs from sheep, ...

  15. Recent approaches of fish breeding /Abordagens recentes do melhoramento genético de peixes

    Directory of Open Access Journals (Sweden)

    João Costa Filho

    2012-04-01

    Full Text Available ResumoThis review aims at addressing the main issues related to genetic improvement applied to fish species with zootechnical potential, such as selection, genetic parameters and use of biotechnology as well as address the importance of this area of study for the expansion of aquaculture and its development trend. Fish breeding is one of the most important areas of study for fish production development. Important techniques are applied in order to advance genetic progress in fish breeding (e.g., individual selection, genetic parameters estimation and the use of biotechnology. Traditional breeding in fish farming has been conducted mainly through biometric analysis, which helps in choosing selection criteria and in the assessment of genetic parameters such as heritability and correlations between interesting traits. The use of biotechnology in fish breeding has been successful; it is an important strategy that allows breeding results to be achieved faster, although at a greater cost than traditional breeding. Fish breeding in Brazil is currently in its initial stages; however, it is a field with great growth expectations, and there is still significant research to be conducted in this area.AbstractEsta revisão tem como objetivo a abordagem dos principais aspectos relacionados ao melhoramento genético aplicado em espécies de peixes com potencial zootécnico, tais como seleção, parâmetros genéticos e utilização da biotecnologia, bem como abordar a importância desta área de estudos para a ampliação da aquicultura e sua tendência de desenvolvimento. O melhoramento genético é uma das áreas prioritárias de estudo para o desenvolvimento da produção de peixes. Assim, importantes técnicas são aplicadas visando à obtenção de progresso genético no melhoramento de peixes, como por exemplo, a seleção individual, a estimativa de parâmetros genéticos e o uso da biotecnologia. O melhoramento genético tradicional na piscicultura tem

  16. Fine mapping of Msv1, a major QTL for resistance to Maize Streak Virus leads to development of production markers for breeding pipelines.

    Science.gov (United States)

    Nair, Sudha K; Babu, Raman; Magorokosho, Cosmos; Mahuku, George; Semagn, Kassa; Beyene, Yoseph; Das, Biswanath; Makumbi, Dan; Lava Kumar, P; Olsen, Michael; Boddupalli, Prasanna M

    2015-09-01

    Msv1 , the major QTL for MSV resistance was delimited to an interval of 0.87 cM on chromosome 1 at 87 Mb and production markers with high prediction accuracy were developed. Maize streak virus (MSV) disease is a devastating disease in the Sub-Saharan Africa (SSA), which causes significant yield loss in maize. Resistance to MSV has previously been mapped to a major QTL (Msv1) on chromosome 1 that is germplasm and environment independent and to several minor loci elsewhere in the genome. In this study, Msv1 was fine-mapped through QTL isogenic recombinant strategy using a large F 2 population of CML206 × CML312 to an interval of 0.87 cM on chromosome 1. Genome-wide association study was conducted in the DTMA (Drought Tolerant Maize for Africa)-Association mapping panel with 278 tropical/sub-tropical breeding lines from CIMMYT using the high-density genotyping-by-sequencing (GBS) markers. This study identified 19 SNPs in the region between 82 and 93 Mb on chromosome 1(B73 RefGen_V2) at a P trend regression identified a haplotype block significantly associated with response to MSV. Three SNPs in this haplotype block at 87 Mb on chromosome 1 had an accuracy of 0.94 in predicting the disease reaction in a collection of breeding lines with known responses to MSV infection. In two biparental populations, selection for resistant Msv1 haplotype demonstrated a reduction of 1.03-1.39 units on a rating scale of 1-5, compared to the susceptible haplotype. High-throughput KASP assays have been developed for these three SNPs to enable routine marker screening in the breeding pipeline for MSV resistance. PMID:26081946

  17. Uncertainty propagation in a cascade modelling approach to flood mapping

    OpenAIRE

    Rodríguez-Rincón, J. P.; Pedrozo-Acuña, A.; J. A. Breña Naranjo

    2014-01-01

    The purpose of this investigation is to study the propagation of meteorological uncertainty within a cascade modelling approach to flood mapping. The methodology is comprised of a Numerical Weather Prediction Model (NWP), a distributed rainfall–runoff model and a standard 2-D hydrodynamic model. The cascade of models is used to reproduce an extreme flood event that took place in the Southeast of Mexico, during November 2009. The event is selected as high quality field data...

  18. Uncertainty in Coastal Inundation Mapping: A Probabilistic Approach

    Science.gov (United States)

    Leon, J. X.; Callaghan, D. P.; Heuvelink, G.; Mills, M.; Phinn, S. R.

    2014-12-01

    Coastal managers require reliable spatial data on the extent and timing of potential coastal inundation, particularly as extreme high sea levels and associated erosion are forecasted to increase in magnitude. Most sea level rise (SLR) vulnerability assessments are undertaken using the easily implemented bathtub approach, where areas adjacent to the sea and below a given elevation are mapped using a deterministic line dividing potentially inundated from dry areas. This method only requires elevation data usually in the form of a digital elevation model (DEM). However, inherent errors in the DEM and spatial analysis propagate into the inundation mapping. Error propagation within spatial modelling can be appropriately analysed using, for example, a probabilistic framework based on geostatistical simulations. Geostatistical modelling takes the spatial correlation in elevation errors into account, which has a significant impact on analyses that include spatial interactions, such as inundation modelling. The aim of this study was to elaborate probability maps incorporating the impacts of spatially variable and spatially correlated elevation errors in high-resolution DEMs combined with sea level rise uncertainties. The spatial variability of elevation errors was partially explained by land cover and terrain variables. Elevation errors were simulated using sequential Gaussian simulation, a Monte Carlo probabilistic approach. Sea level rise uncertainty was non-parametrically modelled using 1000 Monte Carlo estimations which were processed to provide the probability density function numerically. The sea level rise uncertainties were modelled using a Weibull distribution with 0.95 scale and 2.2 shape parameters. These uncertainties were combined through addition (i.e., assuming they are independent), and when using probability density distributions, requires a convolution. This probabilistic approach can be used in a risk-aversive decision making process by planning for

  19. A zeta function approach to the semiclassical quantization of maps

    International Nuclear Information System (INIS)

    The quantum analogue of an area preserving map on a compact phase space is a unitary (evolution) operator which can be represented by a matrix of dimension L∝ℎ-1. The semiclassical theory for spectrum of the evolution operator will be reviewed with special emphasize on developing a dynamical zeta function approach, similar to the one introduced recently for a semiclassical quantization of hamiltonian systems. (author)

  20. Tropical forest carbon assessment: integrating satellite and airborne mapping approaches

    International Nuclear Information System (INIS)

    Large-scale carbon mapping is needed to support the UNFCCC program to reduce deforestation and forest degradation (REDD). Managers of forested land can potentially increase their carbon credits via detailed monitoring of forest cover, loss and gain (hectares), and periodic estimates of changes in forest carbon density (tons ha-1). Satellites provide an opportunity to monitor changes in forest carbon caused by deforestation and degradation, but only after initial carbon densities have been assessed. New airborne approaches, especially light detection and ranging (LiDAR), provide a means to estimate forest carbon density over large areas, which greatly assists in the development of practical baselines. Here I present an integrated satellite-airborne mapping approach that supports high-resolution carbon stock assessment and monitoring in tropical forest regions. The approach yields a spatially resolved, regional state-of-the-forest carbon baseline, followed by high-resolution monitoring of forest cover and disturbance to estimate carbon emissions. Rapid advances and decreasing costs in the satellite and airborne mapping sectors are already making high-resolution carbon stock and emissions assessments viable anywhere in the world.

  1. Tropical forest carbon assessment: integrating satellite and airborne mapping approaches

    Energy Technology Data Exchange (ETDEWEB)

    Asner, Gregory P, E-mail: gpa@stanford.ed [Department of Global Ecology, Carnegie Institution for Science, 260 Panama Street, Stanford, CA 94305 (United States)

    2009-09-15

    Large-scale carbon mapping is needed to support the UNFCCC program to reduce deforestation and forest degradation (REDD). Managers of forested land can potentially increase their carbon credits via detailed monitoring of forest cover, loss and gain (hectares), and periodic estimates of changes in forest carbon density (tons ha{sup -1}). Satellites provide an opportunity to monitor changes in forest carbon caused by deforestation and degradation, but only after initial carbon densities have been assessed. New airborne approaches, especially light detection and ranging (LiDAR), provide a means to estimate forest carbon density over large areas, which greatly assists in the development of practical baselines. Here I present an integrated satellite-airborne mapping approach that supports high-resolution carbon stock assessment and monitoring in tropical forest regions. The approach yields a spatially resolved, regional state-of-the-forest carbon baseline, followed by high-resolution monitoring of forest cover and disturbance to estimate carbon emissions. Rapid advances and decreasing costs in the satellite and airborne mapping sectors are already making high-resolution carbon stock and emissions assessments viable anywhere in the world.

  2. A conformal mapping approach to a root-clustering problem

    International Nuclear Information System (INIS)

    This paper presents a new approach for matrix root-clustering in sophisticated and multiply-connected regions of the complex plane. The parametric sweeping method and a concept of the closed forbidden region covered by a set of modified three-parametrical Cassini regions are used. A conformal mapping approach was applied to formulate the main results of the paper. An application of the developed method to the problem of matrix root-clustering in a multiply connected region is shown for illustration

  3. Wildfire susceptibility mapping: comparing deterministic and stochastic approaches

    Science.gov (United States)

    Pereira, Mário; Leuenberger, Michael; Parente, Joana; Tonini, Marj

    2016-04-01

    Estimating the probability of wildfire-occurrence in a certain area under particular environmental conditions represents a modern tool to support forest protection plans and to reduce fires consequences. This can be performed by the implementation of wildfire susceptibility mapping, normally achieved employing more or less sophisticated models which combine the predisposing variables (as raster datasets) into a geographic information systems (GIS). The selection of the appropriate variables includes the evaluation of success and the implementation of prediction curves, as well as independent probabilistic validations for different scenarios. These methods allow to define the spatial pattern of wildfire-occurrences, characterize the susceptibility of the territory, namely for specific fire causes/types, and can also account for other factors such as human behavior and social aspects. We selected Portugal as the study region which, due to its favorable climatic, topographic and vegetation conditions, is by far the European country most affected by wildfires. In addition, Verde and Zêzere (2010) performed a first assessment and validation of wildfire susceptibility and hazard in Portugal which can be used as benchmarking. The objectives of the present study comprise: (1) assessing the structural forest fire risk in Portugal using updated datasets, namely, with higher spatial resolution (80 m to 25 m), most recent vegetation cover (Corine Land Cover), longer fire history (1975-2013); and, (2) comparing linear vs non-linear approaches for wildfire susceptibility mapping. The data we used includes: (i) a DEM derived from the Shuttle Radar Topographic Mission in a resolution of 1 arc-seconds (DEM-SRTM 25 m) to assess elevation and slope; (ii) the Corine Land Cover inventory provided by the European Environment Agency (http://www.eea.europa.eu/pt) to produce the land use land cover map; (iii) the National Mapping Burnt Areas (NMBA) provided by the Institute for the

  4. Maps help protect sensitive areas from spills : an integrated approach to environmental mapping

    International Nuclear Information System (INIS)

    The Atlantic Sensitivity Mapping Program (ASMP) is underway in Canada's Atlantic Region to develop and maintain the best possible sensitivity mapping system to provide planners and managers with the full range of information they would need in the event of a coastal oil spill drill or spill incident. This initiative also provides recommendations concerning resource protection at the time of a spill. ASMP has become a powerful tool, providing a consistent and standardized terminology throughout the range of spill planning, preparedness and real-time response activities. The desktop mapping system provides an easy-to-use approach for a wide range of technical and support data and information stored in various databases. The data and information are based on a consistent set of terms and definitions that describe the character of the shore zone, the objective and strategies for a specific response, and the methods for achieving those objectives. The data are linked with other resource information in a GIS-based system and can be updated quickly and easily as new information becomes available. The mapping program keeps evolving to better serve the needs of environmental emergency responders. In addition, all components will soon be integrated into a web-based mapping format for broader accessibility. Future work will focus on developing a pre-spill database for Labrador. 3 refs., 8 figs

  5. An Efficient Approach of Creating New Genetic Resources in Hybrid Rice Breeding

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    @@It is more and more important to create new genetic resources in hybrid rice breedding by using the tertiary and the forth gene pool through biotechnologic methods after the success of the utilization of inter-subspecific heterosis. We have established a simple procedure which is modified from that of Pena to transfer exogenous DAN into rice. When the recipient plant has undergone meiosis, exogenous DNA is injected into the upermost internode of a stem, the position just under the panicle base. In the next generation (D1), variants are found at a rate from 10-3to 10-1.

  6. Modern Breeding and Biotechnological Approaches to Enhance Carotenoid Accumulation in Seeds.

    Science.gov (United States)

    Federico, M L; Schmidt, M A

    2016-01-01

    There is an increasing demand for carotenoids, which are fundamental components of the human diet, for example as precursors of vitamin A. Carotenoids are also potent antioxidants and their health benefits are becoming increasingly evident. Protective effects against prostate cancer and age-related macular degeneration have been proposed for lycopene and lutein/zeaxanthin, respectively. Additionally, β-carotene, astaxanthin and canthaxanthin are high-value carotenoids used by the food industry as feed supplements and colorants. The production and consumption of these carotenoids from natural sources, especially from seeds, constitutes an important step towards fortifying the diet of malnourished people in developing nations. Therefore, attempts to metabolically manipulate β-carotene production in plants have received global attention, especially after the generation of Golden Rice (Oryza sativa). The endosperms of Golden Rice seeds synthesize and accumulate large quantities of β-carotene (provitamin A), yielding a characteristic yellow color in the polished grains. Classical breeding efforts have also focused in the development of cultivars with elevated seed carotenoid content, with maize and other cereals leading the way. In this communication we will summarize transgenic efforts and modern breeding strategies to fortify various crop seeds with nutraceutical carotenoids. PMID:27485229

  7. Prostaglandins and its analogues : An approach for treatment of anoestrus and to enhance breeding efficiency

    Directory of Open Access Journals (Sweden)

    G B Dudhatra

    2012-12-01

    Full Text Available Cloprostenol is a synthetic prostaglandin F analogue. It is a FP (Prostaglandin F receptor agonist, which shows 2á powerful luteolytic effects. It also stimulates the contraction of uterine and bronchial smooth muscle and produces vasoconstriction in some vessels. Anoestrous may be due to some conditions like abnormal pregnancy, early pregnancy, pyometra, endometritis, retention of placenta, maceration and mummification. So, get rid of this conditions cloprostenol is widely used. It has been now in vogue to administer PGF or its analogue in early 2á postpartum cows and buffaloes in order to hasten early resumption of cyclic ovarian activity and thereby to increase the reproductive efficiency. To improve reproductive efficiency, it is necessary to inseminate cows early in the breeding season so that, thereby achieving a more compact calving season. Breeding efficiency is increased by means of synchronization of estrus, conception rate and pregnancy rate. Estrus synchronization can be achieved by lysis of corpus luteum by administration of prostaglandin (PGF or its synthetic analogue on 5-17 2á days of the estrus cycle. The cows will return to estrus within 3-5 days. The effective therapeutic doses for cloprostenol are 500 μg in cattle and 175 μg in pigs. However, for R-cloprostenol, the recommended doses are: 150 μg in cattle and 75 μg in pigs. In both cases, it is administered by the intramuscular route. [Vet. World 2012; 5(6.000: 378-384

  8. Physico-empirical approach for mapping soil hydraulic behaviour

    Directory of Open Access Journals (Sweden)

    G. D'Urso

    1997-01-01

    Full Text Available Abstract: Pedo-transfer functions are largely used in soil hydraulic characterisation of large areas. The use of physico-empirical approaches for the derivation of soil hydraulic parameters from disturbed samples data can be greatly enhanced if a characterisation performed on undisturbed cores of the same type of soil is available. In this study, an experimental procedure for deriving maps of soil hydraulic behaviour is discussed with reference to its application in an irrigation district (30 km2 in southern Italy. The main steps of the proposed procedure are: i the precise identification of soil hydraulic functions from undisturbed sampling of main horizons in representative profiles for each soil map unit; ii the determination of pore-size distribution curves from larger disturbed sampling data sets within the same soil map unit. iii the calibration of physical-empirical methods for retrieving soil hydraulic parameters from particle-size data and undisturbed soil sample analysis; iv the definition of functional hydraulic properties from water balance output; and v the delimitation of soil hydraulic map units based on functional properties.

  9. Changing energy-related behavior: An Intervention Mapping approach

    International Nuclear Information System (INIS)

    This paper's objective is to apply Intervention Mapping, a planning process for the systematic development of theory- and evidence-based health promotion interventions, to the development of interventions to promote energy conservation behavior. Intervention Mapping (IM) consists of six steps: needs assessment, program objectives, methods and applications, program development, planning for program implementation, and planning for program evaluation. Examples from the energy conservation field are provided to illustrate the activities associated with these steps. It is concluded that applying IM in the energy conservation field may help the development of effective behavior change interventions, and thus develop a domain specific knowledge-base for effective intervention design. - Highlights: → Intervention Mapping (IM) is a planning process for developing evidence-based interventions.→ IM takes a problem-driven rather than theory-driven approach. → IM can be applied to the promotion of energy-conservation in a multilevel approach. → IM helps identifying determinants of behaviors and environmental conditions. → IM helps selecting appropriate theory-based methods and practical applications.

  10. Organic Plant Breeding: Achievements, Opportunities, and Challenges

    OpenAIRE

    Horneburg, Bernd

    2011-01-01

    The objective of this article is to highlight some successful approaches to organic plant breeding and to encourage the organic movement to engage in an increasing number of organic breeding and organic breeding research projects.

  11. Landscape genomics and biased FST approaches reveal single nucleotide polymorphisms under selection in goat breeds of North-East Mediterranean

    Directory of Open Access Journals (Sweden)

    Joost Stephane

    2009-02-01

    Full Text Available Abstract Background In this study we compare outlier loci detected using a FST based method with those identified by a recently described method based on spatial analysis (SAM. We tested a panel of single nucleotide polymorphisms (SNPs previously genotyped in individuals of goat breeds of southern areas of the Mediterranean basin (Italy, Greece and Albania. We evaluate how the SAM method performs with SNPs, which are increasingly employed due to their high number, low cost and easy of scoring. Results The combined use of the two outlier detection approaches, never tested before using SNP polymorphisms, resulted in the identification of the same three loci involved in milk and meat quality data by using the two methods, while the FST based method identified 3 more loci as under selection sweep in the breeds examined. Conclusion Data appear congruent by using the two methods for FST values exceeding the 99% confidence limits. The methods of FST and SAM can independently detect signatures of selection and therefore can reduce the probability of finding false positives if employed together. The outlier loci identified in this study could indicate adaptive variation in the analysed species, characterized by a large range of climatic conditions in the rearing areas and by a history of intense trade, that implies plasticity in adapting to new environments.

  12. A filtering approach to edge preserving MAP estimation of images.

    Science.gov (United States)

    Humphrey, David; Taubman, David

    2011-05-01

    The authors present a computationally efficient technique for maximum a posteriori (MAP) estimation of images in the presence of both blur and noise. The image is divided into statistically independent regions. Each region is modelled with a WSS Gaussian prior. Classical Wiener filter theory is used to generate a set of convex sets in the solution space, with the solution to the MAP estimation problem lying at the intersection of these sets. The proposed algorithm uses an underlying segmentation of the image, and a means of determining the segmentation and refining it are described. The algorithm is suitable for a range of image restoration problems, as it provides a computationally efficient means to deal with the shortcomings of Wiener filtering without sacrificing the computational simplicity of the filtering approach. The algorithm is also of interest from a theoretical viewpoint as it provides a continuum of solutions between Wiener filtering and Inverse filtering depending upon the segmentation used. We do not attempt to show here that the proposed method is the best general approach to the image reconstruction problem. However, related work referenced herein shows excellent performance in the specific problem of demosaicing. PMID:21078580

  13. Breeding signature of combining ability improvement revealed by a genomic variation map from recurrent selection population in Brassica napus

    Science.gov (United States)

    Zhao, Xinwang; Li, Bao; Zhang, Ka; Hu, Kaining; Yi, Bin; Wen, Jing; Ma, Chaozhi; Shen, Jinxiong; Fu, Tingdong; Tu, Jinxing

    2016-01-01

    Combining ability is crucial for parent selection in crop hybrid breeding. The present investigation and results had revealed the underlying genetic factors which might contribute in adequate combining ability, further assisting in enhancing heterosis and stability. Here, we conducted a large-scale analysis of genomic variation in order to define genomic regions affecting the combining ability in recurrent selection population of rapeseed. A population of 175 individuals was genotyped with the Brassica60K SNP chip. 525 hybrids were assembled with three different testers and used to evaluate the general combining ability (GCA) in three environments. By detecting the changes of the genomic variation, we identified 376 potential genome regions, spanning 3.03% of rapeseed genome which provided QTL-level resolution on potentially selected variants. More than 96% of these regions were located in the C subgenome, indicating that C subgenome had sustained stronger selection pressure in the breeding program than the A subgenome. In addition, a high level of linkage disequilibrium in rapeseed genome was detected, suggesting that marker-assisted selection for the population improvement might be easily implemented. This study outlines the evidence for high GCA on a genomic level and provided underlying molecular mechanism for recurrent selection improvement in B. napus. PMID:27412721

  14. Breeding signature of combining ability improvement revealed by a genomic variation map from recurrent selection population in Brassica napus.

    Science.gov (United States)

    Zhao, Xinwang; Li, Bao; Zhang, Ka; Hu, Kaining; Yi, Bin; Wen, Jing; Ma, Chaozhi; Shen, Jinxiong; Fu, Tingdong; Tu, Jinxing

    2016-01-01

    Combining ability is crucial for parent selection in crop hybrid breeding. The present investigation and results had revealed the underlying genetic factors which might contribute in adequate combining ability, further assisting in enhancing heterosis and stability. Here, we conducted a large-scale analysis of genomic variation in order to define genomic regions affecting the combining ability in recurrent selection population of rapeseed. A population of 175 individuals was genotyped with the Brassica60K SNP chip. 525 hybrids were assembled with three different testers and used to evaluate the general combining ability (GCA) in three environments. By detecting the changes of the genomic variation, we identified 376 potential genome regions, spanning 3.03% of rapeseed genome which provided QTL-level resolution on potentially selected variants. More than 96% of these regions were located in the C subgenome, indicating that C subgenome had sustained stronger selection pressure in the breeding program than the A subgenome. In addition, a high level of linkage disequilibrium in rapeseed genome was detected, suggesting that marker-assisted selection for the population improvement might be easily implemented. This study outlines the evidence for high GCA on a genomic level and provided underlying molecular mechanism for recurrent selection improvement in B. napus. PMID:27412721

  15. A Multi-Dasymetric Mapping Approach for Tourism

    Directory of Open Access Journals (Sweden)

    Eric Vaz

    2013-12-01

    Full Text Available The challenge of measuring at municipal level tourism density has been a daunting task for both statisticians and geographers. The reason of this is enforced by the fact that administrative areas, such as municipalities, tend to be large spatial administrative units, sharing a large demographic asymmetry of tourist demand within the municipality. The rationale is that geographic characteristics such as coastal line, climate and vegetation, play a crucial role in tourist offer, leaning towards the conclusion that traditional census at administrative level are simply not enough to interpret the true distribution of tourism data. A more quantifiable method is necessary to assess the distribution of socio-economic data. This is developed by means of a dasymetric approach adding on the advantages of multi-temporal comparison. This paper adopts a dasymetric approach for defining tourism density per land use types using the CORINE Land Cover dataset. A density map for tourism is calculated, creating a modified areal weighting (MAW approach to assess the distribution of tourism density per administrative municipality. This distribution is then assessed as a bidirectional layer on the land use datasets for two temporal stamps: 2000 and 2006, which leads to (i a consistent map on a more accurate distribution of tourism in Algarve, (ii the calculation of tourism density surfaces, and (iii a multi-locational and temporal assessment through density crosstabulation. Finally a geovisual interpretation of locational analysis of tourism change in Algarve for the last decade is created. This integrative spatial methodology offers unique characteristics for more accurate decision making at regional level, bringing an integrative methodology to the forefront of linking tourism with the spatio-temporal clusters formed in rapidly changing economic regions.

  16. Genetic map construction and quantitative trait locus (QTL detection of growth-related traits in Litopenaeus vannamei for selective breeding applications.

    Directory of Open Access Journals (Sweden)

    Farafidy Andriantahina

    Full Text Available Growth is a priority trait from the point of view of genetic improvement. Molecular markers linked to quantitative trait loci (QTL have been regarded as useful for marker-assisted selection (MAS in complex traits as growth. Using an intermediate F2 cross of slow and fast growth parents, a genetic linkage map of Pacific whiteleg shrimp, Litopenaeusvannamei, based on amplified fragment length polymorphisms (AFLP and simple sequence repeats (SSR markers was constructed. Meanwhile, QTL analysis was performed for growth-related traits. The linkage map consisted of 451 marker loci (429 AFLPs and 22 SSRs which formed 49 linkage groups with an average marker space of 7.6 cM; they spanned a total length of 3627.6 cM, covering 79.50% of estimated genome size. 14 QTLs were identified for growth-related traits, including three QTLs for body weight (BW, total length (TL and partial carapace length (PCL, two QTLs for body length (BL, one QTL for first abdominal segment depth (FASD, third abdominal segment depth (TASD and first abdominal segment width (FASW, which explained 2.62 to 61.42% of phenotypic variation. Moreover, comparison of linkage maps between L. vannamei and Penaeusjaponicus was applied, providing a new insight into the genetic base of QTL affecting the growth-related traits. The new results will be useful for conducting MAS breeding schemes in L. vannamei .

  17. Development of high-density genetic maps for barley and wheat using a novel two-enzyme genotyping-by-sequencing approach.

    Directory of Open Access Journals (Sweden)

    Jesse A Poland

    Full Text Available Advancements in next-generation sequencing technology have enabled whole genome re-sequencing in many species providing unprecedented discovery and characterization of molecular polymorphisms. There are limitations, however, to next-generation sequencing approaches for species with large complex genomes such as barley and wheat. Genotyping-by-sequencing (GBS has been developed as a tool for association studies and genomics-assisted breeding in a range of species including those with complex genomes. GBS uses restriction enzymes for targeted complexity reduction followed by multiplex sequencing to produce high-quality polymorphism data at a relatively low per sample cost. Here we present a GBS approach for species that currently lack a reference genome sequence. We developed a novel two-enzyme GBS protocol and genotyped bi-parental barley and wheat populations to develop a genetically anchored reference map of identified SNPs and tags. We were able to map over 34,000 SNPs and 240,000 tags onto the Oregon Wolfe Barley reference map, and 20,000 SNPs and 367,000 tags on the Synthetic W9784 × Opata85 (SynOpDH wheat reference map. To further evaluate GBS in wheat, we also constructed a de novo genetic map using only SNP markers from the GBS data. The GBS approach presented here provides a powerful method of developing high-density markers in species without a sequenced genome while providing valuable tools for anchoring and ordering physical maps and whole-genome shotgun sequence. Development of the sequenced reference genome(s will in turn increase the utility of GBS data enabling physical mapping of genes and haplotype imputation of missing data. Finally, as a result of low per-sample costs, GBS will have broad application in genomics-assisted plant breeding programs.

  18. Teaching population health: a competency map approach to education.

    Science.gov (United States)

    Kaprielian, Victoria S; Silberberg, Mina; McDonald, Mary Anne; Koo, Denise; Hull, Sharon K; Murphy, Gwen; Tran, Anh N; Sheline, Barbara L; Halstater, Brian; Martinez-Bianchi, Viviana; Weigle, Nancy J; de Oliveira, Justine Strand; Sangvai, Devdutta; Copeland, Joyce; Tilson, Hugh H; Scutchfield, F Douglas; Michener, J Lloyd

    2013-05-01

    A 2012 Institute of Medicine report is the latest in the growing number of calls to incorporate a population health approach in health professionals' training. Over the last decade, Duke University, particularly its Department of Community and Family Medicine, has been heavily involved with community partners in Durham, North Carolina, to improve the local community's health. On the basis of these initiatives, a group of interprofessional faculty began tackling the need to fill the curriculum gap to train future health professionals in public health practice, community engagement, critical thinking, and team skills to improve population health effectively in Durham and elsewhere. The Department of Community and Family Medicine has spent years in care delivery redesign and curriculum experimentation, design, and evaluation to distinguish the skills trainees and faculty need for population health improvement and to integrate them into educational programs. These clinical and educational experiences have led to a set of competencies that form an organizational framework for curricular planning and training. This framework delineates which learning objectives are appropriate and necessary for each learning level, from novice through expert, across multiple disciplines and domains. The resulting competency map has guided Duke's efforts to develop, implement, and assess training in population health for learners and faculty. In this article, the authors describe the competency map development process as well as examples of its application and evaluation at Duke and limitations to its use with the hope that other institutions will apply it in different settings. PMID:23524919

  19. Pedigree genotyping: a new pedigree-based approach of QTL identification and allele mining by exploiting breeding material

    OpenAIRE

    Weg, van de, H; Voorrips, R. E.; Finkers, H. J.; Kodde, L.P.; Meulenbroek, E.J.; Jansen, J; Bink, M.C.A.M.

    2005-01-01

    To date, molecular markers have been made available for many economically important traits. Unfortunately, lack of knowledge of their allelic variation hampers their full exploitation in commercial breeding programs. These markers have usually been identified in one single cross. Consequently, only one or two favourable alleles of the related QTL are identified and may be exploited for marker-assisted breeding (MAB), while a breeding program may include several alleles. Selection for only the...

  20. Mapping site-based construction workers’ motivation: Expectancy theory approach

    Directory of Open Access Journals (Sweden)

    Parviz Ghoddousi

    2014-03-01

    Full Text Available The aim of this study is to apply a recently proposed model of motivation based on expectancy theory to site-based workers in the construction context and confirm the validity of this model for the construction industry. The study drew upon data from 194 site-based construction workers in Iran to test the proposed model of motivation. To this end, the structural equation modelling (SEM approach based on the confirmatory factor analysis (CFA technique was deployed. The study reveals that the proposed model of expectancy theory incorporating five indicators (i.e. intrinsic instrumentality, extrinsic instrumentality, intrinsic valence, extrinsic valence and expectancy is able to map the process of construction workers’ motivation. Nonetheless, the findings posit that intrinsic indicators could be more effective than extrinsic ones. This proffers the necessity of construction managers placing further focus on intrinsic motivators to motivate workers. 

  1. Mapping site-based construction workers’ motivation: Expectancy theory approach

    Directory of Open Access Journals (Sweden)

    Parviz Ghoddousi

    2014-03-01

    Full Text Available The aim of this study is to apply a recently proposed model of motivation based on expectancy theory to site-based workers in the construction context and confirm the validity of this model for the construction industry. The study drew upon data from 194 site-based construction workers in Iran to test the proposed model of motivation. To this end, the structural equation modelling (SEM approach based on the confirmatory factor analysis (CFA technique was deployed. The study reveals that the proposed model of expectancy theory incorporating five indicators (i.e. intrinsic instrumentality, extrinsic instrumentality, intrinsic valence, extrinsic valence and expectancy is able to map the process of construction workers’ motivation. Nonetheless, the findings posit that intrinsic indicators could be more effective than extrinsic ones. This proffers the necessity of construction managers placing further focus on intrinsic motivators to motivate workers.

  2. A road map for the realization of global-scale thorium breeding fuel cycle by single molten-fluoride flow

    International Nuclear Information System (INIS)

    For global survival in this century, we urgently need to launch a completely new global nuclear fission industry. To get worldwide public acceptance of nuclear energy, improvements are essential not only on safety, radio-waste management and economy but also especially nuclear proliferation resistance and safeguards. However, such global fission industry cannot replace the present fossil fuel industry in the next 50 years, unless the doubling-time of nuclear energy is less than 10 years, preferably 5-7 years. Such a doubling-time cannot be established by any kind of classical 'Fission Breeding Power Station' concept. We need a symbiotic system which couples fission power reactors with a system which can convert fertile thorium to fissile U-233, such as a spallation or D/T fusion (if and when it becomes available). For such a purpose, THORIMS-NES [Thorium Molten-Salt Nuclear Energy Synergetic System] has been proposed, which is composed of simple thermal fission power stations (FUJI) and fissile producing Accelerator Molten-Salt Breeder (AMSB). Its system functions are very ambitious, delicate and complex, but can be realized in the form of simple hardware applying the multifunctional 'single-phase molten-fluoride' circulation system. This system has no difficulties relating with 'radiation-damage', 'heat-removal' and 'chemical processing' owing to the simple 'idealistic ionic liquid' character. FUJI is size-flexible (economical even in smaller sizes), fuel self-sustaining without any continuous chemical processing and without core-graphite replacement, and AMSB is based on a single-fluid molten-salt target/blanket concept, which solves most engineering difficulties such as radiation-damage, heat-removal etc., except high-current proton accelerator development. Several AMSBs are accommodated in the regional centers (several ten sites in the world) with batch chemical processing plants including radio-waste management. The integrated thorium breeding fuel cycle is

  3. Uncertainty propagation in a cascade modelling approach to flood mapping

    Directory of Open Access Journals (Sweden)

    J. P. Rodríguez-Rincón

    2014-07-01

    Full Text Available The purpose of this investigation is to study the propagation of meteorological uncertainty within a cascade modelling approach to flood mapping. The methodology is comprised of a Numerical Weather Prediction Model (NWP, a distributed rainfall–runoff model and a standard 2-D hydrodynamic model. The cascade of models is used to reproduce an extreme flood event that took place in the Southeast of Mexico, during November 2009. The event is selected as high quality field data (e.g. rain gauges; discharge and satellite imagery are available. Uncertainty in the meteorological model (Weather Research and Forecasting model is evaluated through the use of a multi-physics ensemble technique, which considers twelve parameterization schemes to determine a given precipitation. The resulting precipitation fields are used as input in a distributed hydrological model, enabling the determination of different hydrographs associated to this event. Lastly, by means of a standard 2-D hydrodynamic model, hydrographs are used as forcing conditions to study the propagation of the meteorological uncertainty to an estimated flooded area. Results show the utility of the selected modelling approach to investigate error propagation within a cascade of models. Moreover, the error associated to the determination of the runoff, is showed to be lower than that obtained in the precipitation estimation suggesting that uncertainty do not necessarily increase within a model cascade.

  4. Uncertainty propagation in a cascade modelling approach to flood mapping

    Science.gov (United States)

    Rodríguez-Rincón, J. P.; Pedrozo-Acuña, A.; Breña Naranjo, J. A.

    2014-07-01

    The purpose of this investigation is to study the propagation of meteorological uncertainty within a cascade modelling approach to flood mapping. The methodology is comprised of a Numerical Weather Prediction Model (NWP), a distributed rainfall-runoff model and a standard 2-D hydrodynamic model. The cascade of models is used to reproduce an extreme flood event that took place in the Southeast of Mexico, during November 2009. The event is selected as high quality field data (e.g. rain gauges; discharge) and satellite imagery are available. Uncertainty in the meteorological model (Weather Research and Forecasting model) is evaluated through the use of a multi-physics ensemble technique, which considers twelve parameterization schemes to determine a given precipitation. The resulting precipitation fields are used as input in a distributed hydrological model, enabling the determination of different hydrographs associated to this event. Lastly, by means of a standard 2-D hydrodynamic model, hydrographs are used as forcing conditions to study the propagation of the meteorological uncertainty to an estimated flooded area. Results show the utility of the selected modelling approach to investigate error propagation within a cascade of models. Moreover, the error associated to the determination of the runoff, is showed to be lower than that obtained in the precipitation estimation suggesting that uncertainty do not necessarily increase within a model cascade.

  5. Mapping of multi-floor buildings: A barometric approach

    DEFF Research Database (Denmark)

    Özkil, Ali Gürcan; Fan, Zhun; Xiao, Jizhong; Dawids, Steen; Kristensen, Jens Klæstrup; Christensen, Kim Hardam

    This paper presents a new method for mapping multi5floor buildings. The method combines laser range sensor for metric mapping and barometric pressure sensor for detecting floor transitions and map segmentation. We exploit the fact that the barometric pressure is a function of the elevation, and i...

  6. Data management for genomic mapping applications: A case study

    Energy Technology Data Exchange (ETDEWEB)

    Markowitz, V.M.; Lewis, S.; McCarthy, J.; Olken, F.; Zorn, M.

    1992-05-01

    In this paper we describe a new approach to the construction of data management systems for genomic mapping applications in molecular biology, genetics, and plant breeding. We discuss the architecture of such systems and propose an incremental approach to the development of such systems. We illustrate the proposed approach and architecture with a case study of a prototype data management system for genomic maps.

  7. A Direct Comparison of Remote Sensing Approaches for High-Throughput Phenotyping in Plant Breeding

    Science.gov (United States)

    Tattaris, Maria; Reynolds, Matthew P.; Chapman, Scott C.

    2016-01-01

    Remote sensing (RS) of plant canopies permits non-intrusive, high-throughput monitoring of plant physiological characteristics. This study compared three RS approaches using a low flying UAV (unmanned aerial vehicle), with that of proximal sensing, and satellite-based imagery. Two physiological traits were considered, canopy temperature (CT) and a vegetation index (NDVI), to determine the most viable approaches for large scale crop genetic improvement. The UAV-based platform achieves plot-level resolution while measuring several hundred plots in one mission via high-resolution thermal and multispectral imagery measured at altitudes of 30–100 m. The satellite measures multispectral imagery from an altitude of 770 km. Information was compared with proximal measurements using IR thermometers and an NDVI sensor at a distance of 0.5–1 m above plots. For robust comparisons, CT and NDVI were assessed on panels of elite cultivars under irrigated and drought conditions, in different thermal regimes, and on un-adapted genetic resources under water deficit. Correlations between airborne data and yield/biomass at maturity were generally higher than equivalent proximal correlations. NDVI was derived from high-resolution satellite imagery for only larger sized plots (8.5 × 2.4 m) due to restricted pixel density. Results support use of UAV-based RS techniques for high-throughput phenotyping for both precision and efficiency. PMID:27536304

  8. QTLs for tolerance of drought and breeding for tolerance of abiotic and biotic stress: an integrated approach.

    Directory of Open Access Journals (Sweden)

    Shalabh Dixit

    Full Text Available BACKGROUND: The coupling of biotic and abiotic stresses leads to high yield losses in rainfed rice (Oryza sativa L. growing areas. While several studies target these stresses independently, breeding strategies to combat multiple stresses seldom exist. This study reports an integrated strategy that combines QTL mapping and phenotypic selection to develop rice lines with high grain yield (GY under drought stress and non-stress conditions, and tolerance of rice blast. METHODOLOGY: A blast-tolerant BC2F3-derived population was developed from the cross of tropical japonica cultivar Moroberekan (blast- and drought-tolerant and high-yielding indica variety Swarna (blast- and drought-susceptible through phenotypic selection for blast tolerance at the BC2F2 generation. The population was studied for segregation distortion patterns and QTLs for GY under drought were identified along with study of epistatic interactions for the trait. RESULTS: Segregation distortion, in favour of Moroberekan, was observed at 50 of the 59 loci. Majority of these marker loci co-localized with known QTLs for blast tolerance or NBS-LRR disease resistance genes. Despite the presence of segregation distortion, high variation for DTF, PH and GY was observed and several QTLs were identified under drought stress and non-stress conditions for the three traits. Epistatic interactions were also detected for GY which explained a large proportion of phenotypic variance observed in the population. CONCLUSIONS: This strategy allowed us to identify QTLs for GY along with rapid development of high-yielding purelines tolerant to blast and drought with considerably reduced efforts. Apart from this, it also allowed us to study the effects of the selection cycle for blast tolerance. The developed lines were screened at IRRI and in the target environment, and drought and blast tolerant lines with high yield were identified. With tolerance to two major stresses and high yield potential, these

  9. Phylogeographical approaches to assessing demographic connectivity between breeding and overwintering regions in a Nearctic-Neotropical warbler (Wilsonia pusilla).

    Science.gov (United States)

    Kimura, M; Clegg, S M; Lovette, I J; Holder, K R; Girman, D J; Milá, B; Wade, P; Smith, T B

    2002-09-01

    We characterized the pattern and magnitude of phylogeographical variation among breeding populations of a long-distance migratory bird, the Wilson's warbler (Wilsonia pusilla), and used this information to assess the utility of mtDNA markers for assaying demographic connectivity between breeding and overwintering regions. We found a complex pattern of population differentiation in mitochondrial DNA (mtDNA) variation among populations across the breeding range. Individuals from eastern North America were differentiated from western individuals and the eastern haplotypes formed a distinct, well-supported cluster. The more diverse western group contained haplotype clusters with significant geographical structuring, but there was also broad mixing of haplotype groups such that no haplotype groups were population specific and the predominance of rare haplotypes limited the utility of frequency-based assignment techniques. Nonetheless, the existence of geographically diagnosable eastern vs. western haplotypes enabled us to characterize the distribution of these two groups across 14 overwintering locations. Western haplotypes were present at much higher frequencies than eastern haplotypes at most overwintering sites. Application of this mtDNA-based method of linking breeding and overwintering populations on a finer geographical scale was precluded by the absence of population-specific markers and by insufficient haplotype sorting among western breeding populations. Our results suggest that because migratory species such as the Wilson's warbler likely experienced extensive gene flow among regional breeding populations, molecular markers will have the greatest utility for characterizing breeding-overwintering connectivity at a broad geographical scale. PMID:12207712

  10. Breeding programme and infrastructure

    OpenAIRE

    Zonabend König, Emelie

    2016-01-01

    The aim of this thesis was to study potential breeding strategies for indigenous livestock in Eastern and Southern Africa under low input production systems. The thesis covered a study of the status of supportive infrastructure for use of animal genetic resources. The case of Red Maasai sheep was studied as a model for design of strategies for improvement of an indigenous breed under threat. Studies [I-II] were performed through participatory approaches by use of structured interviews, while ...

  11. An approach to breeding for higher protein content in bread wheat

    International Nuclear Information System (INIS)

    This study deals with the development of a suitable experimental approach for improving the protein content of seeds in bread wheat. It has been found that scoring of protein content on a per seed basis rather than as a percentage of seed weight gives better results. In the first place, the heritability of protein content increases nearly three times when scoring is done on the basis of seed number. Also, protein content scored in this way showed a significant positive correlation with seed size. Correlation between seed size and percentage of protein in the seed is negative. An important implication of these findings is that scoring of protein content on the basis of seed number should help to avoid selection of genotypes showing reduced starch synthesis and, therefore, a lower yield of grains as well as protein on a per acre basis. Also, the observations suggest that selection for larger seed size may be an important means of improving the protein content of wheat. These and other implications are discussed. (author)

  12. Artificial Neural Network Approach for Mapping Contrasting Tillage Practices

    Directory of Open Access Journals (Sweden)

    Terry Howell

    2010-02-01

    Full Text Available Tillage information is crucial for environmental modeling as it directly affects evapotranspiration, infiltration, runoff, carbon sequestration, and soil losses due to wind and water erosion from agricultural fields. However, collecting this information can be time consuming and costly. Remote sensing approaches are promising for rapid collection of tillage information on individual fields over large areas. Numerous regression-based models are available to derive tillage information from remote sensing data. However, these models require information about the complex nature of underlying watershed characteristics and processes. Unlike regression-based models, Artificial Neural Network (ANN provides an efficient alternative to map complex nonlinear relationships between an input and output datasets without requiring a detailed knowledge of underlying physical relationships. Limited or no information currently exist quantifying ability of ANN models to identify contrasting tillage practices from remote sensing data. In this study, a set of Landsat TM-based ANN models was developed to identify contrasting tillage practices in the Texas High Plains. Observed tillage data from Moore and Ochiltree Counties were used to develop and evaluate the models, respectively. The overall classification accuracy for the 15 models developed with the Moore County dataset varied from 74% to 91%. Statistical evaluation of these models against the Ochiltree County dataset produced results with an overall classification accuracy varied from 66% to 80%. The ANN models based on TM band 5 or indices of TM Band 5 may provide consistent and accurate tillage information when applied to the Texas High Plains.

  13. An optimization approach for extracting and encoding consistent maps in a shape collection

    KAUST Repository

    Huang, Qi-Xing

    2012-11-01

    We introduce a novel approach for computing high quality point-topoint maps among a collection of related shapes. The proposed approach takes as input a sparse set of imperfect initial maps between pairs of shapes and builds a compact data structure which implicitly encodes an improved set of maps between all pairs of shapes. These maps align well with point correspondences selected from initial maps; they map neighboring points to neighboring points; and they provide cycle-consistency, so that map compositions along cycles approximate the identity map. The proposed approach is motivated by the fact that a complete set of maps between all pairs of shapes that admits nearly perfect cycleconsistency are highly redundant and can be represented by compositions of maps through a single base shape. In general, multiple base shapes are needed to adequately cover a diverse collection. Our algorithm sequentially extracts such a small collection of base shapes and creates correspondences from each of these base shapes to all other shapes. These correspondences are found by global optimization on candidate correspondences obtained by diffusing initial maps. These are then used to create a compact graphical data structure from which globally optimal cycle-consistent maps can be extracted using simple graph algorithms. Experimental results on benchmark datasets show that the proposed approach yields significantly better results than state-of-theart data-driven shape matching methods. © 2012 ACM.

  14. Mapping of multi-floor buildings: A barometric approach

    DEFF Research Database (Denmark)

    Özkil, Ali Gürcan; Fan, Zhun; Xiao, Jizhong;

    2011-01-01

    This paper presents a new method for mapping multi5floor buildings. The method combines laser range sensor for metric mapping and barometric pressure sensor for detecting floor transitions and map segmentation. We exploit the fact that the barometric pressure is a function of the elevation, and it...... varies between different floors. The method is tested with a real robot in a typical indoor environment, and the results show that physically consistent multi5floor representations are achievable....

  15. A faster and economical approach to floodplain mapping using the SSURGO soil database

    Science.gov (United States)

    Sangwan, N.; Merwade, V.

    2014-12-01

    Floods are the most damaging of all natural disasters, adversely affecting millions of lives and causing financial losses worth billions of dollars every year across the globe. Flood inundation maps play a key role in the assessment and mitigation of potential flood hazards. However, there are several communities in the United States where flood risk maps are not available due to the lack of the resources needed to create such maps through the conventional modeling approach. The objective of this study is to develop and examine an economical alternative approach to floodplain mapping using widely available SSURGO soil data in the United States. By using the state of Indiana as a test case, floodplain maps are developed for the entire state by identifying the flood-prone soil map units based on their attributes recorded in the SSURGO database. For validation, the flood extents obtained from the soil data are compared with the extents predicted by other floodplain maps, including the Federal Emergency Management Agency (FEMA) issued Flood Insurance Rate Maps (FIRM), flood extents observed during past floods, and other flood maps derived using Digital Elevation Models (DEMs). In general, SSURGO based floodplain maps are found to be largely in agreement with flood inundation maps created by FEMA. Comparison between the FEMA maps and the SSURGO derived floodplain maps show an overlap ranging from 65 to 90 percent. Similar results are also found when the SSURGO derived floodplain maps are compared with FEMA maps for recent flood events in other states including Minnesota, Washington and Wisconsin. Although not in perfect conformance with reference flood maps, the SSURGO soil data approach offers an economical and faster alternative to floodplain mapping in areas where detailed flood modeling and mapping has not been conducted.

  16. Quantitative Architectural Analysis: A New Approach to Cortical Mapping

    Science.gov (United States)

    Schleicher, Axel; Morosan, Patricia; Amunts, Katrin; Zilles, Karl

    2009-01-01

    Results from functional imaging studies are often still interpreted using the classical architectonic brain maps of Brodmann and his successors. One obvious weakness in traditional, architectural mapping is the subjective nature of localizing borders between cortical areas by means of a purely visual, microscopical examination of histological…

  17. Mapping dominant runoff processes: an evaluation of different approaches using similarity measures and synthetic runoff simulations

    Science.gov (United States)

    Antonetti, M.; Buss, R.; Scherrer, S.; Margreth, M.; Zappa, M.

    2015-12-01

    The identification of landscapes with similar hydrological behaviour is useful for runoff predictions in small ungauged catchments. An established method for landscape classification is based on the concept of dominant runoff process (DRP). The various DRP mapping approaches differ with respect to the time and data required for mapping. Manual approaches based on expert knowledge are reliable but time-consuming, whereas automatic GIS-based approaches are easier to implement but rely on simplifications which restrict their application range. To what extent these simplifications are applicable in other catchments is unclear. More information is also needed on how the different complexity of automatic DRP mapping approaches affects hydrological simulations. In this paper, three automatic approaches were used to map two catchments on the Swiss Plateau. The resulting maps were compared to reference maps obtained with manual mapping. Measures of agreement and association, a class comparison and a deviation map were derived. The automatically derived DRP-maps were used in synthetic runoff simulations with an adapted version of the hydrological model PREVAH, and simulation results compared with those from simulations using the reference maps. The DRP-maps derived with the automatic approach with highest complexity and data requirement were the most similar to the reference maps, while those derived with simplified approaches without original soil information differed significantly in terms of both extent and distribution of the DRPs. The runoff simulations derived from the simpler DRP-maps were more uncertain due to inaccuracies in the input data and their coarse resolution, but problems were also linked with the use of topography as a proxy for the storage capacity of soils. The perception of the intensity of the DRP classes also seems to vary among the different authors, and a standardised definition of DRPs is still lacking. We therefore recommend not only using expert

  18. Mapping dominant runoff processes: an evaluation of different approaches using similarity measures and synthetic runoff simulations

    Science.gov (United States)

    Antonetti, Manuel; Buss, Rahel; Scherrer, Simon; Margreth, Michael; Zappa, Massimiliano

    2016-07-01

    The identification of landscapes with similar hydrological behaviour is useful for runoff and flood predictions in small ungauged catchments. An established method for landscape classification is based on the concept of dominant runoff process (DRP). The various DRP-mapping approaches differ with respect to the time and data required for mapping. Manual approaches based on expert knowledge are reliable but time-consuming, whereas automatic GIS-based approaches are easier to implement but rely on simplifications which restrict their application range. To what extent these simplifications are applicable in other catchments is unclear. More information is also needed on how the different complexities of automatic DRP-mapping approaches affect hydrological simulations. In this paper, three automatic approaches were used to map two catchments on the Swiss Plateau. The resulting maps were compared to reference maps obtained with manual mapping. Measures of agreement and association, a class comparison, and a deviation map were derived. The automatically derived DRP maps were used in synthetic runoff simulations with an adapted version of the PREVAH hydrological model, and simulation results compared with those from simulations using the reference maps. The DRP maps derived with the automatic approach with highest complexity and data requirement were the most similar to the reference maps, while those derived with simplified approaches without original soil information differed significantly in terms of both extent and distribution of the DRPs. The runoff simulations derived from the simpler DRP maps were more uncertain due to inaccuracies in the input data and their coarse resolution, but problems were also linked with the use of topography as a proxy for the storage capacity of soils. The perception of the intensity of the DRP classes also seems to vary among the different authors, and a standardised definition of DRPs is still lacking. Furthermore, we argue not to use

  19. Exploiting Surroundedness for Saliency Detection: A Boolean Map Approach.

    Science.gov (United States)

    Zhang, Jianming; Sclaroff, Stan

    2016-05-01

    We demonstrate the usefulness of surroundedness for eye fixation prediction by proposing a Boolean Map based Saliency model (BMS). In our formulation, an image is characterized by a set of binary images, which are generated by randomly thresholding the image's feature maps in a whitened feature space. Based on a Gestalt principle of figure-ground segregation, BMS computes a saliency map by discovering surrounded regions via topological analysis of Boolean maps. Furthermore, we draw a connection between BMS and the Minimum Barrier Distance to provide insight into why and how BMS can properly captures the surroundedness cue via Boolean maps. The strength of BMS is verified by its simplicity, efficiency and superior performance compared with 10 state-of-the-art methods on seven eye tracking benchmark datasets. PMID:26336114

  20. Stakeholder approach, Stakeholders mental model: A visualization test with cognitive mapping technique

    OpenAIRE

    Garoui Nassreddine; Jarboui Anis

    2012-01-01

    The idea of this paper is to determine the mental models of actors in the firm with respect to the stakeholder approach of corporate governance. The use of the cognitive map to view these diagrams to show the ways of thinking and conceptualization of the stakeholder approach. The paper takes a corporate governance perspective, discusses stakeholder model. It takes also a cognitive mapping technique.

  1. Development of Mapping Populations for Avocado.

    Science.gov (United States)

    A saturated genetic linkage map can aid greatly in efforts to improve avocado (Persea Americana Mill.) via breeding using a Marker Assisted Selection (MAS) approach. A genetic linkage map for avocado can be generated using molecular genetic markers and a known family structure. Currently, approximat...

  2. Stochastic Mappings and Random Distribution Fields. A Correlation Approach

    OpenAIRE

    Gaspar, Pastorel; Popa, Lorena

    2014-01-01

    This paper contains a study of multivariate second order stochastic mappings indexed by an abstract set $\\Lambda$ in close connection to their operator covariance functions. The characterizations of the normal Hilbert module or of Hilbert spaces associated to such a multivariate second order stochastic mapping in terms of reproducing kernel structures are given, aiming not only to gather into a unified way some concepts from the field, but also to indicate an instrument for extending the very...

  3. Changing energy-related behavior: An Intervention Mapping approach

    OpenAIRE

    Kok, G.; Lo, S.H.; Peters, G-JY; Ruiter, R. A. C.

    2011-01-01

    This paper's objective is to apply Intervention Mapping, a planning process for the systematic development of theory- and evidence-based health promotion interventions, to the development of interventions to promote energy conservation behavior. Intervention Mapping (IM) consists of six steps: needs assessment, program objectives, methods and applications, program development, planning for program implementation, and planning for program evaluation. Examples from the energy conservation field...

  4. Cognitive maps in spatial economics: A multidisciplinary approach

    OpenAIRE

    Nathalie GAUSSIER (GRES-IFReDE-IERSO); Philippe LAROQUE ETIS neurocybernetics team (UMR CNRS 8051); Nicolas CUPERLIER ETIS neurocybernetics team (UMR CNRS 8051); Mathias QUOY ETIS neurocybernetics team (UMR CNRS 8051); Sorin MOGA ENST Brest; Philippe GAUSSIER ETIS neurocybernetics team (UMR CNRS 8051)

    2005-01-01

    If mental maps are a well-known subject in spatial analysis, they suffer from the difficulties to make them an operational concept. Nowadays, the development of cognitive science opens up new perspectives. Thanks to an association of spatial economists, roboticists and computer scientists in the context of a CNRS project “Geomatics, Space, Territories and Mobilities”, we show that it is possible to simulate cognitive maps that fit both with non-metric and situated properties. The paper works ...

  5. A Bayesian Nonparametric Approach for Mapping Dynamic Quantitative Traits

    OpenAIRE

    Li, Zitong; Sillanpää, Mikko J.

    2013-01-01

    In biology, many quantitative traits are dynamic in nature. They can often be described by some smooth functions or curves. A joint analysis of all the repeated measurements of the dynamic traits by functional quantitative trait loci (QTL) mapping methods has the benefits to (1) understand the genetic control of the whole dynamic process of the quantitative traits and (2) improve the statistical power to detect QTL. One crucial issue in functional QTL mapping is how to correctly describe the ...

  6. Prioritising coastal zone management issues through fuzzy cognitive mapping approach.

    Science.gov (United States)

    Meliadou, Aleka; Santoro, Francesca; Nader, Manal R; Dagher, Manale Abou; Al Indary, Shadi; Salloum, Bachir Abi

    2012-04-30

    Effective public participation is an essential component of Integrated Coastal Zone Management implementation. To promote such participation, a shared understanding of stakeholders' objectives has to be built to ultimately result in common coastal management strategies. The application of quantitative and semi-quantitative methods involving tools such as Fuzzy Cognitive Mapping is presently proposed for reaching such understanding. In this paper we apply the Fuzzy Cognitive Mapping tool to elucidate the objectives and priorities of North Lebanon's coastal productive sectors, and to formalize their coastal zone perceptions and knowledge. Then, we investigate the potential of Fuzzy Cognitive Mapping as tool for support coastal zone management. Five round table discussions were organized; one for the municipalities of the area and one for each of the main coastal productive sectors (tourism, industry, fisheries, agriculture), where the participants drew cognitive maps depicting their views. The analysis of the cognitive maps showed a large number of factors perceived as affecting the current situation of the North Lebanon coastal zone that were classified into five major categories: governance, infrastructure, environment, intersectoral interactions and sectoral initiatives. Furthermore, common problems, expectations and management objectives for all sectors were exposed. Within this context, Fuzzy Cognitive Mapping proved to be an essential tool for revealing stakeholder knowledge and perception and understanding complex relationships. PMID:22325583

  7. Comparative genomics and association mapping approaches for blast resistant genes in finger millet using SSRs.

    Directory of Open Access Journals (Sweden)

    B Kalyana Babu

    Full Text Available The major limiting factor for production and productivity of finger millet crop is blast disease caused by Magnaporthe grisea. Since, the genome sequence information available in finger millet crop is scarce, comparative genomics plays a very important role in identification of genes/QTLs linked to the blast resistance genes using SSR markers. In the present study, a total of 58 genic SSRs were developed for use in genetic analysis of a global collection of 190 finger millet genotypes. The 58 SSRs yielded ninety five scorable alleles and the polymorphism information content varied from 0.186 to 0.677 at an average of 0.385. The gene diversity was in the range of 0.208 to 0.726 with an average of 0.487. Association mapping for blast resistance was done using 104 SSR markers which identified four QTLs for finger blast and one QTL for neck blast resistance. The genomic marker RM262 and genic marker FMBLEST32 were linked to finger blast disease at a P value of 0.007 and explained phenotypic variance (R² of 10% and 8% respectively. The genomic marker UGEP81 was associated to finger blast at a P value of 0.009 and explained 7.5% of R². The QTLs for neck blast was associated with the genomic SSR marker UGEP18 at a P value of 0.01, which explained 11% of R². Three QTLs for blast resistance were found common by using both GLM and MLM approaches. The resistant alleles were found to be present mostly in the exotic genotypes. Among the genotypes of NW Himalayan region of India, VHC3997, VHC3996 and VHC3930 were found highly resistant, which may be effectively used as parents for developing blast resistant cultivars in the NW Himalayan region of India. The markers linked to the QTLs for blast resistance in the present study can be further used for cloning of the full length gene, fine mapping and their further use in the marker assisted breeding programmes for introgression of blast resistant alleles into locally adapted cultivars.

  8. Harnessing Diversity in Wheat to Enhance Grain Yield, Climate Resilience, Disease and Insect Pest Resistance and Nutrition Through Conventional and Modern Breeding Approaches

    Science.gov (United States)

    Mondal, Suchismita; Rutkoski, Jessica E.; Velu, Govindan; Singh, Pawan K.; Crespo-Herrera, Leonardo A.; Guzmán, Carlos; Bhavani, Sridhar; Lan, Caixia; He, Xinyao; Singh, Ravi P.

    2016-01-01

    Current trends in population growth and consumption patterns continue to increase the demand for wheat, a key cereal for global food security. Further, multiple abiotic challenges due to climate change and evolving pathogen and pests pose a major concern for increasing wheat production globally. Triticeae species comprising of primary, secondary, and tertiary gene pools represent a rich source of genetic diversity in wheat. The conventional breeding strategies of direct hybridization, backcrossing and selection have successfully introgressed a number of desirable traits associated with grain yield, adaptation to abiotic stresses, disease resistance, and bio-fortification of wheat varieties. However, it is time consuming to incorporate genes conferring tolerance/resistance to multiple stresses in a single wheat variety by conventional approaches due to limitations in screening methods and the lower probabilities of combining desirable alleles. Efforts on developing innovative breeding strategies, novel tools and utilizing genetic diversity for new genes/alleles are essential to improve productivity, reduce vulnerability to diseases and pests and enhance nutritional quality. New technologies of high-throughput phenotyping, genome sequencing and genomic selection are promising approaches to maximize progeny screening and selection to accelerate the genetic gains in breeding more productive varieties. Use of cisgenic techniques to transfer beneficial alleles and their combinations within related species also offer great promise especially to achieve durable rust resistance. PMID:27458472

  9. Harnessing Diversity in Wheat to Enhance Grain Yield, Climate Resilience, Disease and Insect Pest Resistance and Nutrition Through Conventional and Modern Breeding Approaches.

    Science.gov (United States)

    Mondal, Suchismita; Rutkoski, Jessica E; Velu, Govindan; Singh, Pawan K; Crespo-Herrera, Leonardo A; Guzmán, Carlos; Bhavani, Sridhar; Lan, Caixia; He, Xinyao; Singh, Ravi P

    2016-01-01

    Current trends in population growth and consumption patterns continue to increase the demand for wheat, a key cereal for global food security. Further, multiple abiotic challenges due to climate change and evolving pathogen and pests pose a major concern for increasing wheat production globally. Triticeae species comprising of primary, secondary, and tertiary gene pools represent a rich source of genetic diversity in wheat. The conventional breeding strategies of direct hybridization, backcrossing and selection have successfully introgressed a number of desirable traits associated with grain yield, adaptation to abiotic stresses, disease resistance, and bio-fortification of wheat varieties. However, it is time consuming to incorporate genes conferring tolerance/resistance to multiple stresses in a single wheat variety by conventional approaches due to limitations in screening methods and the lower probabilities of combining desirable alleles. Efforts on developing innovative breeding strategies, novel tools and utilizing genetic diversity for new genes/alleles are essential to improve productivity, reduce vulnerability to diseases and pests and enhance nutritional quality. New technologies of high-throughput phenotyping, genome sequencing and genomic selection are promising approaches to maximize progeny screening and selection to accelerate the genetic gains in breeding more productive varieties. Use of cisgenic techniques to transfer beneficial alleles and their combinations within related species also offer great promise especially to achieve durable rust resistance. PMID:27458472

  10. Inter-disciplinary approach to selection in mutation breeding in local sorghums for adaptation and disease resistance

    International Nuclear Information System (INIS)

    The present report of Mutational rectifications in local Sorghums involved improvement in adaptation and disease resistance. After seed treatment at 20, 30 and 40 kr the material now in the M6 generation has given promising response to the above selection. Similarly, chemical mutagens with Na Azide + 5 kr γ-radiation of seeds also gave valuable mutants now in M4 generation. More than 20 promising mutants are isolated with dwarf habit (100-125 cms), good head size, resistance to charcoal rot, good seed size and root development, more heads/unit area and yield increases (40%-100%) over the parents and much higher than the hybrids under cultivation. The mutants were also superior or equal to the parent in micronutrient uptake (Zn), protein content, nutrient uptake, light interception, photo-synthetic rate, and transfer to grain for N and P, root activities, regeneration capacity and disease resistance under artificial inoculation with better yield potential under close spacing (50 cm x 10 cm vs 75 cm x 10 cm). The multilocation test for wide adaptation in 3 locations revealed that at least 4 of the mutants have a wide range of adaptation. Biochemical studies of seed proteins by gel electrophoresis revealed distinct differences between the mutants and also the parents. Similar results were obtained for tannin content, Zn, phosphate (p32 tracer) N uptake, indicating the presence of diverse mechanisms of adaptation and yield. Differences between the mutants in tillering, regeneration capacity rooting pattern, panicle no. and size, grain size and threshing % were observed. The integrated selection for the above attributes from M3 to M6 involved both field and laboratory testing demonstrating the utility of interdisciplinary approach in mutation breeding for effective selection in problem areas with complex ecological conditions and cropping patterns. The results of these studies are discussed with emphasis on selection methodology for the multiple traits involving

  11. Genetic diversity and structure of livestock breeds

    OpenAIRE

    Wilkinson, Samantha

    2012-01-01

    This thesis addresses the genetic characterisation of livestock breeds, a key aspect of the long-term future breed preservation and, thus, of primary interest for animal breeders and management in the industry. First, the genetic diversity and structure of breeds were investigated. The application of individual-based population genetic approaches at characterising genetic structure was assessed using the British pig breeds. All approaches, except for Principle Component Anal...

  12. Explicit and Exact Solutions to N-Order Schr(o)dinger System via an Extended Mapping Approach

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    In this paper, we extend the mapping approach to the N-order Schrodinger equation. In terms of the extended mapping approach, new families of variable separation solutions with some arbitrary functions are derived.

  13. Concept Map Engineering: Methods and Tools Based on the Semantic Relation Approach

    Science.gov (United States)

    Kim, Minkyu

    2013-01-01

    The purpose of this study is to develop a better understanding of technologies that use natural language as the basis for concept map construction. In particular, this study focuses on the semantic relation (SR) approach to drawing rich and authentic concept maps that reflect students' internal representations of a problem situation. The…

  14. A Time Sequence-Oriented Concept Map Approach to Developing Educational Computer Games for History Courses

    Science.gov (United States)

    Chu, Hui-Chun; Yang, Kai-Hsiang; Chen, Jing-Hong

    2015-01-01

    Concept maps have been recognized as an effective tool for students to organize their knowledge; however, in history courses, it is important for students to learn and organize historical events according to the time of their occurrence. Therefore, in this study, a time sequence-oriented concept map approach is proposed for developing a game-based…

  15. Naive Bayes Classifier Algorithm Approach for Mapping Poor Families Potential

    Directory of Open Access Journals (Sweden)

    Sri Redjeki

    2015-12-01

    Full Text Available The poverty rate that was recorded high in Indonesia becomes main priority the government to find a solution to poverty rate was below 10%. Initial identification the potential poverty becomes a very important thing to anticipate the amount of the poverty rate. Naive Bayes Classifier (NBC algorithm was one of data mining algorithms that can be used to perform classifications the family poor with 11 indicators with three classifications. This study using sample data of poor families a total of 219 data. A system that built use Java programming compared to the result of Weka software with accuracy the results of classification of 93%. The results of classification data of poor families mapped by adding latitude-longitude data and a photograph of the house of the condition of poor families. Based on the results of mapping classifications using NBC can help the government in Kabupaten Bantul in examining the potential of poor people.

  16. Cognitive Approach of Corporate Governance A Visualization Test of Mental models with Cognitive Mapping Technique

    OpenAIRE

    Garoui Nassreddine; Jarboui Anis

    2012-01-01

    The idea of this paper is to determine the mental models of actors in the firm with respect to the cognitive approach of corporate governance. The use of the cognitive map to view these diagrams to show the ways of thinking and conceptualization of the cognitive approach.The paper takes a corporate governance perspective, discusses mental models. It takes also a cognitive mapping technique.

  17. A Cognitive Approach for Performance Measurement in Flexible Manufacturing Systems using Cognitive Maps

    OpenAIRE

    Eraslan, Ergün; Dağdeviren, Metin

    2010-01-01

    In this study, a cognitive approach for the factors effecting performance of FMS system have been developed and explained using cognitive maps. The benefits of this approach show four new improvements: · The complex structure of cognitive performance is established for a specific FMS system by cognitive mapping technique. · The MCDM methods i.e., AHP and ANP have been applied to the dynamic structure of the system and the decisions of the production managers and related stuffs are included in...

  18. Stakeholder approach, Stakeholders mental model: A visualization test with cognitive mapping technique

    Directory of Open Access Journals (Sweden)

    Garoui Nassreddine

    2012-04-01

    Full Text Available The idea of this paper is to determine the mental models of actors in the firm with respect to the stakeholder approach of corporate governance. The use of the cognitive map to view these diagrams to show the ways of thinking and conceptualization of the stakeholder approach. The paper takes a corporate governance perspective, discusses stakeholder model. It takes also a cognitive mapping technique.

  19. AN APPROACH TO FARMING AND CATTLE BREEDING PRACTICES EMERGED IN THE TYNDALL COMMUNITY: AN OVERVIEW BACK TO THE PAST

    OpenAIRE

    Idris Omarovich Magomedov

    2015-01-01

    The paper written by the author considered the economic performance of one of the communities of Dagestan, – the Tindal people. The survey examined advancement of farming in the local community. In particular, harvesting practiced by the Tindin people, their instruments of labour, natural environment’ specifics, etc.One of the lines that the paper observed was advancement of cattle breeding by local peasants. The paper presented the huge bulk of field data and a significant selection of histo...

  20. A Combination of Phenotyping, Genetic and Physiological Approaches to Guide Breeding for Efficient Water Use in Grapevine

    OpenAIRE

    Coupel-Ledru, Aude; Lebon, Eric; Christophe, Angélique; Doligez, Agnes; Simonneau, Thierry

    2016-01-01

    Water scarcity associated with climate change particularly threatens the sustainability of viticulture in most cultivated, drought prone areas. Breeding grapevine for reduced water use and maintained production (that is high water-use efficiency) is therefore of major interest. This requires a comprehensive knowledge of the physiological impacts of drought which are the most influential on yield and quality. Special attention should be paid to those mechanisms involved in the r...

  1. Aerial Terrain Mapping Using Unmanned Aerial Vehicle Approach

    Science.gov (United States)

    Tahar, K. N.

    2012-08-01

    This paper looks into the latest achievement in the low-cost Unmanned Aerial Vehicle (UAV) technology in their capacity to map the semi-development areas. The objectives of this study are to establish a new methodology or a new algorithm in image registration during interior orientation process and to determine the accuracy of the photogrammetric products by using UAV images. Recently, UAV technology has been used in several applications such as mapping, agriculture and surveillance. The aim of this study is to scrutinize the usage of UAV to map the semi-development areas. The performance of the low cost UAV mapping study was established on a study area with two image processing methods so that the results could be comparable. A non-metric camera was attached at the bottom of UAV and it was used to capture images at both sites after it went through several calibration steps. Calibration processes were carried out to determine focal length, principal distance, radial lens distortion, tangential lens distortion and affinity. A new method in image registration for a non-metric camera is discussed in this paper as a part of new methodology of this study. This method used the UAV Global Positioning System (GPS) onboard to register the UAV image for interior orientation process. Check points were established randomly at both sites using rapid static Global Positioning System. Ground control points are used for exterior orientation process, and check point is used for accuracy assessment of photogrammetric product. All acquired images were processed in a photogrammetric software. Two methods of image registration were applied in this study, namely, GPS onboard registration and ground control point registration. Both registrations were processed by using photogrammetric software and the result is discussed. Two results were produced in this study, which are the digital orthophoto and the digital terrain model. These results were analyzed by using the root mean square

  2. An image encryption approach based on chaotic maps

    International Nuclear Information System (INIS)

    It is well-known that images are different from texts in many aspects, such as highly redundancy and correlation, the local structure and the characteristics of amplitude-frequency. As a result, the methods of conventional encryption cannot be applicable to images. In this paper, we improve the properties of confusion and diffusion in terms of discrete exponential chaotic maps, and design a key scheme for the resistance to statistic attack, differential attack and grey code attack. Experimental and theoretical results also show that our scheme is efficient and very secure

  3. An svm multiclassifier approach to land cover mapping

    CERN Document Server

    Anthony, Gidudu; Tshilidzi, Marwala

    2010-01-01

    From the advent of the application of satellite imagery to land cover mapping, one of the growing areas of research interest has been in the area of image classification. Image classifiers are algorithms used to extract land cover information from satellite imagery. Most of the initial research has focussed on the development and application of algorithms to better existing and emerging classifiers. In this paper, a paradigm shift is proposed whereby a committee of classifiers is used to determine the final classification output. Two of the key components of an ensemble system are that there should be diversity among the classifiers and that there should be a mechanism through which the results are combined. In this paper, the members of the ensemble system include: Linear SVM, Gaussian SVM and Quadratic SVM. The final output was determined through a simple majority vote of the individual classifiers. From the results obtained it was observed that the final derived map generated by an ensemble system can pote...

  4. Estimating the size of Little Grebe (Tachybaptus ruficollis) breeding populations

    OpenAIRE

    Gutiérrez, Ricard; Figuerola, Jordi

    1997-01-01

    [eng] The esti­ mation of Little Grebe Tachybaptus ruficollis breeding numbers has been found to be quite difficult, given the shy behavior of breeding birds, Different methods have been used, although their accuracy has never been tested. The breeding population was estimated in 1994 at 27 different water bodies in the Liobregat Delta (NE Spain). Breeding numbers were estimated by two methods: a) call census plus territory mapping, and b) direct nest searches. Breeding call surveys gave a 19...

  5. Engineering a robotic approach to mapping exposed volcanic fissures

    Science.gov (United States)

    Parcheta, C. E.; Parness, A.; Mitchell, K. L.

    2014-12-01

    Field geology provides a framework for advanced computer models and theoretical calculations of volcanic systems. Some field terrains, though, are poorly preserved or accessible, making documentation, quantification, and investigation impossible. Over 200 volcanologists at the 2012 Kona Chapman Conference on volcanology agreed that and important step forward in the field over the next 100 years should address the realistic size and shape of volcanic conduits. The 1969 Mauna Ulu eruption of Kīlauea provides a unique opportunity to document volcanic fissure conduits, thus, we have an ideal location to begin addressing this topic and provide data on these geometries. Exposed fissures can be mapped with robotics using machine vision. In order to test the hypothesis that fissures have irregularities with depth that will influence their fluid dynamical behavior, we must first map the fissure vents and shallow conduit to deci- or centimeter scale. We have designed, constructed, and field-tested the first version of a robotic device that will image an exposed volcanic fissure in three dimensions. The design phase included three steps: 1) create the payload harness and protective shell to prevent damage to the electronics and robot, 2) construct a circuit board to have the electronics communicate with a surface-based computer, and 3) prototype wheel shapes that can handle a variety of volcanic rock textures. The robot's mechanical parts were built using 3d printing, milling, casting and laser cutting techniques, and the electronics were assembled from off the shelf components. The testing phase took place at Mauna Ulu, Kīlauea, Hawai'i, from May 5 - 9, 2014. Many valuable design lessons were learned during the week, and the first ever 3D map from inside a volcanic fissure were successfully collected. Three vents had between 25% and 95% of their internal surfaces imaged. A fourth location, a non-eruptive crack (possibly a fault line) had two transects imaging the textures

  6. Topological risk mapping of runway overruns: A probabilistic approach

    International Nuclear Information System (INIS)

    The paper presents a topological risk mapping for aircraft overruns. The proposed procedure is based on the study published in 2008 by Hall et al. (Analysis of aircraft overruns and undershoots for runway safety areas. Airport Cooperative Research Program. Washington, DC: Transportation Research Board; 2008). In that study the authors performed an analysis of aircraft overruns and undershoots for runway safety areas proposing the ACRP hazard probability model. In the present study the model was integrated into a two-step Monte Carlo simulation procedure to assess the risk of overrun accidents and to provide a topological risk map for a specific airport area. The model was modified to utilize traffic-related and weather-related factors described by statistical distributions of historical data of the airport under analysis. The probability distribution of overrun events was then combined with the Longitudinal and Lateral Location models Hall et al. (Analysis of aircraft overruns and undershoots for runway safety areas. Airport Cooperative Research Program. Washington, DC: Transportation Research Board; 2008) to obtain a two-dimensional grid assessing the probability of each area to be the end point of a runway overrun. The expected kinetic energy of the aircraft in a given point of the grid is used as severity index. The procedure is suitable for generalisation and it allows a more detailed planning of Airport Safety Areas (ASA), improving the correct implementation of ICAO recommendations. Results are also useful for land planning and structural analyses in airport areas. - Highlights: • Two-step probabilistic procedure for the topological characterisation of overrun risk in airports. • Monte Carlo simulation applied to existing overrun probability and location models. • Proposed topological severity index: Iso-Kinetic Energy Areas (KEA). • Expected kinetic energy almost constant for about 1000 m beyond the runway end

  7. Mind Map Marketing: A Creative Approach in Developing Marketing Skills

    Science.gov (United States)

    Eriksson, Lars Torsten; Hauer, Amie M.

    2004-01-01

    In this conceptual article, the authors describe an alternative course structure that joins learning key marketing concepts to creative problem solving. The authors describe an approach using a convergent-divergent-convergent (CDC) process: key concepts are first derived from case material to be organized in a marketing matrix, which is then used…

  8. Classification Algorithms for Big Data Analysis, a Map Reduce Approach

    Science.gov (United States)

    Ayma, V. A.; Ferreira, R. S.; Happ, P.; Oliveira, D.; Feitosa, R.; Costa, G.; Plaza, A.; Gamba, P.

    2015-03-01

    Since many years ago, the scientific community is concerned about how to increase the accuracy of different classification methods, and major achievements have been made so far. Besides this issue, the increasing amount of data that is being generated every day by remote sensors raises more challenges to be overcome. In this work, a tool within the scope of InterIMAGE Cloud Platform (ICP), which is an open-source, distributed framework for automatic image interpretation, is presented. The tool, named ICP: Data Mining Package, is able to perform supervised classification procedures on huge amounts of data, usually referred as big data, on a distributed infrastructure using Hadoop MapReduce. The tool has four classification algorithms implemented, taken from WEKA's machine learning library, namely: Decision Trees, Naïve Bayes, Random Forest and Support Vector Machines (SVM). The results of an experimental analysis using a SVM classifier on data sets of different sizes for different cluster configurations demonstrates the potential of the tool, as well as aspects that affect its performance.

  9. CLASSIFICATION ALGORITHMS FOR BIG DATA ANALYSIS, A MAP REDUCE APPROACH

    Directory of Open Access Journals (Sweden)

    V. A. Ayma

    2015-03-01

    Full Text Available Since many years ago, the scientific community is concerned about how to increase the accuracy of different classification methods, and major achievements have been made so far. Besides this issue, the increasing amount of data that is being generated every day by remote sensors raises more challenges to be overcome. In this work, a tool within the scope of InterIMAGE Cloud Platform (ICP, which is an open-source, distributed framework for automatic image interpretation, is presented. The tool, named ICP: Data Mining Package, is able to perform supervised classification procedures on huge amounts of data, usually referred as big data, on a distributed infrastructure using Hadoop MapReduce. The tool has four classification algorithms implemented, taken from WEKA’s machine learning library, namely: Decision Trees, Naïve Bayes, Random Forest and Support Vector Machines (SVM. The results of an experimental analysis using a SVM classifier on data sets of different sizes for different cluster configurations demonstrates the potential of the tool, as well as aspects that affect its performance.

  10. Depth map estimation: a region-based approach

    OpenAIRE

    Bricola, Jean-Charles; Bilodeau, Michel; Beucher, Serge

    2014-01-01

    This work has been performed in the project PANORAMA, co-funded by grants from Belgium, Italy, France, the Netherlands, and the United Kingdom, and the ENIAC Joint Undertaking. This paper presents an approach to the estimation of depth from stereo images which exploits correspondences of image segments. A key motivation is to bypass pixel correspondences which are ambiguous in texture-less regions. One of the main difficulty though is to come up to an equivalent partitioning of both stereo...

  11. Mapping Diversity in Milan. Historical Approaches to Urban Immigration

    OpenAIRE

    Foot, John

    2006-01-01

    An historical and spatial approach is crucial to the understanding of any city. Waves of immigration and population movements from different sources have constructed the cultural mix of this financial, industrial and market city over time. To focus just on the new foreign immigration into Milan over the last 25 years or so risks omitting the deep historical fissures created by previous (and bigger) waves of population movements – the traces left by these populations in the urban fabric and th...

  12. Mapping site-based construction workers’ motivation: Expectancy theory approach

    OpenAIRE

    Parviz Ghoddousi; Nima Bahrami; Nicholas Chileshe; M. Reza Hosseini

    2014-01-01

    The aim of this study is to apply a recently proposed model of motivation based on expectancy theory to site-based workers in the construction context and confirm the validity of this model for the construction industry. The study drew upon data from 194 site-based construction workers in Iran to test the proposed model of motivation. To this end, the structural equation modelling (SEM) approach based on the confirmatory factor analysis (CFA) technique was deployed. The study reveals that the...

  13. Artificial Neural Network Approach for Mapping Contrasting Tillage Practices

    OpenAIRE

    Terry Howell; Indrajeet Chaubey; Prasanna Gowda; K. P. Sudheer

    2010-01-01

    Tillage information is crucial for environmental modeling as it directly affects evapotranspiration, infiltration, runoff, carbon sequestration, and soil losses due to wind and water erosion from agricultural fields. However, collecting this information can be time consuming and costly. Remote sensing approaches are promising for rapid collection of tillage information on individual fields over large areas. Numerous regression-based models are available to derive tillage information from remo...

  14. Flood Hazard Mapping over Large Regions using Geomorphic Approaches

    Science.gov (United States)

    Samela, Caterina; Troy, Tara J.; Manfreda, Salvatore

    2016-04-01

    Historically, man has always preferred to settle and live near the water. This tendency has not changed throughout time, and today nineteen of the twenty most populated agglomerations of the world (Demographia World Urban Areas, 2015) are located along watercourses or at the mouth of a river. On one hand, these locations are advantageous from many points of view. On the other hand, they expose significant populations and economic assets to a certain degree of flood hazard. Knowing the location and the extent of the areas exposed to flood hazards is essential to any strategy for minimizing the risk. Unfortunately, in data-scarce regions the use of traditional floodplain mapping techniques is prevented by the lack of the extensive data required, and this scarcity is generally most pronounced in developing countries. The present work aims to overcome this limitation by defining an alternative simplified procedure for a preliminary, but efficient, floodplain delineation. To validate the method in a data-rich environment, eleven flood-related morphological descriptors derived from DEMs have been used as linear binary classifiers over the Ohio River basin and its sub-catchments, measuring their performances in identifying the floodplains at the change of the topography and the size of the calibration area. The best performing classifiers among those analysed have been applied and validated across the continental U.S. The results suggest that the classifier based on the index ln(hr/H), named the Geomorphic Flood Index (GFI), is the most suitable to detect the flood-prone areas in data-scarce environments and for large-scale applications, providing good accuracy with low requirements in terms of data and computational costs. Keywords: flood hazard, data-scarce regions, large-scale studies, binary classifiers, DEM, USA.

  15. The breeding program of Latxa breed

    OpenAIRE

    Ugarte E

    2007-01-01

    The present paper describes the breeding program of Latxa breed in Spain. Latxacs breeding program has been on-going since 1984 and it is focused on increasing milk yield. As a consequence of its implementation, an annual genetic improvement of 3% in milk yield has obtained. Currently, new traits are being considered in the selection breeding goal.

  16. An approach for flood hazard modelling and mapping in the medium Valtellina

    OpenAIRE

    Poretti, I; Amicis, M.

    2011-01-01

    In the Lombardy Region, as in many other contexts all over the world, hazard maps do not have a precise legislative confirmation. Despite this, they are necessary to support several institutional activities, and among these, local urban planning. An approach to hazard analysis and mapping that fits the Lombardy Region legislative framework is presented here that introduces a level of experimental modelling, making use of SOBEK 1-D–2-D as a tool for hydrodynamic simulations. A stretch of 17 km...

  17. Mobile Ground-Based Radar Sensor for Localization and Mapping: An Evaluation of two Approaches

    OpenAIRE

    Damien Vivet; Franck Gérossier; Paul Checchin; Laurent Trassoudaine; Roland Chapuis

    2013-01-01

    This paper is concerned with robotic applications using a ground‐based radar sensor for simultaneous localization and mapping problems. In mobile robotics, radar technology is interesting because of its long range and the robustness of radar waves to atmospheric conditions, making these sensors well‐suited for extended outdoor robotic applications. Two localization and mapping approaches using data obtained from a 360° field of view microwave radar sensor are presented and compared. The first...

  18. Land Cover Mapping in Southwestern China Using the HC-MMK Approach

    OpenAIRE

    Guangbin Lei; Ainong Li; Jinhu Bian; Zhengjian Zhang; Huaan Jin; Xi Nan; Wei Zhao; Jiyan Wang; Xiaomin Cao; Jianbo Tan; Qiannan Liu; Huan Yu; Guangbin Yang; Wenlan Feng

    2016-01-01

    Land cover mapping in mountainous areas is a notoriously challenging task due to the rugged terrain and high spatial heterogeneity of land surfaces as well as the frequent cloud contamination of satellite imagery. Taking Southwestern China (a typical mountainous region) as an example, this paper established a new HC-MMK approach (Hierarchical Classification based on Multi-source and Multi-temporal data and geo-Knowledge), which was especially designed for land cover mapping in mountainous are...

  19. A taxonomy of behaviour change methods: an Intervention Mapping approach.

    Science.gov (United States)

    Kok, Gerjo; Gottlieb, Nell H; Peters, Gjalt-Jorn Y; Mullen, Patricia Dolan; Parcel, Guy S; Ruiter, Robert A C; Fernández, María E; Markham, Christine; Bartholomew, L Kay

    2016-09-01

    In this paper, we introduce the Intervention Mapping (IM) taxonomy of behaviour change methods and its potential to be developed into a coding taxonomy. That is, although IM and its taxonomy of behaviour change methods are not in fact new, because IM was originally developed as a tool for intervention development, this potential was not immediately apparent. Second, in explaining the IM taxonomy and defining the relevant constructs, we call attention to the existence of parameters for effectiveness of methods, and explicate the related distinction between theory-based methods and practical applications and the probability that poor translation of methods may lead to erroneous conclusions as to method-effectiveness. Third, we recommend a minimal set of intervention characteristics that may be reported when intervention descriptions and evaluations are published. Specifying these characteristics can greatly enhance the quality of our meta-analyses and other literature syntheses. In conclusion, the dynamics of behaviour change are such that any taxonomy of methods of behaviour change needs to acknowledge the importance of, and provide instruments for dealing with, three conditions for effectiveness for behaviour change methods. For a behaviour change method to be effective: (1) it must target a determinant that predicts behaviour; (2) it must be able to change that determinant; (3) it must be translated into a practical application in a way that preserves the parameters for effectiveness and fits with the target population, culture, and context. Thus, taxonomies of methods of behaviour change must distinguish the specific determinants that are targeted, practical, specific applications, and the theory-based methods they embody. In addition, taxonomies should acknowledge that the lists of behaviour change methods will be used by, and should be used by, intervention developers. Ideally, the taxonomy should be readily usable for this goal; but alternatively, it should be

  20. Semi-automatic classification of glaciovolcanic landforms: An object-based mapping approach based on geomorphometry

    Science.gov (United States)

    Pedersen, G. B. M.

    2016-02-01

    A new object-oriented approach is developed to classify glaciovolcanic landforms (Procedure A) and their landform elements boundaries (Procedure B). It utilizes the principle that glaciovolcanic edifices are geomorphometrically distinct from lava shields and plains (Pedersen and Grosse, 2014), and the approach is tested on data from Reykjanes Peninsula, Iceland. The outlined procedures utilize slope and profile curvature attribute maps (20 m/pixel) and the classified results are evaluated quantitatively through error matrix maps (Procedure A) and visual inspection (Procedure B). In procedure A, the highest obtained accuracy is 94.1%, but even simple mapping procedures provide good results (> 90% accuracy). Successful classification of glaciovolcanic landform element boundaries (Procedure B) is also achieved and this technique has the potential to delineate the transition from intraglacial to subaerial volcanic activity in orthographic view. This object-oriented approach based on geomorphometry overcomes issues with vegetation cover, which has been typically problematic for classification schemes utilizing spectral data. Furthermore, it handles complex edifice outlines well and is easily incorporated into a GIS environment, where results can be edited or fused with other mapping results. The approach outlined here is designed to map glaciovolcanic edifices within the Icelandic neovolcanic zone but may also be applied to similar subaerial or submarine volcanic settings, where steep volcanic edifices are surrounded by flat plains.

  1. Genetic agent approach for improving on-the-fly web map generalization

    OpenAIRE

    lejdel, Brahim; kazar, Okba

    2012-01-01

    The utilization of web mapping becomes increasingly important in the domain of cartography. Users want access to spatial data on the web specific to their needs. For this reason, different approaches were appeared for generating on-the-fly the maps demanded by users, but those not suffice for guide a flexible and efficient process. Thus, new approach must be developed for improving this process according to the user needs. This work focuses on defining a new strategy which improves on-the-fly...

  2. Benthic habitat mapping in a Portuguese Marine Protected Area using EUNIS: An integrated approach

    Science.gov (United States)

    Henriques, Victor; Guerra, Miriam Tuaty; Mendes, Beatriz; Gaudêncio, Maria José; Fonseca, Paulo

    2015-06-01

    A growing demand for seabed and habitat mapping has taken place over the past years to support the maritime integrated policies at EU and national levels aiming at the sustainable use of sea resources. This study presents the results of applying the hierarchical European Nature Information System (EUNIS) to classify and map the benthic habitats of the Luiz Saldanha Marine Park, a marine protected area (MPA), located in the mainland Portuguese southwest coast, in the Iberian Peninsula. The habitat map was modelled by applying a methodology based on EUNIS to merge biotic and abiotic key habitat drivers. The modelling in this approach focused on predicting the association of different data types: substrate, bathymetry, light intensity, waves and currents energy, sediment grain size and benthic macrofauna into a common framework. The resulting seamless medium scale habitat map discriminates twenty six distinct sublittoral habitats, including eight with no match in the current classification, which may be regarded as new potential habitat classes and therefore will be submitted to EUNIS. A discussion is provided examining the suitability of the current EUNIS scheme as a standardized approach to classify marine benthic habitats and map their spatial distribution at medium scales in the Portuguese coast. In addition the factors that most affected the results available in the predictive habitat map and the role of the environmental factors on macrofaunal assemblage composition and distribution are outlined.

  3. An effective trace-guided wavefront navigation and map-building approach for autonomous mobile robots

    Science.gov (United States)

    Luo, Chaomin; Krishnan, Mohan; Paulik, Mark; Jan, Gene Eu

    2013-12-01

    This paper aims to address a trace-guided real-time navigation and map building approach of an autonomous mobile robot. Wave-front based global path planner is developed to generate a global trajectory for an autonomous mobile robot. Modified Vector Field Histogram (M-VFH) is employed based on the LIDAR sensor information to guide the robot locally to be autonomously traversed with obstacle avoidance by following traces provided by the global path planner. A local map composed of square grids is created through the local navigator while the robot traverses with limited LIDAR sensory information. From the measured sensory information, a map of the robot's immediate limited surroundings is dynamically built for the robot navigation. The real-time wave-front based navigation and map building methodology has been successfully demonstrated in a Player/Stage simulation environment. With the wave-front-based global path planner and M-VFH local navigator, a safe, short, and reasonable trajectory is successfully planned in a majority of situations without any templates, without explicitly optimizing any global cost functions, and without any learning procedures. Its effectiveness, feasibility, efficiency and simplicity of the proposed real-time navigation and map building of an autonomous mobile robot have been successfully validated by simulation and comparison studies. Comparison studies of the proposed approach with the other path planning approaches demonstrate that the proposed method is capable of planning more reasonable and shorter collision-free trajectories autonomously.

  4. SOYBEAN - MOLECULAR ASPECTS OF BREEDING

    OpenAIRE

    Aleksandra Sudarić

    2012-01-01

    The book Soybean: Molecular Aspects of Breeding focuses recent progress in our understanding of the genetics and molecular biology of soybean. This book is divided into four parts and contains 22 chapters. Part I, Molecular Biology and Biotechnology focuses advances in molecular biology and laboratory procedures that have been developed recently to manipulate DNA. Part II, Breeding for abiotic stress covers proteomics approaches form as a powerful tool for investigatin...

  5. AN APPROACH TO FARMING AND CATTLE BREEDING PRACTICES EMERGED IN THE TYNDALL COMMUNITY: AN OVERVIEW BACK TO THE PAST

    Directory of Open Access Journals (Sweden)

    Idris Omarovich Magomedov

    2015-01-01

    Full Text Available The paper written by the author considered the economic performance of one of the communities of Dagestan, – the Tindal people. The survey examined advancement of farming in the local community. In particular, harvesting practiced by the Tindin people, their instruments of labour, natural environment’ specifics, etc.One of the lines that the paper observed was advancement of cattle breeding by local peasants. The paper presented the huge bulk of field data and a significant selection of historical sources.The author did due diligence to examination of the terrace-land cultivation by the Tindal people, which was the core occupation for all highlander inhabitants of Dagestan. The Tindal people grow mainly barley, wheat, rye, oat, millet, beans; since the XIX century the local inhabitants have introduced corn and potatoes.The Tindal people paid a specific attention to the gardening. Basically, the Tindal cultivated apples, apricots, pears, plums, nuts, etc., The gardening, although having not taken a key position in the economic life of the Tindal people, had been of enormous significance for the overall business operations of the highlanders.The Tindal people mostly used to cultivate land manually. They used the following instruments of labour: mattock, plough, wooden plough with an iron ploughshare (bezzi, entirely wooden plough (Rukia.

  6. Breeding, genetic and genomic of citrus for disease resistance

    Directory of Open Access Journals (Sweden)

    Marcos A. Machado

    2011-10-01

    Full Text Available Although the citriculture is one of the most important economic activities in Brazil, it is based on a small number of varieties. This fact has contributed for the vulnerability of the culture regarding the phytosanitary problems. A higher number of varieties/genotypes with potential for commercial growing, either for the industry or fresh market, has been one of the main objectives of citrus breeding programs. The genetic breeding of citrus has improved, in the last decades, due to the possibility of an association between biotechnological tools and classical methods of breeding. The use of molecular markers for early selection of zygotic seedlings from controlled crosses resulted in the possibility of selection of a high number of new combination and, as a consequence, the establishment of a great number of hybrids in field experiments. The faster new tools are incorporated in the program, the faster is possibility to reach new genotypes that can be tested as a new variety. Good traits should be kept or incorporate, whereas bad traits have to be excluded or minimized in the new genotype. Scion and rootstock can not be considered separately, and graft compatibility, fruit quality and productivity are essential traits to be evaluated in the last stages of the program. The mapping of QTLs has favored breeding programs of several perennial species and in citrus it was possible to map several characteristics with qualitative and quantitative inheritance. The existence of linkage maps and QTLs already mapped, the development of EST and BAC library and the sequencing of the Citrus complete genome altogether make very demanding and urgent the exploration of such data to launch a wider genetic study of citrus. The rising of information on genome of several organisms has opened new approaches looking for integration between breeding, genetic and genome. Genome assisted selection (GAS involves more than gene or complete genome sequencing and is becoming

  7. Integrated environmental mapping and monitoring, a methodological approach to optimise knowledge gathering and sampling strategy.

    Science.gov (United States)

    Nilssen, Ingunn; Ødegård, Øyvind; Sørensen, Asgeir J; Johnsen, Geir; Moline, Mark A; Berge, Jørgen

    2015-07-15

    New technology has led to new opportunities for a holistic environmental monitoring approach adjusted to purpose and object of interest. The proposed integrated environmental mapping and monitoring (IEMM) concept, presented in this paper, describes the different steps in such a system from mission of survey to selection of parameters, sensors, sensor platforms, data collection, data storage, analysis and to data interpretation for reliable decision making. The system is generic; it can be used by authorities, industry and academia and is useful for planning- and operational phases. In the planning process the systematic approach is also ideal to identify areas with gap of knowledge. The critical stages of the concept is discussed and exemplified by two case studies, one environmental mapping and one monitoring case. As an operational system, the IEMM concept can contribute to an optimised integrated environmental mapping and monitoring for knowledge generation as basis for decision making. PMID:25956441

  8. West African cattle breeds characterizations: Review of CIRDES genetic works

    International Nuclear Information System (INIS)

    Full text: The improvement of domestical animal breeds productivity or the animal genetic diversity maintenance to allow breeders to select animals or to create new breeds in order to adapt to environmental modifications, new diseases and societies needs, requires first a detailed inventory and, secondly, a genetic characterization of domestic animal breeds. Indeed, in developing countries, the notion of breed is not clear; visual parameters are often used even if these procedures are subjective. So it is necessary to complete this phenotypic approach by a genomic one in order to contribute to an efficient characterization. At CIRDES, a regional center for subhumid livestock research and development, these studies have been conducted during the past ten years. They permitted (i) to describe the cattle phenotypic traits and their geographical localization and to highlight the breeds threatened with extinction, (ii) to determine zebu introgression level in taurine trypanotolerant cattle (iii) to identify specific alleles of different cattle breeds, and (iv) to quantify the importance of Robertson translocation in livestock production. Data collection has been realized using a bibliography study, completed by investigations in seven countries of West Africa. Blood collection has been also done for an analysis of 4 categories of genome markers (11 blood group systems, 3 blood protein loci, microsatellites and chromosomes). According to phenotypic description and to the conceptions of autochtone human population, 13 local cattle breeds have been identified: Ndama, Kouri, the group Baoule-Somba, the group Lagoon cattle, zebu Azawak, zebu Maure, zebu Touareg, zebu Goudali, zebu Bororo, zebu White Fulani, zebu Djelli, zebu peuhl soudanien, zebu Gobra, and their crossbreds (Zebu x Ndama and Zebu x West African Shorthorns). Nine exotic breeds have been also identified: American Brahman, Gir, Girolando, Droughtmaster, Santa Gertrudis, Holstein, Montbeliarde, Jersey and Brown

  9. Value stream mapping in a service environment: a comparison of approaches

    OpenAIRE

    Sinha, T.; Ward, N; Welch, Christine; Boydell, Briony

    2010-01-01

    This paper provides an analysis of Value Stream Mapping (VSM) tools. It offers an insight into the benefits, enablers, drawbacks and blockers for VSM approaches with the expertise of a community of practice of 20 improvement professionals from service environments. A single scenario was used to test the methods in terms of visual representation, team understanding, team interaction and the richness of the data displayed. The results showed that each approach had value but that building comple...

  10. Progress in Landslide Susceptibility Mapping over Europe Using Tier-Based Approaches

    OpenAIRE

    Gunther, Andreas; HERVAS DE DIEGO Francisco; Reichenbach, Paola; Malet, Jean-Philippe

    2010-01-01

    The European Thematic Strategy for Soil Protection aims, among other objectives, to ensure a sustainable use of soil. The legal instrument of the strategy, the proposed Framework Directive, suggests identifying priority areas of several soil threats including landslides using a coherent and compatible approach based on the use of common thematic data. In a first stage, this can be achieved through landslide susceptibility mapping using geographically nested, multi-step tiered approaches, wher...

  11. Shape-to-String Mapping: A Novel Approach to Clustering Time-Index Biomics Data

    Science.gov (United States)

    Herein we describe a qualitative approach for clustering time-index biomics data. The data are transformed into angles from the intensity-ratios between adjacent time-points. A code is used to map a qualitative representation of the numerical time-index data which captures the features in the data ...

  12. A simplified approach to compute distribution matrices for the mapping method

    NARCIS (Netherlands)

    Singh, M.K.; Galaktionov, O.S.; Meijer, H.E.H.; Anderson, P.D.

    2009-01-01

    The mapping method has proven its efficiency as an analysis and optimization tool for mixing in many different flow devices. In this paper, we present a new approach to compute the coefficients of the distribution matrix, which is, both in terms of computational speed and complexity, more easy to im

  13. A Soft OR Approach to Fostering Systems Thinking: SODA Maps plus Joint Analytical Process

    Science.gov (United States)

    Wang, Shouhong; Wang, Hai

    2016-01-01

    Higher order thinking skills are important for managers. Systems thinking is an important type of higher order thinking in business education. This article investigates a soft Operations Research approach to teaching and learning systems thinking. It outlines the integrative use of Strategic Options Development and Analysis maps for visualizing…

  14. Determination of contact maps in proteins: A combination of structural and chemical approaches

    International Nuclear Information System (INIS)

    Contact map selection is a crucial step in structure-based molecular dynamics modelling of proteins. The map can be determined in many different ways. We focus on the methods in which residues are represented as clusters of effective spheres. One contact map, denoted as overlap (OV), is based on the overlap of such spheres. Another contact map, named Contacts of Structural Units (CSU), involves the geometry in a different way and, in addition, brings chemical considerations into account. We develop a variant of the CSU approach in which we also incorporate Coulombic effects such as formation of the ionic bridges and destabilization of possible links through repulsion. In this way, the most essential and well defined contacts are identified. The resulting residue-residue contact map, dubbed repulsive CSU (rCSU), is more sound in its physico-chemical justification than CSU. It also provides a clear prescription for validity of an inter-residual contact: the number of attractive atomic contacts should be larger than the number of repulsive ones — a feature that is not present in CSU. However, both of these maps do not correlate well with the experimental data on protein stretching. Thus, we propose to use rCSU together with the OV map. We find that the combined map, denoted as OV+rCSU, performs better than OV. In most situations, OV and OV+rCSU yield comparable folding properties but for some proteins rCSU provides contacts which improve folding in a substantial way. We discuss the likely residue-specificity of the rCSU contacts. Finally, we make comparisons to the recently proposed shadow contact map, which is derived from different principles

  15. Determination of contact maps in proteins: A combination of structural and chemical approaches

    Energy Technology Data Exchange (ETDEWEB)

    Wołek, Karol; Cieplak, Marek, E-mail: mc@ifpan.edu.pl [Institute of Physics, Polish Academy of Science, Al. Lotników 32/46, 02-668 Warsaw (Poland); Gómez-Sicilia, Àngel [Instituto Cajal, Consejo Superior de Investigaciones Cientificas (CSIC), Av. Doctor Arce, 37, 28002 Madrid (Spain); Instituto Madrileño de Estudios Avanzados en Nanociencia (IMDEA-Nanociencia), C/Faraday 9, 28049 Cantoblanco (Madrid) (Spain)

    2015-12-28

    Contact map selection is a crucial step in structure-based molecular dynamics modelling of proteins. The map can be determined in many different ways. We focus on the methods in which residues are represented as clusters of effective spheres. One contact map, denoted as overlap (OV), is based on the overlap of such spheres. Another contact map, named Contacts of Structural Units (CSU), involves the geometry in a different way and, in addition, brings chemical considerations into account. We develop a variant of the CSU approach in which we also incorporate Coulombic effects such as formation of the ionic bridges and destabilization of possible links through repulsion. In this way, the most essential and well defined contacts are identified. The resulting residue-residue contact map, dubbed repulsive CSU (rCSU), is more sound in its physico-chemical justification than CSU. It also provides a clear prescription for validity of an inter-residual contact: the number of attractive atomic contacts should be larger than the number of repulsive ones — a feature that is not present in CSU. However, both of these maps do not correlate well with the experimental data on protein stretching. Thus, we propose to use rCSU together with the OV map. We find that the combined map, denoted as OV+rCSU, performs better than OV. In most situations, OV and OV+rCSU yield comparable folding properties but for some proteins rCSU provides contacts which improve folding in a substantial way. We discuss the likely residue-specificity of the rCSU contacts. Finally, we make comparisons to the recently proposed shadow contact map, which is derived from different principles.

  16. Determination of contact maps in proteins: A combination of structural and chemical approaches

    Science.gov (United States)

    Wołek, Karol; Gómez-Sicilia, Àngel; Cieplak, Marek

    2015-12-01

    Contact map selection is a crucial step in structure-based molecular dynamics modelling of proteins. The map can be determined in many different ways. We focus on the methods in which residues are represented as clusters of effective spheres. One contact map, denoted as overlap (OV), is based on the overlap of such spheres. Another contact map, named Contacts of Structural Units (CSU), involves the geometry in a different way and, in addition, brings chemical considerations into account. We develop a variant of the CSU approach in which we also incorporate Coulombic effects such as formation of the ionic bridges and destabilization of possible links through repulsion. In this way, the most essential and well defined contacts are identified. The resulting residue-residue contact map, dubbed repulsive CSU (rCSU), is more sound in its physico-chemical justification than CSU. It also provides a clear prescription for validity of an inter-residual contact: the number of attractive atomic contacts should be larger than the number of repulsive ones — a feature that is not present in CSU. However, both of these maps do not correlate well with the experimental data on protein stretching. Thus, we propose to use rCSU together with the OV map. We find that the combined map, denoted as OV+rCSU, performs better than OV. In most situations, OV and OV+rCSU yield comparable folding properties but for some proteins rCSU provides contacts which improve folding in a substantial way. We discuss the likely residue-specificity of the rCSU contacts. Finally, we make comparisons to the recently proposed shadow contact map, which is derived from different principles.

  17. Mapping the genomic architecture of adaptive traits with interspecific introgressive origin: a coalescent-based approach.

    Science.gov (United States)

    Hejase, Hussein A; Liu, Kevin J

    2016-01-01

    Recent studies of eukaryotes including human and Neandertal, mice, and butterflies have highlighted the major role that interspecific introgression has played in adaptive trait evolution. A common question arises in each case: what is the genomic architecture of the introgressed traits? One common approach that can be used to address this question is association mapping, which looks for genotypic markers that have significant statistical association with a trait. It is well understood that sample relatedness can be a confounding factor in association mapping studies if not properly accounted for. Introgression and other evolutionary processes (e.g., incomplete lineage sorting) typically introduce variation among local genealogies, which can also differ from global sample structure measured across all genomic loci. In contrast, state-of-the-art association mapping methods assume fixed sample relatedness across the genome, which can lead to spurious inference. We therefore propose a new association mapping method called Coal-Map, which uses coalescent-based models to capture local genealogical variation alongside global sample structure. Using simulated and empirical data reflecting a range of evolutionary scenarios, we compare the performance of Coal-Map against EIGENSTRAT, a leading association mapping method in terms of its popularity, power, and type I error control. Our empirical data makes use of hundreds of mouse genomes for which adaptive interspecific introgression has recently been described. We found that Coal-Map's performance is comparable or better than EIGENSTRAT in terms of statistical power and false positive rate. Coal-Map's performance advantage was greatest on model conditions that most closely resembled empirically observed scenarios of adaptive introgression. These conditions had: (1) causal SNPs contained in one or a few introgressed genomic loci and (2) varying rates of gene flow - from high rates to very low rates where incomplete lineage

  18. A high-density, SNP-based consensus map of tetraploid wheat as a bridge to integrate durum and bread wheat genomics and breeding

    OpenAIRE

    Maccaferri, M; Ricci, A.; Salvi, S.; Milner, SG; Noli, E; Martelli, PL; Casadio, R.; Akhunov, E.; Scalabrin, S.; Vendramin, V; AMMAR, K.; Blanco, A.; Desiderio, F.; Distelfeld, A; Dubcovsky, J.

    2015-01-01

    © 2015 Society for Experimental Biology, Association of Applied Biologists and John Wiley & Sons Ltd. Consensus linkage maps are important tools in crop genomics. We have assembled a high-density tetraploid wheat consensus map by integrating 13 data sets from independent biparental populations involving durum wheat cultivars (Triticum turgidum ssp. durum), cultivated emmer (T. turgidum ssp. dicoccum) and their ancestor (wild emmer, T. turgidum ssp. dicoccoides). The consensus map harboured 30...

  19. A hierarchical Bayesian-MAP approach to inverse problems in imaging

    Science.gov (United States)

    Raj, Raghu G.

    2016-07-01

    We present a novel approach to inverse problems in imaging based on a hierarchical Bayesian-MAP (HB-MAP) formulation. In this paper we specifically focus on the difficult and basic inverse problem of multi-sensor (tomographic) imaging wherein the source object of interest is viewed from multiple directions by independent sensors. Given the measurements recorded by these sensors, the problem is to reconstruct the image (of the object) with a high degree of fidelity. We employ a probabilistic graphical modeling extension of the compound Gaussian distribution as a global image prior into a hierarchical Bayesian inference procedure. Since the prior employed by our HB-MAP algorithm is general enough to subsume a wide class of priors including those typically employed in compressive sensing (CS) algorithms, HB-MAP algorithm offers a vehicle to extend the capabilities of current CS algorithms to include truly global priors. After rigorously deriving the regression algorithm for solving our inverse problem from first principles, we demonstrate the performance of the HB-MAP algorithm on Monte Carlo trials and on real empirical data (natural scenes). In all cases we find that our algorithm outperforms previous approaches in the literature including filtered back-projection and a variety of state-of-the-art CS algorithms. We conclude with directions of future research emanating from this work.

  20. Toward real-time three-dimensional mapping of surficial aquifers using a hybrid modeling approach

    Science.gov (United States)

    Friedel, Michael J.; Esfahani, Akbar; Iwashita, Fabio

    2016-02-01

    A hybrid modeling approach is proposed for near real-time three-dimensional (3D) mapping of surficial aquifers. First, airborne frequency-domain electromagnetic (FDEM) measurements are numerically inverted to obtain subsurface resistivities. Second, a machine-learning (ML) algorithm is trained using the FDEM measurements and inverted resistivity profiles, and borehole geophysical and hydrogeologic data. Third, the trained ML algorithm is used together with independent FDEM measurements to map the spatial distribution of the aquifer system. Efficacy of the hybrid approach is demonstrated for mapping a heterogeneous surficial aquifer and confining unit in northwestern Nebraska, USA. For this case, independent performance testing reveals that aquifer mapping is unbiased with a strong correlation (0.94) among numerically inverted and ML-estimated binary (clay-silt or sand-gravel) layer resistivities (5-20 ohm-m or 21-5,000 ohm-m), and an intermediate correlation (0.74) for heterogeneous (clay, silt, sand, gravel) layer resistivities (5-5,000 ohm-m). Reduced correlation for the heterogeneous model is attributed to over-estimating the under-sampled high-resistivity gravels (about 0.5 % of the training data), and when removed the correlation increases (0.87). Independent analysis of the numerically inverted and ML-estimated resistivities finds that the hybrid procedure preserves both univariate and spatial statistics for each layer. Following training, the algorithms can map 3D surficial aquifers as fast as leveled FDEM measurements are presented to the ML network.

  1. Engineering geological mapping in Wallonia (Belgium) : present state and recent computerized approach

    Science.gov (United States)

    Delvoie, S.; Radu, J.-P.; Ruthy, I.; Charlier, R.

    2012-04-01

    An engineering geological map can be defined as a geological map with a generalized representation of all the components of a geological environment which are strongly required for spatial planning, design, construction and maintenance of civil engineering buildings. In Wallonia (Belgium) 24 engineering geological maps have been developed between the 70s and the 90s at 1/5,000 or 1/10,000 scale covering some areas of the most industrialized and urbanized cities (Liège, Charleroi and Mons). They were based on soil and subsoil data point (boring, drilling, penetration test, geophysical test, outcrop…). Some displayed data present the depth (with isoheights) or the thickness (with isopachs) of the different subsoil layers up to about 50 m depth. Information about geomechanical properties of each subsoil layer, useful for engineers and urban planners, is also synthesized. However, these maps were built up only on paper and progressively needed to be updated with new soil and subsoil data. The Public Service of Wallonia and the University of Liège have recently initiated a study to evaluate the feasibility to develop engineering geological mapping with a computerized approach. Numerous and various data (about soil and subsoil) are stored into a georelational database (the geotechnical database - using Access, Microsoft®). All the data are geographically referenced. The database is linked to a GIS project (using ArcGIS, ESRI®). Both the database and GIS project consist of a powerful tool for spatial data management and analysis. This approach involves a methodology using interpolation methods to update the previous maps and to extent the coverage to new areas. The location (x, y, z) of each subsoil layer is then computed from data point. The geomechanical data of these layers are synthesized in an explanatory booklet joined to maps.

  2. Mapping susceptibility of rainfall-triggered shallow landslides using a probabilistic approach

    Science.gov (United States)

    Liu, Chia-Nan; Wu, Chia-Chen

    2008-08-01

    To prepare a landslide susceptibility map is essential to identify hazardous regions, construct appropriate mitigation facilities, and plan emergency measures for a region prone to landslides triggered by rainfall. The conventional mapping methods require much information about past landslides records and contributing terrace and rainfall. They also rely heavily on the quantity and quality of accessible information and subjectively of the map builder. This paper contributes to a systematic and quantitative assessment of mapping landslide hazards over a region. Geographical Information System is implemented to retrieve relevant parameters from data layers, including the spatial distribution of transient fluid pressures, which is estimated using the TRIGRS program. The factor of safety of each pixel in the study region is calculated analytically. Monte Carlo simulation of random variables is conducted to process the estimation of fluid pressure and factor of safety for multiple times. The failure probability of each pixel is thus estimated. These procedures of mapping landslide potential are demonstrated in a case history. The analysis results reveal a positive correlation between landslide probability and accumulated rainfall. This approach gives simulation results compared to field records. The location and size of actual landslide are well predicted. An explanation for some of the inconsistencies is also provided to emphasize the importance of site information on the accuracy of mapping results.

  3. Improved spatial accuracy of functional maps in the rat olfactory bulb using supervised machine learning approach.

    Science.gov (United States)

    Murphy, Matthew C; Poplawsky, Alexander J; Vazquez, Alberto L; Chan, Kevin C; Kim, Seong-Gi; Fukuda, Mitsuhiro

    2016-08-15

    Functional MRI (fMRI) is a popular and important tool for noninvasive mapping of neural activity. As fMRI measures the hemodynamic response, the resulting activation maps do not perfectly reflect the underlying neural activity. The purpose of this work was to design a data-driven model to improve the spatial accuracy of fMRI maps in the rat olfactory bulb. This system is an ideal choice for this investigation since the bulb circuit is well characterized, allowing for an accurate definition of activity patterns in order to train the model. We generated models for both cerebral blood volume weighted (CBVw) and blood oxygen level dependent (BOLD) fMRI data. The results indicate that the spatial accuracy of the activation maps is either significantly improved or at worst not significantly different when using the learned models compared to a conventional general linear model approach, particularly for BOLD images and activity patterns involving deep layers of the bulb. Furthermore, the activation maps computed by CBVw and BOLD data show increased agreement when using the learned models, lending more confidence to their accuracy. The models presented here could have an immediate impact on studies of the olfactory bulb, but perhaps more importantly, demonstrate the potential for similar flexible, data-driven models to improve the quality of activation maps calculated using fMRI data. PMID:27236085

  4. Single-molecule approach to bacterial genomic comparisons via optical mapping.

    Energy Technology Data Exchange (ETDEWEB)

    Zhou, Shiguo [Univ. Wisc.-Madison; Kile, A. [Univ. Wisc.-Madison; Bechner, M. [Univ. Wisc.-Madison; Kvikstad, E. [Univ. Wisc.-Madison; Deng, W. [Univ. Wisc.-Madison; Wei, J. [Univ. Wisc.-Madison; Severin, J. [Univ. Wisc.-Madison; Runnheim, R. [Univ. Wisc.-Madison; Churas, C. [Univ. Wisc.-Madison; Forrest, D. [Univ. Wisc.-Madison; Dimalanta, E. [Univ. Wisc.-Madison; Lamers, C. [Univ. Wisc.-Madison; Burland, V. [Univ. Wisc.-Madison; Blattner, F. R. [Univ. Wisc.-Madison; Schwartz, David C. [Univ. Wisc.-Madison

    2004-01-01

    Modern comparative genomics has been established, in part, by the sequencing and annotation of a broad range of microbial species. To gain further insights, new sequencing efforts are now dealing with the variety of strains or isolates that gives a species definition and range; however, this number vastly outstrips our ability to sequence them. Given the availability of a large number of microbial species, new whole genome approaches must be developed to fully leverage this information at the level of strain diversity that maximize discovery. Here, we describe how optical mapping, a single-molecule system, was used to identify and annotate chromosomal alterations between bacterial strains represented by several species. Since whole-genome optical maps are ordered restriction maps, sequenced strains of Shigella flexneri serotype 2a (2457T and 301), Yersinia pestis (CO 92 and KIM), and Escherichia coli were aligned as maps to identify regions of homology and to further characterize them as possible insertions, deletions, inversions, or translocations. Importantly, an unsequenced Shigella flexneri strain (serotype Y strain AMC[328Y]) was optically mapped and aligned with two sequenced ones to reveal one novel locus implicated in serotype conversion and several other loci containing insertion sequence elements or phage-related gene insertions. Our results suggest that genomic rearrangements and chromosomal breakpoints are readily identified and annotated against a prototypic sequenced strain by using the tools of optical mapping.

  5. A high-density, SNP-based consensus map of tetraploid wheat as a bridge to integrate durum and bread wheat genomics and breeding

    Science.gov (United States)

    Consensus linkage maps are important tools in crop genomics. We have assembled a high-density tetraploid wheat consensus map by integrating 13 datasets from independent biparental populations involving durum wheat cultivars (Triticum turgidum ssp. durum), cultivated emmer (T. turgidum ssp. dicoccum...

  6. Large-extent digital soil mapping approaches for total soil depth

    Science.gov (United States)

    Mulder, Titia; Lacoste, Marine; Saby, Nicolas P. A.; Arrouays, Dominique

    2015-04-01

    Total soil depth (SDt) plays a key role in supporting various ecosystem services and properties, including plant growth, water availability and carbon stocks. Therefore, predictive mapping of SDt has been included as one of the deliverables within the GlobalSoilMap project. In this work SDt was predicted for France following the directions of GlobalSoilMap, which requires modelling at 90m resolution. This first method, further referred to as DM, consisted of modelling the deterministic trend in SDt using data mining, followed by a bias correction and ordinary kriging of the residuals. Considering the total surface area of France, being about 540K km2, employed methods may need to be able dealing with large data sets. Therefore, a second method, multi-resolution kriging (MrK) for large datasets, was implemented. This method consisted of modelling the deterministic trend by a linear model, followed by interpolation of the residuals. For the two methods, the general trend was assumed to be explained by the biotic and abiotic environmental conditions, as described by the Soil-Landscape paradigm. The mapping accuracy was evaluated by an internal validation and its concordance with previous soil maps. In addition, the prediction interval for DM and the confidence interval for MrK were determined. Finally, the opportunities and limitations of both approaches were evaluated. The results showed consistency in mapped spatial patterns and a good prediction of the mean values. DM was better capable in predicting extreme values due to the bias correction. Also, DM was more powerful in capturing the deterministic trend than the linear model of the MrK approach. However, MrK was found to be more straightforward and flexible in delivering spatial explicit uncertainty measures. The validation indicated that DM was more accurate than MrK. Improvements for DM may be expected by predicting soil depth classes. MrK shows potential for modelling beyond the country level, at high

  7. Flood inundation mapping uncertainty introduced by topographic data accuracy, geometric configuration and modeling approach

    Science.gov (United States)

    Papaioannou, G.; Loukas, Athanasios

    2010-05-01

    Floodplain modeling is a recently new and applied method in river engineering discipline and is essential for prediction of flood hazards. The issue of flood inundation of upland environments with topographically complex floodplains is an understudied subject. In most areas of the U.S.A., the use of topographic information derived from Light Detection and Ranging (LIDAR) has improved the quality of river flood inundation predictions. However, such high quality topographical data are not available in most countries and the necessary information is obtained by topographical survey and/or topographical maps. Furthermore, the optimum dimensionality of hydraulic models, cross-section configuration in one-dimensional (1D) models, mesh resolution in two-dimensional models (2D) and modeling approach is not well studied or documented. All these factors introduce significant uncertainty in the evaluation of the floodplain zoning. This study addresses some of these issues by comparing flood inundation maps developed using different topography, geometric description and modeling approach. The methodology involves use of topographic datasets with different horizontal resolutions, vertical accuracies and bathymetry details. Each topographic dataset is used to create a flood inundation map for different cross-section configurations using 1D (HEC-RAS) model, and different mesh resolutions using 2D models for steady state and unsteady state conditions. Comparison of resulting maps indicates the uncertainty introduced in floodplain modeling by the horizontal resolution and vertical accuracy of topographic data and the different modeling approaches.

  8. A coherent geostatistical approach for combining choropleth map and field data in the spatial interpolation of soil properties

    OpenAIRE

    Goovaerts, P.

    2011-01-01

    Information available for mapping continuous soil attributes often includes point field data and choropleth maps (e.g. soil or geological maps) that model the spatial distribution of soil attributes as the juxtaposition of polygons (areas) with constant values. This paper presents two approaches to incorporate both point and areal data in the spatial interpolation of continuous soil attributes. In the first instance, area-to-point kriging is used to map the variability within soil units while...

  9. [Breeding habitat characteristics of red-crowned crane at Zhalong of Northeast China: a multi-scale approach based on TM and ASAR image data].

    Science.gov (United States)

    Liu, Chun-Yue; Jiang, Hong-Xing; Zhang, Shu-Qing; Hou, Yun-Qiu; Lu, Jun

    2012-02-01

    Based on the Landsat TM and Envisat ASAR HH/HV imagery data and by using the GPS data of red-crowned crane nesting sites (n = 28) at Zhalong National Nature Reserve of Northeast China, the models of the breeding habitat selection of red-crowned crane at the Reserve were established by binary Logistic regression to identify the key variables for the habitat selection at eight spatial scales (30-240 m). The relative performance of the two models based on the Landsat TM and Envisat ASAR HH/HV databases was compared, and the prediction capacity of the models across the eight scales was approached. The overall precisions of the two models were satisfactory (> or = 69.0%). At scale 30 m, only variable TCA_2 entered with negative value into the model based on Landsat TM database, which indicated that the crane at this scale avoided selecting higher density reed marshes. At scales 60-120 m, the variable PCA_2 entered with positive value into the two models, indicating that the crane at these scales had higher demand of high density reed marshes to improve its concealment. At scale 90 m, the variable HV backward scatting coefficient also entered into the combined model, which indicated that water condition was the important factor for the habitat selection of the crane at this scale. At scales > 120 m, the texture information of the two satellite sensors started to be involved into the two models, indicating that at larger scales, the crane had decreasing demand on the vegetation features for its breeding habitat selection but increasing sensitivity to the anthropogenic disturbance factors. The introduction of ASAR variables into the models increased the prediction accuracy of the models markedly at all scales. PMID:22586977

  10. Probabilistic floodplain hazard mapping: managing uncertainty by using a bivariate approach for flood frequency analysis

    Science.gov (United States)

    Candela, Angela; Tito Aronica, Giuseppe

    2014-05-01

    Floods are a global problem and are considered the most frequent natural disaster world-wide. Many studies show that the severity and frequency of floods have increased in recent years and underline the difficulty to separate the effects of natural climatic changes and human influences as land management practices, urbanization etc. Flood risk analysis and assessment is required to provide information on current or future flood hazard and risks in order to accomplish flood risk mitigation, to propose, evaluate and select measures to reduce it. Both components of risk can be mapped individually and are affected by multiple uncertainties as well as the joint estimate of flood risk. Major sources of uncertainty include statistical analysis of extremes events, definition of hydrological input, channel and floodplain topography representation, the choice of effective hydraulic roughness coefficients. The classical procedure to estimate flood discharge for a chosen probability of exceedance is to deal with a rainfall-runoff model associating to risk the same return period of original rainfall, in accordance with the iso-frequency criterion. Alternatively, a flood frequency analysis to a given record of discharge data is applied, but again the same probability is associated to flood discharges and respective risk. Moreover, since flood peaks and corresponding flood volumes are variables of the same phenomenon, they should be, directly, correlated and, consequently, multivariate statistical analyses must be applied. This study presents an innovative approach to obtain flood hazard maps where hydrological input (synthetic flood design event) to a 2D hydraulic model has been defined by generating flood peak discharges and volumes from: a) a classical univariate approach, b) a bivariate statistical analysis, through the use of copulas. The univariate approach considers flood hydrographs generation by an indirect approach (rainfall-runoff transformation using input rainfall

  11. Clustering of the Self-Organizing Map based Approach in Induction Machine Rotor Faults Diagnostics

    Directory of Open Access Journals (Sweden)

    Ahmed TOUMI

    2009-12-01

    Full Text Available Self-Organizing Maps (SOM is an excellent method of analyzingmultidimensional data. The SOM based classification is attractive, due to itsunsupervised learning and topology preserving properties. In this paper, theperformance of the self-organizing methods is investigated in induction motorrotor fault detection and severity evaluation. The SOM is based on motor currentsignature analysis (MCSA. The agglomerative hierarchical algorithms using theWard’s method is applied to automatically dividing the map into interestinginterpretable groups of map units that correspond to clusters in the input data. Theresults obtained with this approach make it possible to detect a rotor bar fault justdirectly from the visualization results. The system is also able to estimate theextent of rotor faults.

  12. Automated mapping of glacial overdeepenings beneath contemporary ice sheets: Approaches and potential applications

    Science.gov (United States)

    Patton, Henry; Swift, Darrel A.; Clark, Chris D.; Livingstone, Stephen J.; Cook, Simon J.; Hubbard, Alun

    2015-03-01

    Awareness is growing on the significance of overdeepenings in ice sheet systems. However, a complete understanding of overdeepening formation is lacking, meaning observations of overdeepening location and morphometry are urgently required to motivate process understanding. Subject to the development of appropriate mapping approaches, high resolution subglacial topography data sets covering the whole of Antarctica and Greenland offer significant potential to acquire such observations and to relate overdeepening characteristics to ice sheet parameters. We explore a possible method for mapping overdeepenings beneath the Antarctic and Greenland ice sheets and illustrate a potential application of this approach by testing a possible relationship between overdeepening elongation ratio and ice sheet flow velocity. We find that hydrological and terrain filtering approaches are unsuited to mapping overdeepenings and develop a novel rule-based GIS methodology that delineates overdeepening perimeters by analysis of closed-contour properties. We then develop GIS procedures that provide information on overdeepening morphology and topographic context. Limitations in the accuracy and resolution of bed-topography data sets mean that application to glaciological problems requires consideration of quality-control criteria to (a) remove potentially spurious depressions and (b) reduce uncertainties that arise from the inclusion of depressions of nonglacial origin, or those in regions where empirical data are sparse. To address the problem of overdeepening elongation, potential quality control criteria are introduced; and discussion of this example serves to highlight the limitations that mapping approaches - and applications of such approaches - must confront. We predict that improvements in bed-data quality will reduce the need for quality control procedures and facilitate increasingly robust insights from empirical data.

  13. A Practical Approach of Selecting the Edge Detector Parameters to Achieve a Good Edge Map of the Gray Image

    Directory of Open Access Journals (Sweden)

    Akram A. Moustafa

    2009-01-01

    Full Text Available Problem statement: practical approach of detecting edge map was proposed. Approach: The methodology of this approach was presented and tested in order to select the best value of the operator, used to smooth and get the gradient, and the threshold value used to convert the gray gradient to binary edge map, so a practical value of the threshold and edge operator coefficient was investigated, these values used to calculate the gradient in order to get a better edge-map. Results: While increasing the value of C (constant C the first parameter in our practical approach of detecting the edge, we narrow the range of t and at the same time the value of the suitable t will be increased toward 1. Conclusion: This approach can be used to get the best edge map and to get a clear edge map, which can be used later in image segmentation and object extraction.

  14. Global land cover mapping at 30 m resolution: A POK-based operational approach

    Science.gov (United States)

    Chen, Jun; Chen, Jin; Liao, Anping; Cao, Xin; Chen, Lijun; Chen, Xuehong; He, Chaoying; Han, Gang; Peng, Shu; Lu, Miao; Zhang, Weiwei; Tong, Xiaohua; Mills, Jon

    2015-05-01

    Global Land Cover (GLC) information is fundamental for environmental change studies, land resource management, sustainable development, and many other societal benefits. Although GLC data exists at spatial resolutions of 300 m and 1000 m, a 30 m resolution mapping approach is now a feasible option for the next generation of GLC products. Since most significant human impacts on the land system can be captured at this scale, a number of researchers are focusing on such products. This paper reports the operational approach used in such a project, which aims to deliver reliable data products. Over 10,000 Landsat-like satellite images are required to cover the entire Earth at 30 m resolution. To derive a GLC map from such a large volume of data necessitates the development of effective, efficient, economic and operational approaches. Automated approaches usually provide higher efficiency and thus more economic solutions, yet existing automated classification has been deemed ineffective because of the low classification accuracy achievable (typically below 65%) at global scale at 30 m resolution. As a result, an approach based on the integration of pixel- and object-based methods with knowledge (POK-based) has been developed. To handle the classification process of 10 land cover types, a split-and-merge strategy was employed, i.e. firstly each class identified in a prioritized sequence and then results are merged together. For the identification of each class, a robust integration of pixel-and object-based classification was developed. To improve the quality of the classification results, a knowledge-based interactive verification procedure was developed with the support of web service technology. The performance of the POK-based approach was tested using eight selected areas with differing landscapes from five different continents. An overall classification accuracy of over 80% was achieved. This indicates that the developed POK-based approach is effective and feasible

  15. Application of fuzzy logic approach for landslide susceptibility mapping in Garuwa sub-basin, East Nepal

    Institute of Scientific and Technical Information of China (English)

    Prabin KAYASTHA

    2012-01-01

    Landslide is one of the major natural disasters which cause extensive loss of life and property.During the last three decades,different researchers have developed different methodologies to prepare landslide susceptibility mapping and hazard assessment in the world.The main goal of this paper is to apply a fuzzy logic approach to landslide susceptibility mapping in the Garuwa sub-basin area,East Nepal.Eight different causative factors are considered:slope angle,slope aspect,slope shape,relative relief,distance from drainage,land use,geology,and distance from active faults.Likelihood ratios are obtained for each class of causative factors by comparison with past landslide occurrences.Then,the likelihood ratios are normalized between zero and one to obtain fuzzy membership values.Next,different fuzzy operators are applied to generate landslide susceptibility maps.Comparison with the landslide inventory map reveals that the fuzzy gamma (γ) operator with a γ-value of 0.70 yields the best prediction accuracy which is then used to produce the final landslide susceptibility zonation map.

  16. MRPack: Multi-Algorithm Execution Using Compute-Intensive Approach in MapReduce.

    Science.gov (United States)

    Idris, Muhammad; Hussain, Shujaat; Siddiqi, Muhammad Hameed; Hassan, Waseem; Syed Muhammad Bilal, Hafiz; Lee, Sungyoung

    2015-01-01

    Large quantities of data have been generated from multiple sources at exponential rates in the last few years. These data are generated at high velocity as real time and streaming data in variety of formats. These characteristics give rise to challenges in its modeling, computation, and processing. Hadoop MapReduce (MR) is a well known data-intensive distributed processing framework using the distributed file system (DFS) for Big Data. Current implementations of MR only support execution of a single algorithm in the entire Hadoop cluster. In this paper, we propose MapReducePack (MRPack), a variation of MR that supports execution of a set of related algorithms in a single MR job. We exploit the computational capability of a cluster by increasing the compute-intensiveness of MapReduce while maintaining its data-intensive approach. It uses the available computing resources by dynamically managing the task assignment and intermediate data. Intermediate data from multiple algorithms are managed using multi-key and skew mitigation strategies. The performance study of the proposed system shows that it is time, I/O, and memory efficient compared to the default MapReduce. The proposed approach reduces the execution time by 200% with an approximate 50% decrease in I/O cost. Complexity and qualitative results analysis shows significant performance improvement. PMID:26305223

  17. Mobile Ground-Based Radar Sensor for Localization and Mapping: An Evaluation of two Approaches

    Directory of Open Access Journals (Sweden)

    Damien Vivet

    2013-08-01

    Full Text Available This paper is concerned with robotic applications using a ground‐based radar sensor for simultaneous localization and mapping problems. In mobile robotics, radar technology is interesting because of its long range and the robustness of radar waves to atmospheric conditions, making these sensors well‐suited for extended outdoor robotic applications. Two localization and mapping approaches using data obtained from a 360° field of view microwave radar sensor are presented and compared. The first method is a trajectory‐ oriented simultaneous localization and mapping technique, which makes no landmark assumptions and avoids the data association problem. The estimation of the ego‐motion makes use of the Fourier‐Mellin transform for registering radar images in a sequence, from which the rotation and translation of the sensor motion can be estimated. The second approach uses the consequence of using a rotating range sensor in high speed robotics. In such a situation, movement combinations create distortions in the collected data. Velocimetry is achieved here by explicitly analysing these measurement distortions. As a result, the trajectory of the vehicle and then the radar map of outdoor environments can be obtained. The evaluation of experimental results obtained by the two methods is presented on real‐world data from a vehicle moving at 30 km/h over a 2.5 km course.

  18. Use of induced mutations in soybean breeding

    International Nuclear Information System (INIS)

    Artificial induction of mutation in plants is carried out using #betta#-irradiation and ethyl metanesulphonate (EMS) to expand the genetic variability of locally-grown soybean. This aspect of mutation breeding complements of conventional breeding approach undertaken by the Joint Malaysia Soybean Breeding Project group. Recovery of agronomically-important mutants such as earliness, lateness, bigger seed size and improved plant architecture were recorded. The significance of these findings is discussed. (author)

  19. Turkers in Africa: A Crowdsourcing Approach to Improving Agricultural Landcover Maps

    Science.gov (United States)

    Estes, L. D.; Caylor, K. K.; Choi, J.

    2012-12-01

    In the coming decades a substantial portion of Africa is expected to be transformed to agriculture. The scale of this conversion may match or exceed that which occurred in the Brazilian Cerrado and Argentinian Pampa in recent years. Tracking the rate and extent of this conversion will depend on having an accurate baseline of the current extent of croplands. Continent-wide baseline data do exist, but the accuracy of these relatively coarse resolution, remotely sensed assessments is suspect in many regions. To develop more accurate maps of the distribution and nature of African croplands, we develop a distributed "crowdsourcing" approach that harnesses human eyeballs and image interpretation capabilities. Our initial goal is to assess the accuracy of existing agricultural land cover maps, but ultimately we aim to generate "wall-to-wall" cropland maps that can be revisited and updated to track agricultural transformation. Our approach utilizes the freely avail- able, high-resolution satellite imagery provided by Google Earth, combined with Amazon.com's Mechanical Turk platform, an online service that provides a large, global pool of workers (known as "Turkers") who perform "Human Intelligence Tasks" (HITs) for a fee. Using open-source R and python software, we select a random sample of 1 km2 cells from a grid placed over our study area, stratified by field density classes drawn from one of the coarse-scale land cover maps, and send these in batches to Mechanical Turk for processing. Each Turker is required to conduct an initial training session, on the basis of which they are assigned an accuracy score that determines whether the Turker is allowed to proceed with mapping tasks. Completed mapping tasks are automatically retrieved and processed on our server, and subject to two further quality control measures. The first of these is a measure of the spatial accuracy of Turker mapped areas compared to a "gold standard" maps from selected locations that are randomly

  20. Stability of synchronous state in networks of chaotic maps by matrix measure approach

    Directory of Open Access Journals (Sweden)

    F Aghaei

    2015-07-01

    Full Text Available Stability of synchronous state is a fundamental problem in synchronization. We study Matrix Measure as an approach for investigating of stability of synchronous states of chaotic maps on complex networks. Matrix Measure is a measure which depends on network structure. Using this measure and comparing with synchronization threshold which depends on the function of the map, show us how the synchronous state can be stabilized. We use these methods for networks with different parameters and topologies. Our numerical calculation shows that synchronous states on more dense networks are more stable. Network’s size is another effective parameter that order of value and extent of stability interval is determined by network’s size. Our results also show that among dense networks, Random and Scale-Free networks have larger stability interval of coupling strength. Finally, we use Error Function to test a prediction of Matrix Measure approach.

  1. Hygienic approaches to radioecological map-making of technogenically contaminated territories

    International Nuclear Information System (INIS)

    Methodical approaches are developed permitting to assess in complex the ecological-hyjienic state of territories contaminated due to the Chernobyl accident with the aid of map-making. In proposed approach the ecological risk of population resistance is assessed depending on combined effect of the complex of factors including radiation contamination and chemical pollution as well as natural features of the area (soil, landscape, etc.). Examples of map-making of a number of areas contaminated as a result of Chernobyl accident are presented. Cartographic analysis of the distribution of factors, states and connections between them permits to rapidly assess the ecological situation, to identify the extremal points of the territory with specific conditions of contaminant effect on human organism

  2. Strategy and Opportunity for The Development of Duck Breeding Farm

    Directory of Open Access Journals (Sweden)

    L Hardy Prasetyo

    2006-09-01

    Full Text Available The recent development of duck farming requires the availability of good quality breeding stocks commercially in order to improve productivity and efficiency . Presently, there is no commercial duck breeding farm which can produce good quality breeding stocks . This article presents information on alternatives in developing duck breeding farm, particularly for layer ducks . There are two alternative approaches in duck breeding farms : (1 Group breeding farm, which belongs to duck farmers' group, as part of a group production system, and (2 Commercial breeding farm, by an individual private company/Semi-Government Institution in a commercial scale and particularly for export market . A good breeding farm requires appropriate systems for selection and mating of the animals in order to guarantee the quality of the breeding stocks being produced . A breeding farm must be economically and technically feasible as an economic entity, so that economic analysis and marketing must be prepared seriously.

  3. An uncertainty and sensitivity analysis approach for GIS-based multicriteria landslide susceptibility mapping

    OpenAIRE

    Feizizadeh, Bakhtiar; Blaschke, Thomas

    2014-01-01

    GIS-based multicriteria decision analysis (MCDA) methods are increasingly being used in landslide susceptibility mapping. However, the uncertainties that are associated with MCDA techniques may significantly impact the results. This may sometimes lead to inaccurate outcomes and undesirable consequences. This article introduces a new GIS-based MCDA approach. We illustrate the consequences of applying different MCDA methods within a decision-making process through uncertainty analysis. Three GI...

  4. Tagging with DHARMA, a DHT-based Approach for Resource Mapping through Approximation

    OpenAIRE

    Aiello, Luca Maria; Milanesio, Marco; Ruffo, Giancarlo; Schifanella, Rossano

    2011-01-01

    We introduce collaborative tagging and faceted search on structured P2P systems. Since a trivial and brute force mapping of an entire folksonomy over a DHT-based system may reduce scalability, we propose an approximated graph maintenance approach. Evaluations on real data coming from Last.fm prove that such strategies reduce vocabulary noise (i.e., representation's overfitting phenomena) and hotspots issues.

  5. Conceptualizing Stakeholders’ Perceptions of Ecosystem Services: A Participatory Systems Mapping Approach

    OpenAIRE

    Lopes, R.; Videira, N

    2016-01-01

    A participatory system dynamics modelling approach is advanced to support conceptualization of feedback processes underlying ecosystem services and to foster a shared understanding of leverage intervention points. The process includes systems mapping workshop and follow-up tasks aiming at the collaborative construction of causal loop diagrams. A case study developed in a natural area in Portugal illustrates how a stakeholder group was actively engaged in the development of a co...

  6. Conceptualizing Stakeholders’ Perceptions of Ecosystem Services: A Participatory Systems Mapping Approach

    OpenAIRE

    Lopes Rita; Videira Nuno

    2015-01-01

    A participatory system dynamics modelling approach is advanced to support conceptualization of feedback processes underlying ecosystem services and to foster a shared understanding of leverage intervention points. The process includes systems mapping workshop and follow-up tasks aiming at the collaborative construction of causal loop diagrams. A case study developed in a natural area in Portugal illustrates how a stakeholder group was actively engaged in the development of a conceptual model ...

  7. Soundscape approach integrating noise mapping techniques: a case study in Brighton, UK

    OpenAIRE

    Aletta Francesco; Kang Jian

    2015-01-01

    In the guidelines about the management of areas of good environmental noise quality recently published by the European Environment Agency (EEA) it is suggested to combine different methodologies, like noise mapping, sound level measurements and the soundscape approach. Such a recommendation has started to be recognised by a number of local authorities in Europe that are gradually integrating a holistic concept into their environmental noise policies. This research aimed to explore and demonst...

  8. A simple qualitative approach for mapping regional landslide susceptibility in the Faroe Islands

    OpenAIRE

    Dahl, M.-P. J.; Mortensen, L. E.; Veihe, A.; Jensen, N. H.

    2010-01-01

    The Faroe Islands in the North Atlantic Ocean are highly susceptible to landslides. Following recent landslide incidents, Jarðfeingi (Faroese Earth and Energy Directorate) has pointed out, that the risk of human lives or of property being lost or affected by landslides may be increasing. This paper aims at presenting and testing a simple qualitative approach for mapping regional landslide susceptibility in the Faroe Islands, using few key parameters. The susceptibility m...

  9. A simple qualitative approach for mapping regional landslide susceptibility in the Faroe Islands

    OpenAIRE

    Dahl, M.-P. J.; Mortensen, L. E.; Veihe, A.; Jensen, N. H.

    2010-01-01

    The Faroe Islands in the North Atlantic Ocean are highly susceptible to landslides. Following recent landslide incidents, Jarðfeingi (Faroese Earth and Energy Directorate) has pointed out, that the risk of human lives or of property being lost or affected by landslides may be increasing. This paper aims at presenting and testing a simple qualitative approach for mapping regional landslide susceptibility in the Faroe Islands, using few key parameters. The susceptibility model holds inf...

  10. Conceptualizing Stakeholders’ Perceptions of Ecosystem Services: A Participatory Systems Mapping Approach

    OpenAIRE

    Lopes Rita; Videira Nuno

    2016-01-01

    A participatory system dynamics modelling approach is advanced to support conceptualization of feedback processes underlying ecosystem services and to foster a shared understanding of leverage intervention points. The process includes systems mapping workshop and follow-up tasks aiming at the collaborative construction of causal loop diagrams. A case study developed in a natural area in Portugal illustrates how a stakeholder group was actively engaged in the development of a conceptual model ...

  11. Conceptualizing Stakeholders' Perceptions of Ecosystem Services: A Participatory Systems Mapping Approach

    Science.gov (United States)

    Lopes, Rita; Videira, Nuno

    2015-12-01

    A participatory system dynamics modelling approach is advanced to support conceptualization of feedback processes underlying ecosystem services and to foster a shared understanding of leverage intervention points. The process includes systems mapping workshop and follow-up tasks aiming at the collaborative construction of causal loop diagrams. A case study developed in a natural area in Portugal illustrates how a stakeholder group was actively engaged in the development of a conceptual model depicting policies for sustaining the climate regulation ecosystem service.

  12. Cognitive Structure of Climate Information System Actors:Using Causal Mapping Approach

    OpenAIRE

    Maryam Sharifzadeh; Gholamhossein Zamani; Mohammadtaghi Iman; Ezatolah Karami

    2012-01-01

    Promoting sustainability, productivity, efficiency, and development of agricultural sector are the functions of utilization of appropriate information in terms of agricultural climate information system (ACIS). In this regard, the main question is that, to what extent does the ACIS lead to or provide the necessary context for agricultural development? This research aimed to employ causal mapping approach to investigate cognitive structure of human actors in a climate information system. This ...

  13. A Systematic Mapping on Supporting Approaches for Requirements Traceability in the Context of Software Projects

    Directory of Open Access Journals (Sweden)

    MALCHER, P R.C.

    2015-12-01

    Full Text Available The Requirements Traceability is seen as a quality factor with regard to software development, being present in standards and quality models. In this context, several techniques, models, frameworks and tools have been used to support it. Thus, the purpose of this paper is to present a systematic mapping carried out in order to find in the literature approaches to support the requirements traceability in the context of software projects and make the categorization of the data found in order to demonstrate, by means of a reliable, accurate and auditable method, how this area has developed and what are the main approaches are used to implement it.

  14. A simple approach to using an amorphous silicon EPID to verify IMRT planar dose maps

    International Nuclear Information System (INIS)

    A simplified method of verifying intensity modulated radiation therapy (IMRT) fields using a Varian aS500 amorphous silicon electronic portal imaging device (EPID) is demonstrated. Unlike previous approaches, it does not involve time consuming or complicated analytical processing of the data. The central axis pixel response of the EPID, as well as the profile characteristics obtained from images acquired with a 6 MV photon beam, was examined as a function of field size. Ion chamber measurements at various depths in a water phantom were then collected and it was found that at a specific depth dref, the dose response and profile characteristics closely matched the results of the EPID analysis. The only manipulation required to be performed on the EPID images was the multiplication of a matrix of off axis ratio values to remove the effect of the flood field calibration. Similarly, dref was found for 18 MV. Planar dose maps at dref in a water phantom for a bar pattern, a strip pattern, and 14 clinical IMRT fields from two patient cases each being from a separate anatomical region, i.e., head and neck as well as the pelvis, for both energies were generated by the Pinnacle planning system (V7.4). EPID images of these fields were acquired and converted to planar dose maps and compared directly with the Pinnacle planar dose maps. Radiographic film dosimetry and a MapCHECK dosimetry device (Sun Nuclear Corporation, Melbourne, FL) were used as an independent verification of the dose distribution. Gamma analysis of the EPID, film, and Pinnacle planar dose maps generated for the clinical IMRT fields showed that approximately 97% of all points passed using a 3% dose/3mm DTA tolerance test. Based on the range of fields studied, the author's results appear to justify using this approach as a method to verify dose distributions calculated on a treatment planning system, including complex intensity modulated fields.

  15. An assessment of a collaborative mapping approach for exploring land use patterns for several European metropolises

    Science.gov (United States)

    Jokar Arsanjani, Jamal; Vaz, Eric

    2015-03-01

    Until recently, land surveys and digital interpretation of remotely sensed imagery have been used to generate land use inventories. These techniques however, are often cumbersome and costly, allocating large amounts of technical and temporal costs. The technological advances of web 2.0 have brought a wide array of technological achievements, stimulating the participatory role in collaborative and crowd sourced mapping products. This has been fostered by GPS-enabled devices, and accessible tools that enable visual interpretation of high resolution satellite images/air photos provided in collaborative mapping projects. Such technologies offer an integrative approach to geography by means of promoting public participation and allowing accurate assessment and classification of land use as well as geographical features. OpenStreetMap (OSM) has supported the evolution of such techniques, contributing to the existence of a large inventory of spatial land use information. This paper explores the introduction of this novel participatory phenomenon for land use classification in Europe's metropolitan regions. We adopt a positivistic approach to assess comparatively the accuracy of these contributions of OSM for land use classifications in seven large European metropolitan regions. Thematic accuracy and degree of completeness of OSM data was compared to available Global Monitoring for Environment and Security Urban Atlas (GMESUA) datasets for the chosen metropolises. We further extend our findings of land use within a novel framework for geography, justifying that volunteered geographic information (VGI) sources are of great benefit for land use mapping depending on location and degree of VGI dynamism and offer a great alternative to traditional mapping techniques for metropolitan regions throughout Europe. Evaluation of several land use types at the local level suggests that a number of OSM classes (such as anthropogenic land use, agricultural and some natural environment

  16. Biotechnology in maize breeding

    Directory of Open Access Journals (Sweden)

    Mladenović-Drinić Snežana

    2004-01-01

    Full Text Available Maize is one of the most important economic crops and the best studied and most tractable genetic system among monocots. The development of biotechnology has led to a great increase in our knowledge of maize genetics and understanding of the structure and behaviour of maize genomes. Conventional breeding practices can now be complemented by a number of new and powerful techniques. Some of these often referred to as molecular methods, enable scientists to see the layout of the entire genome of any organism and to select plants with preferred characteristics by "reading" at the molecular level, saving precious time and resources. DNA markers have provided valuable tools in various analyses ranging from phylogenetic analysis to the positional cloning of genes. Application of molecular markers for genetic studies of maize include: assessment of genetic variability and characterization of germ plasm, identification and fingerprinting of genotypes, estimation of genetic distance, detection of monogamic and quantitative trait loci, marker assisted selection, identification of sequence of useful candidate genes, etc. The development of high-density molecular maps which has been facilitated by PCR-based markers, have made the mapping and tagging of almost any trait possible and serve as bases for marker assisted selection. Sequencing of maize genomes would help to elucidate gene function, gene regulation and their expression. Modern biotechnology also includes an array of tools for introducing or deieting a particular gene or genes to produce plants with novel traits. Development of informatics and biotechnology are resulted in bioinformatic as well as in expansion of microarrey technique. Modern biotechnologies could complement and improve the efficiency of traditional selection and breeding techniques to enhance agricultural productivity.

  17. Genomic rearrangements and signatures of breeding in the allo-octoploid strawberry as revealed through an allele dose based SSR linkage map

    NARCIS (Netherlands)

    Dijk, van T.; Pagliarani, G.; Pikunova, A.; Noordijk, Y.; Yilmaz-Temel, H.; Meulenbroek, B.; Visser, R.G.F.; Weg, van de W.E.

    2014-01-01

    Background Breeders in the allo-octoploid strawberry currently make little use of molecular marker tools. As a first step of a QTL discovery project on fruit quality traits and resistance to soil-borne pathogens such as Phytophthora cactorum and Verticillium we built a genome-wide SSR linkage map fo

  18. An evolutionary approach for colour constancy based on gamut mapping constraint satisfaction

    Indian Academy of Sciences (India)

    Shahin Sabooni; Mohsen Ebrahimi Moghaddam

    2013-08-01

    Many colour constancy algorithms have been proposed to achieve a good performance in this field. The gamut mapping algorithm is one of the most accurate and promising algorithms based on gamut assumption: illuminant can be estimated by comparing the colours distribution in the current image to acanonical gamut (i.e., a pre-learned distribution of colours). However, the gamut mapping algorithm is precise but it is time consuming. Therefore, some other methods such as GCIE (gamut constrained illuminant estimation) and CGM (cubical gamut mapping) have been proposed which work faster. However, the results of such methods are poor when the source light is not in the pre-defined ones. In this paper, we propose an evolutionary algorithm for colour constancy based on gamut mapping assumption. This approach overcomes the mentioned problem in other gamut-based methods. The proposed evolutionary method uses a simple chromosome structure together with simple operators such as mutation, selection, and reproduction. Two versions of the proposed methods have been presented here. The first one works on image pixels, while the second one tries on image derivative. The experiments were done on three different data sets that are used in literature and results were satisfactory. The results showed that the proposed method is much improved when compared to other related methods in most of the time especially in the case of real world images.

  19. A systematic approach to mapping recessive disease genes in individuals from outbred populations.

    Directory of Open Access Journals (Sweden)

    Friedhelm Hildebrandt

    2009-01-01

    Full Text Available The identification of recessive disease-causing genes by homozygosity mapping is often restricted by lack of suitable consanguineous families. To overcome these limitations, we apply homozygosity mapping to single affected individuals from outbred populations. In 72 individuals of 54 kindred ascertained worldwide with known homozygous mutations in 13 different recessive disease genes, we performed total genome homozygosity mapping using 250,000 SNP arrays. Likelihood ratio Z-scores (ZLR were plotted across the genome to detect ZLR peaks that reflect segments of homozygosity by descent, which may harbor the mutated gene. In 93% of cases, the causative gene was positioned within a consistent ZLR peak of homozygosity. The number of peaks reflected the degree of inbreeding. We demonstrate that disease-causing homozygous mutations can be detected in single cases from outbred populations within a single ZLR peak of homozygosity as short as 2 Mb, containing an average of only 16 candidate genes. As many specialty clinics have access to cohorts of individuals from outbred populations, and as our approach will result in smaller genetic candidate regions, the new strategy of homozygosity mapping in single outbred individuals will strongly accelerate the discovery of novel recessive disease genes.

  20. Geologic Map of the Olympia Cavi Region of Mars (MTM 85200): A Summary of Tactical Approaches

    Science.gov (United States)

    Skinner, J. A., Jr.; Herkenhoff, K.

    2010-01-01

    The 1:500K-scale geologic map of MTM 85200 - the Olympia Cavi region of Mars - has been submitted for peer review [1]. Physiographically, the quadrangle includes portions of Olympia Rupes, a set of sinuous scarps which elevate Planum Boreum 800 meters above Olympia Planum. The region includes the high-standing, spiral troughs of Boreales Scopuli, the rugged and deep depressions of Olympia Cavi, and the vast dune fields of Olympia Undae. Geologically, the mapped units and landforms reflect the recent history of repeated accumulation and degradation. The widespread occurrence of both weakly and strongly stratified units implicates the drape-like accumulation of ice, dust, and sand through climatic variations. Similarly, the occurrence of layer truncations, particularly at unit boundaries, implicates punctuated periods of both localized and regional erosion and surface deflation whereby underlying units were exhumed and their material transported and re-deposited. Herein, we focus on the iterative mapping approaches that allowed not only the accommodation of the burgeoning variety and volume of data sets, but also facilitated the efficient presentation of map information. Unit characteristics and their geologic history are detailed in past abstracts [2-3].

  1. A reciprocal space approach for locating symmetry elements in Patterson superposition maps

    Energy Technology Data Exchange (ETDEWEB)

    Hendrixson, T.

    1990-09-21

    A method for determining the location and possible existence of symmetry elements in Patterson superposition maps has been developed. A comparison of the original superposition map and a superposition map operated on by the symmetry element gives possible translations to the location of the symmetry element. A reciprocal space approach using structure factor-like quantities obtained from the Fourier transform of the superposition function is then used to determine the best'' location of the symmetry element. Constraints based upon the space group requirements are also used as a check on the locations. The locations of the symmetry elements are used to modify the Fourier transform coefficients of the superposition function to give an approximation of the structure factors, which are then refined using the EG relation. The analysis of several compounds using this method is presented. Reciprocal space techniques for locating multiple images in the superposition function are also presented, along with methods to remove the effect of multiple images in the Fourier transform coefficients of the superposition map. In addition, crystallographic studies of the extended chain structure of (NHC{sub 5}H{sub 5})SbI{sub 4} and of the twinning method of the orthorhombic form of the high-{Tc} superconductor YBa{sub 2}Cu{sub 3}O{sub 7-x} are presented. 54 refs.

  2. Mapping Variable Width Riparian Zones Utilizing Open Source Data: A Robust New Approach

    Science.gov (United States)

    Abood, S. A.; Maclean, A.

    2013-12-01

    Riparian buffers are dynamic, transitional ecosystems between aquatic and terrestrial ecosystems with well-defined vegetation and soil characteristics. Previous approaches to riparian buffer delineation have primarily utilized fixed width buffers. However, these methodologies only take the watercourse into consideration and ignore critical geomorphology, associated vegetation and soil characteristics. Utilizing spatial data readily available from government agencies and geospatial clearinghouses, such as DEMs and the National Hydrography Dataset, the Riparian Buffer Delineation Model (RBDM) offers advantages by harnessing the geospatial modeling capabilities of ArcMap GIS, incorporating a statistically valid sampling technique along the watercourse to accurately map the critical 50-year plain, and delineating a variable width riparian buffer. Options within the model allow incorporation of National Wetlands Inventory (NWI), Soil Survey Data (SSURGO), National Land Cover Data (NLCD) and/or Cropland Data Layer (CDL) to improve the accuracy and utility of the riparian buffers attributes. This approach recognizes the dynamic and transitional natures of riparian buffers by accounting for hydrologic, geomorphic and vegetation data as inputs into the delineation process. By allowing the incorporation of land cover data, decision makers acquire a useful tool to assist in managing riparian buffers. The model is formatted as an ArcMap toolbox for easy installation and does require a Spatial Analyst license. Variable width riparian buffer utilizing 50-year flood height and 10m DEM. RBDM Inputs

  3. A new multicriteria risk mapping approach based on a multiattribute frontier concept.

    Science.gov (United States)

    Yemshanov, Denys; Koch, Frank H; Ben-Haim, Yakov; Downing, Marla; Sapio, Frank; Siltanen, Marty

    2013-09-01

    Invasive species risk maps provide broad guidance on where to allocate resources for pest monitoring and regulation, but they often present individual risk components (such as climatic suitability, host abundance, or introduction potential) as independent entities. These independent risk components are integrated using various multicriteria analysis techniques that typically require prior knowledge of the risk components' importance. Such information is often nonexistent for many invasive pests. This study proposes a new approach for building integrated risk maps using the principle of a multiattribute efficient frontier and analyzing the partial order of elements of a risk map as distributed in multidimensional criteria space. The integrated risks are estimated as subsequent multiattribute frontiers in dimensions of individual risk criteria. We demonstrate the approach with the example of Agrilus biguttatus Fabricius, a high-risk pest that may threaten North American oak forests in the near future. Drawing on U.S. and Canadian data, we compare the performance of the multiattribute ranking against a multicriteria linear weighted averaging technique in the presence of uncertainties, using the concept of robustness from info-gap decision theory. The results show major geographic hotspots where the consideration of tradeoffs between multiple risk components changes integrated risk rankings. Both methods delineate similar geographical regions of high and low risks. Overall, aggregation based on a delineation of multiattribute efficient frontiers can be a useful tool to prioritize risks for anticipated invasive pests, which usually have an extremely poor prior knowledge base. PMID:23339716

  4. A Photogrammetric Approach for Assessing Positional Accuracy of OpenStreetMap© Roads

    Directory of Open Access Journals (Sweden)

    Peter Doucette

    2013-04-01

    Full Text Available As open source volunteered geographic information continues to gain popularity, the user community and data contributions are expected to grow, e.g., CloudMade, Apple, and Ushahidi now provide OpenStreetMap© (OSM as a base layer for some of their mapping applications. This, coupled with the lack of cartographic standards and the expectation to one day be able to use this vector data for more geopositionally sensitive applications, like GPS navigation, leaves potential users and researchers to question the accuracy of the database. This research takes a photogrammetric approach to determining the positional accuracy of OSM road features using stereo imagery and a vector adjustment model. The method applies rigorous analytical measurement principles to compute accurate real world geolocations of OSM road vectors. The proposed approach was tested on several urban gridded city streets from the OSM database with the results showing that the post adjusted shape points improved positionally by 86%. Furthermore, the vector adjustment was able to recover 95% of the actual positional displacement present in the database. To demonstrate a practical application, a head-to-head positional accuracy assessment between OSM, the USGS National Map (TNM, and United States Census Bureau’s Topologically Integrated Geographic Encoding Referencing (TIGER 2007 roads was conducted.

  5. Cognitive Structure of Climate Information System Actors:Using Causal Mapping Approach

    Directory of Open Access Journals (Sweden)

    Maryam Sharifzadeh

    2012-01-01

    Full Text Available Promoting sustainability, productivity, efficiency, and development of agricultural sector are the functions of utilization of appropriate information in terms of agricultural climate information system (ACIS. In this regard, the main question is that, to what extent does the ACIS lead to or provide the necessary context for agricultural development? This research aimed to employ causal mapping approach to investigate cognitive structure of human actors in a climate information system. This explorative qualitative research used case study methodology. This paper is an examination and reflection upon analysis of qualitative data reports, with particular attention to the process of interactively elicited causal maps based on focus group interviews. An exploratory coding approach was used to identify concepts that emerged from the interview transcripts. The relevant knowledge is gathered through the tacit understandings of climate information producers (2 groups, extensionists (6 groups, and users (7 groups in Fars province to reach to the point of redundancy. Investigating causal maps revealed that, actors perceived climate information system challenges as economic, information processing, socio-political, organizational, and technical challenges. The study provided some suggestions to reach to a responsive short term and sustainable long term climate information system in Fars province.

  6. History of Modern Earthquake Hazard Mapping and Assessment in California Using a Deterministic or Scenario Approach

    Science.gov (United States)

    Mualchin, Lalliana

    2011-03-01

    Modern earthquake ground motion hazard mapping in California began following the 1971 San Fernando earthquake in the Los Angeles metropolitan area of southern California. Earthquake hazard assessment followed a traditional approach, later called Deterministic Seismic Hazard Analysis (DSHA) in order to distinguish it from the newer Probabilistic Seismic Hazard Analysis (PSHA). In DSHA, seismic hazard in the event of the Maximum Credible Earthquake (MCE) magnitude from each of the known seismogenic faults within and near the state are assessed. The likely occurrence of the MCE has been assumed qualitatively by using late Quaternary and younger faults that are presumed to be seismogenic, but not when or within what time intervals MCE may occur. MCE is the largest or upper-bound potential earthquake in moment magnitude, and it supersedes and automatically considers all other possible earthquakes on that fault. That moment magnitude is used for estimating ground motions by applying it to empirical attenuation relationships, and for calculating ground motions as in neo-DSHA (Z uccolo et al., 2008). The first deterministic California earthquake hazard map was published in 1974 by the California Division of Mines and Geology (CDMG) which has been called the California Geological Survey (CGS) since 2002, using the best available fault information and ground motion attenuation relationships at that time. The California Department of Transportation (Caltrans) later assumed responsibility for printing the refined and updated peak acceleration contour maps which were heavily utilized by geologists, seismologists, and engineers for many years. Some engineers involved in the siting process of large important projects, for example, dams and nuclear power plants, continued to challenge the map(s). The second edition map was completed in 1985 incorporating more faults, improving MCE's estimation method, and using new ground motion attenuation relationships from the latest published

  7. Molecular mapping and construction of SCAR markers of the strawberry Rpf 1 resistance gene to Phytophthora fragariae and their use in breeding programs

    OpenAIRE

    Haymes, K.M.; Weg, van de, H; Arens, P; Vosman, B.; Nijs, den, J.C.M.

    1997-01-01

    The commercial strawberry (Fragaria x ananassa) resistance gene Rpfl conferring resistance to various isolates of Phytophthora fragariae, was mapped using 7 RAPD markers. A DNA fragment representing a RAPD marker linked to susceptibility was cloned, sequenced and converted into a sequence characterized amplified region (SCAR) marker. Next, SCAR primers to the resistant allele (SCAR-R) were developed based upon a deletion region between susceptible and resistant plants. The SCAR-R primers were...

  8. Molecular mapping and construction of SCAR markers of the strawberry Rpf1 resistance gene to Phytophthora fragariae and their use in breeding programmes

    OpenAIRE

    Haymes, K.M.; Weg, van de, H; Arens, P; Vosman, B.; den Nijs, A.P.M.

    1998-01-01

    The commercial strawberry (Fragaria x ananassa) resistance gene Rpfl conferring resistance to various isolates of Phytophthora fragariae, was mapped using 7 RAPD markers. A DNA fragment representing a RAPD marker linked to susceptibility was cloned, sequenced and converted into a sequence characterized amplified region (SCAR) marker. Next, SCAR primers to the resistant allele (SCAR-R) were developed based upon a deletion region between susceptible and resistant plants. The SCAR-R primers were...

  9. Evaluation of various modelling approaches in flood routing simulation and flood area mapping

    Science.gov (United States)

    Papaioannou, George; Loukas, Athanasios; Vasiliades, Lampros; Aronica, Giuseppe

    2016-04-01

    An essential process of flood hazard analysis and mapping is the floodplain modelling. The selection of the modelling approach, especially, in complex riverine topographies such as urban and suburban areas, and ungauged watersheds may affect the accuracy of the outcomes in terms of flood depths and flood inundation area. In this study, a sensitivity analysis implemented using several hydraulic-hydrodynamic modelling approaches (1D, 2D, 1D/2D) and the effect of modelling approach on flood modelling and flood mapping was investigated. The digital terrain model (DTMs) used in this study was generated from Terrestrial Laser Scanning (TLS) point cloud data. The modelling approaches included 1-dimensional hydraulic-hydrodynamic models (1D), 2-dimensional hydraulic-hydrodynamic models (2D) and the coupled 1D/2D. The 1D hydraulic-hydrodynamic models used were: HECRAS, MIKE11, LISFLOOD, XPSTORM. The 2D hydraulic-hydrodynamic models used were: MIKE21, MIKE21FM, HECRAS (2D), XPSTORM, LISFLOOD and FLO2d. The coupled 1D/2D models employed were: HECRAS(1D/2D), MIKE11/MIKE21(MIKE FLOOD platform), MIKE11/MIKE21 FM(MIKE FLOOD platform), XPSTORM(1D/2D). The validation process of flood extent achieved with the use of 2x2 contingency tables between simulated and observed flooded area for an extreme historical flash flood event. The skill score Critical Success Index was used in the validation process. The modelling approaches have also been evaluated for simulation time and requested computing power. The methodology has been implemented in a suburban ungauged watershed of Xerias river at Volos-Greece. The results of the analysis indicate the necessity of sensitivity analysis application with the use of different hydraulic-hydrodynamic modelling approaches especially for areas with complex terrain.

  10. An internal state variable mapping approach for Li-Plating diagnosis

    Science.gov (United States)

    Bai, Guangxing; Wang, Pingfeng

    2016-08-01

    Li-ion battery failure becomes one of major challenges for reliable battery applications, as it could cause catastrophic consequences. Compared with capacity fading resulted from calendar effects, Li-plating induced battery failures are more difficult to identify, as they causes sudden capacity loss leaving limited time for failure diagnosis. This paper presents a new internal state variable (ISV) mapping approach to identify values of immeasurable battery ISVs considering changes of inherent parameters of battery system dynamics for Li-plating diagnosis. Employing the developed ISV mapping approach, an explicit functional relationship model between measurable battery signals and immeasurable battery ISVs can be developed. The developed model can then be used to identify ISVs from an online battery system for the occurrence identification of Li-plating. Employing multiphysics based simulation of Li-plating using COMSOL, the proposed Li-plating diagnosis approach is implemented under different conditions in the case studies to demonstrate its efficacy in diagnosis of Li-plating onset timings.

  11. Toward a Materials Genome Approach for ionic liquids: synthesis guided by ab initio property maps.

    Science.gov (United States)

    Yan, Fangyong; Lartey, Michael; Jariwala, Kuldeep; Bowser, Sage; Damodaran, Krishnan; Albenze, Erik; Luebke, David R; Nulwala, Hunaid B; Smit, Berend; Haranczyk, Maciej

    2014-11-26

    The Materials Genome Approach (MGA) aims to accelerate development of new materials by incorporating computational and data-driven approaches to reduce the cost of identification of optimal structures for a given application. Here, we use the MGA to guide the synthesis of triazolium-based ionic liquids (ILs). Our approach involves an IL property-mapping tool, which merges combinatorial structure enumeration, descriptor-based structure representation and sampling, and property prediction using molecular simulations. The simulated properties such as density, diffusivity, and gas solubility obtained for a selected set of representative ILs were used to build neural network models and map properties for all enumerated species. Herein, a family of ILs based on ca. 200,000 triazolium-based cations paired with the bis(trifluoromethanesulfonyl)amide anion was investigated using our MGA. Fourteen representative ILs spreading the entire range of predicted properties were subsequently synthesized and then characterized confirming the predicted density, diffusivity, and CO2 Henry's Law coefficient. Moreover, the property (CO2, CH4, and N2 solubility) trends associated with exchange of the bis(trifluoromethanesulfonyl)amide anion with one of 32 other anions were explored and quantified. PMID:25356930

  12. Non-invasive multiparametric qBOLD approach for robust mapping of the oxygen extraction fraction

    Energy Technology Data Exchange (ETDEWEB)

    Domsch, Sebastian; Mie, Moritz B.; Schad, Lothar R. [Heidelberg Univ., Medical Faculty Mannheim (Germany). Computer Assisted Clinical Medicine; Wenz, Frederik [Heidelberg Univ., Medical Faculty Mannheim (Germany). Dept. of Radiation Oncology

    2014-10-01

    Introduction: The quantitative blood oxygenation level-dependent (qBOLD) method has not become clinically established yet because long acquisition times are necessary to achieve an acceptable certainty of the parameter estimates. In this work, a non-invasive multiparametric (nimp) qBOLD approach based on a simple analytical model is proposed to facilitate robust oxygen extraction fraction (OEF) mapping within clinically acceptable acquisition times by using separate measurements. Methods: The protocol consisted of a gradient-echo sampled spin-echo sequence (GESSE), a T{sub 2}-weighted Carr-Purcell-Meiboom-Gill (CPMG) sequence, and a T{sub 2}{sup *}-weighted multi-slice multi-echo gradient echo (MMGE) sequence. The GESSE acquisition time was less than 5 minutes and the extra measurement time for CPMG / MMGE was below 2 minutes each. The proposed nimp-qBOLD approach was validated in healthy subjects (N = 5) and one patient. Results: The proposed nimp-qBOLD approach facilitated more robust OEF mapping with significantly reduced inter- and intra-subject variability compared to the standard qBOLD method. Thereby, an average OEF in all subjects of 27 ± 2 % in white matter (WM) and 29 ± 2 % in gray matter (GM) using the nimp-qBOLD method was more stable compared to 41 ± 10 % (WM) and 46 ± 10 % (GM) with standard qBOLD. Moreover, the spatial variance in the image slice (i.e. standard deviation divided by mean) was on average reduced from 35 % to 25 %. In addition, the preliminary results of the patient are encouraging. Conclusion: The proposed nimp-qBOLD technique provides a promising tool for robust OEF mapping within clinically acceptable acquisition times and could therefore provide an important contribution for analyzing tumors or monitoring the success of radio and chemo therapies. (orig.)

  13. Conceptualizing Stakeholders’ Perceptions of Ecosystem Services: A Participatory Systems Mapping Approach

    Directory of Open Access Journals (Sweden)

    Lopes Rita

    2015-12-01

    Full Text Available A participatory system dynamics modelling approach is advanced to support conceptualization of feedback processes underlying ecosystem services and to foster a shared understanding of leverage intervention points. The process includes systems mapping workshop and follow-up tasks aiming at the collaborative construction of causal loop diagrams. A case study developed in a natural area in Portugal illustrates how a stakeholder group was actively engaged in the development of a conceptual model depicting policies for sustaining the climate regulation ecosystem service.

  14. Mind-mapping for lung cancer: Towards a personalized therapeutics approach

    OpenAIRE

    Mollberg, N; Surati, M; Demchuk, C; R Fathi; Salama, AK; Husain, AN; Hensing, T; Salgia, R

    2011-01-01

    There will be over 220,000 people diagnosed with lung cancer and over 160,000 dying of lung cancer this year alone in the United States. In order to arrive at better control, prevention, diagnosis, and therapeutics for lung cancer, we must be able to personalize the approach towards lung cancer. Mind-mapping has existed for centuries for physicians to properly think about various “flows” of personalized medicine. We include here the epidemiology, diagnosis, histology, and treatment of lung ca...

  15. Use of Mapping and Spatial and Space-Time Modeling Approaches in Operational Control of Aedes aegypti and Dengue

    OpenAIRE

    Eisen, Lars; Lozano-Fuentes, Saul

    2009-01-01

    The aims of this review paper are to 1) provide an overview of how mapping and spatial and space-time modeling approaches have been used to date to visualize and analyze mosquito vector and epidemiologic data for dengue; and 2) discuss the potential for these approaches to be included as routine activities in operational vector and dengue control programs. Geographical information system (GIS) software are becoming more user-friendly and now are complemented by free mapping software that prov...

  16. Genomic rearrangements and signatures of breeding in the allo-octoploid strawberry as revealed through an allele dose based SSR linkage map

    OpenAIRE

    van Dijk; Pagliarani, G.; Pikunova, A.; Noordijk, Y.; Yilmaz-Temel, H.; Meulenbroek, B; Visser, R. G. F.; Weg, van de, H

    2014-01-01

    Background Breeders in the allo-octoploid strawberry currently make little use of molecular marker tools. As a first step of a QTL discovery project on fruit quality traits and resistance to soil-borne pathogens such as Phytophthora cactorum and Verticillium we built a genome-wide SSR linkage map for the cross Holiday x Korona. We used the previously published MADCE method to obtain full haplotype information for both of the parental cultivars, facilitating in-depth studies on their genomic o...

  17. Buffaloes breeding in Brasil

    OpenAIRE

    O. Bernardes

    2010-01-01

    Differently from what one could formerly imagine, that buffalo breeding activity would be solely directed to fill the so called cattle breeding gaps determined by inadequate environmental conditions for ordinary cattle breeding, it has been actually seen that in those areas where breeders could successfully organize industrial-agricultural chains, either on meat or milk and its related products production, there has been an expressive expansion .Buffalo breeding has shown to be an important a...

  18. Improving long time behavior of Poisson bracket mapping equation: A non-Hamiltonian approach

    International Nuclear Information System (INIS)

    Understanding nonadiabatic dynamics in complex systems is a challenging subject. A series of semiclassical approaches have been proposed to tackle the problem in various settings. The Poisson bracket mapping equation (PBME) utilizes a partial Wigner transform and a mapping representation for its formulation, and has been developed to describe nonadiabatic processes in an efficient manner. Operationally, it is expressed as a set of Hamilton's equations of motion, similar to more conventional classical molecular dynamics. However, this original Hamiltonian PBME sometimes suffers from a large deviation in accuracy especially in the long time limit. Here, we propose a non-Hamiltonian variant of PBME to improve its behavior especially in that limit. As a benchmark, we simulate spin-boson and photosynthetic model systems and find that it consistently outperforms the original PBME and its Ehrenfest style variant. We explain the source of this improvement by decomposing the components of the mapping Hamiltonian and by assessing the energy flow between the system and the bath. We discuss strengths and weaknesses of our scheme with a viewpoint of offering future prospects

  19. An entropy-driven matrix completion (E-MC) approach to complex network mapping

    Science.gov (United States)

    Koochakzadeh, Ali; Pal, Piya

    2016-05-01

    Mapping the topology of a complex network in a resource-efficient manner is a challenging problem with applications in internet mapping, social network inference, and so forth. We propose a new entropy driven algorithm leveraging ideas from matrix completion, to map the network using monitors (or sensors) which, when placed on judiciously selected nodes, are capable of discovering their immediate neighbors. The main challenge is to maximize the portion of discovered network using only a limited number of available monitors. To this end, (i) a new measure of entropy or uncertainty is associated with each node, in terms of the currently discovered edges incident on that node, and (ii) a greedy algorithm is developed to select a candidate node for monitor placement based on its entropy. Utilizing the fact that many complex networks of interest (such as social networks), have a low-rank adjacency matrix, a matrix completion algorithm, namely 1-bit matrix completion, is combined with the greedy algorithm to further boost its performance. The low rank property of the network adjacency matrix can be used to extrapolate a portion of missing edges, and consequently update the node entropies, so as to efficiently guide the network discovery algorithm towards placing monitors on the nodes that can turn out to be more informative. Simulations performed on a variety of real world networks such as social networks and peer networks demonstrate the superior performance of the matrix-completion guided approach in discovering the network topology.

  20. Flight investigation of helicopter IFR approaches to oil rigs using airborne weather and mapping radar

    Science.gov (United States)

    Bull, J. S.; Hegarty, D. M.; Phillips, J. D.; Sturgeon, W. R.; Hunting, A. W.; Pate, D. P.

    1979-01-01

    Airborne weather and mapping radar is a near-term, economical method of providing 'self-contained' navigation information for approaches to offshore oil rigs and its use has been rapidly expanding in recent years. A joint NASA/FAA flight test investigation of helicopter IFR approaches to offshore oil rigs in the Gulf of Mexico was initiated in June 1978 and conducted under contract to Air Logistics. Approximately 120 approaches were flown in a Bell 212 helicopter by 15 operational pilots during the months of August and September 1978. The purpose of the tests was to collect data to (1) support development of advanced radar flight director concepts by NASA and (2) aid the establishment of Terminal Instrument Procedures (TERPS) criteria by the FAA. The flight test objectives were to develop airborne radar approach procedures, measure tracking errors, determine accpetable weather minimums, and determine pilot acceptability. Data obtained will contribute significantly to improved helicopter airborne radar approach capability and to the support of exploration, development, and utilization of the Nation's offshore oil supplies.

  1. The field line map approach for simulations of magnetically confined plasmas

    CERN Document Server

    Stegmeir, Andreas; Maj, Omar; Hallatschek, Klaus; Lackner, Karl

    2015-01-01

    In the presented field line map approach the simulation domain of a tokamak is covered with a cylindrical grid, which is Cartesian within poloidal planes. Standard finite-difference methods can be used for the discretisation of perpendicular (w.r.t.~magnetic field lines) operators. The characteristic flute mode property $\\left(k_{\\parallel}\\ll k_{\\perp}\\right)$ of structures is exploited computationally by a grid sparsification in the toroidal direction. A field line following discretisation of parallel operators is then required, which is achieved via a finite difference along magnetic field lines. This includes field line tracing and interpolation or integration. The main emphasis of this paper is on the discretisation of the parallel diffusion operator. Based on the support operator method a scheme is constructed which exhibits only very low numerical perpendicular diffusion. The schemes are implemented in the new code GRILLIX, and extensive benchmarks are presented which show the validity of the approach ...

  2. Dissection of a Complex Disease Susceptibility Region Using a Bayesian Stochastic Search Approach to Fine Mapping.

    Directory of Open Access Journals (Sweden)

    Chris Wallace

    2015-06-01

    Full Text Available Identification of candidate causal variants in regions associated with risk of common diseases is complicated by linkage disequilibrium (LD and multiple association signals. Nonetheless, accurate maps of these variants are needed, both to fully exploit detailed cell specific chromatin annotation data to highlight disease causal mechanisms and cells, and for design of the functional studies that will ultimately be required to confirm causal mechanisms. We adapted a Bayesian evolutionary stochastic search algorithm to the fine mapping problem, and demonstrated its improved performance over conventional stepwise and regularised regression through simulation studies. We then applied it to fine map the established multiple sclerosis (MS and type 1 diabetes (T1D associations in the IL-2RA (CD25 gene region. For T1D, both stepwise and stochastic search approaches identified four T1D association signals, with the major effect tagged by the single nucleotide polymorphism, rs12722496. In contrast, for MS, the stochastic search found two distinct competing models: a single candidate causal variant, tagged by rs2104286 and reported previously using stepwise analysis; and a more complex model with two association signals, one of which was tagged by the major T1D associated rs12722496 and the other by rs56382813. There is low to moderate LD between rs2104286 and both rs12722496 and rs56382813 (r2 ≃ 0:3 and our two SNP model could not be recovered through a forward stepwise search after conditioning on rs2104286. Both signals in the two variant model for MS affect CD25 expression on distinct subpopulations of CD4+ T cells, which are key cells in the autoimmune process. The results support a shared causal variant for T1D and MS. Our study illustrates the benefit of using a purposely designed model search strategy for fine mapping and the advantage of combining disease and protein expression data.

  3. Genetic dissection of drought and heat tolerance in chickpea through genome-wide and candidate gene-based association mapping approaches.

    Science.gov (United States)

    Thudi, Mahendar; Upadhyaya, Hari D; Rathore, Abhishek; Gaur, Pooran Mal; Krishnamurthy, Lakshmanan; Roorkiwal, Manish; Nayak, Spurthi N; Chaturvedi, Sushil Kumar; Basu, Partha Sarathi; Gangarao, N V P R; Fikre, Asnake; Kimurto, Paul; Sharma, Prakash C; Sheshashayee, M S; Tobita, Satoshi; Kashiwagi, Junichi; Ito, Osamu; Killian, Andrzej; Varshney, Rajeev Kumar

    2014-01-01

    To understand the genetic basis of tolerance to drought and heat stresses in chickpea, a comprehensive association mapping approach has been undertaken. Phenotypic data were generated on the reference set (300 accessions, including 211 mini-core collection accessions) for drought tolerance related root traits, heat tolerance, yield and yield component traits from 1-7 seasons and 1-3 locations in India (Patancheru, Kanpur, Bangalore) and three locations in Africa (Nairobi, Egerton in Kenya and Debre Zeit in Ethiopia). Diversity Array Technology (DArT) markers equally distributed across chickpea genome were used to determine population structure and three sub-populations were identified using admixture model in STRUCTURE. The pairwise linkage disequilibrium (LD) estimated using the squared-allele frequency correlations (r2; when r2<0.20) was found to decay rapidly with the genetic distance of 5 cM. For establishing marker-trait associations (MTAs), both genome-wide and candidate gene-sequencing based association mapping approaches were conducted using 1,872 markers (1,072 DArTs, 651 single nucleotide polymorphisms [SNPs], 113 gene-based SNPs and 36 simple sequence repeats [SSRs]) and phenotyping data mentioned above employing mixed linear model (MLM) analysis with optimum compression with P3D method and kinship matrix. As a result, 312 significant MTAs were identified and a maximum number of MTAs (70) was identified for 100-seed weight. A total of 18 SNPs from 5 genes (ERECTA, 11 SNPs; ASR, 4 SNPs; DREB, 1 SNP; CAP2 promoter, 1 SNP and AMDH, 1SNP) were significantly associated with different traits. This study provides significant MTAs for drought and heat tolerance in chickpea that can be used, after validation, in molecular breeding for developing superior varieties with enhanced drought and heat tolerance. PMID:24801366

  4. Genetic dissection of drought and heat tolerance in chickpea through genome-wide and candidate gene-based association mapping approaches.

    Directory of Open Access Journals (Sweden)

    Mahendar Thudi

    Full Text Available To understand the genetic basis of tolerance to drought and heat stresses in chickpea, a comprehensive association mapping approach has been undertaken. Phenotypic data were generated on the reference set (300 accessions, including 211 mini-core collection accessions for drought tolerance related root traits, heat tolerance, yield and yield component traits from 1-7 seasons and 1-3 locations in India (Patancheru, Kanpur, Bangalore and three locations in Africa (Nairobi, Egerton in Kenya and Debre Zeit in Ethiopia. Diversity Array Technology (DArT markers equally distributed across chickpea genome were used to determine population structure and three sub-populations were identified using admixture model in STRUCTURE. The pairwise linkage disequilibrium (LD estimated using the squared-allele frequency correlations (r2; when r2<0.20 was found to decay rapidly with the genetic distance of 5 cM. For establishing marker-trait associations (MTAs, both genome-wide and candidate gene-sequencing based association mapping approaches were conducted using 1,872 markers (1,072 DArTs, 651 single nucleotide polymorphisms [SNPs], 113 gene-based SNPs and 36 simple sequence repeats [SSRs] and phenotyping data mentioned above employing mixed linear model (MLM analysis with optimum compression with P3D method and kinship matrix. As a result, 312 significant MTAs were identified and a maximum number of MTAs (70 was identified for 100-seed weight. A total of 18 SNPs from 5 genes (ERECTA, 11 SNPs; ASR, 4 SNPs; DREB, 1 SNP; CAP2 promoter, 1 SNP and AMDH, 1SNP were significantly associated with different traits. This study provides significant MTAs for drought and heat tolerance in chickpea that can be used, after validation, in molecular breeding for developing superior varieties with enhanced drought and heat tolerance.

  5. Non-invasive computation of aortic pressure maps: a phantom-based study of two approaches

    Science.gov (United States)

    Delles, Michael; Schalck, Sebastian; Chassein, Yves; Müller, Tobias; Rengier, Fabian; Speidel, Stefanie; von Tengg-Kobligk, Hendrik; Kauczor, Hans-Ulrich; Dillmann, Rüdiger; Unterhinninghofen, Roland

    2014-03-01

    Patient-specific blood pressure values in the human aorta are an important parameter in the management of cardiovascular diseases. A direct measurement of these values is only possible by invasive catheterization at a limited number of measurement sites. To overcome these drawbacks, two non-invasive approaches of computing patient-specific relative aortic blood pressure maps throughout the entire aortic vessel volume are investigated by our group. The first approach uses computations from complete time-resolved, three-dimensional flow velocity fields acquired by phasecontrast magnetic resonance imaging (PC-MRI), whereas the second approach relies on computational fluid dynamics (CFD) simulations with ultrasound-based boundary conditions. A detailed evaluation of these computational methods under realistic conditions is necessary in order to investigate their overall robustness and accuracy as well as their sensitivity to certain algorithmic parameters. We present a comparative study of the two blood pressure computation methods in an experimental phantom setup, which mimics a simplified thoracic aorta. The comparative analysis includes the investigation of the impact of algorithmic parameters on the MRI-based blood pressure computation and the impact of extracting pressure maps in a voxel grid from the CFD simulations. Overall, a very good agreement between the results of the two computational approaches can be observed despite the fact that both methods used completely separate measurements as input data. Therefore, the comparative study of the presented work indicates that both non-invasive pressure computation methods show an excellent robustness and accuracy and can therefore be used for research purposes in the management of cardiovascular diseases.

  6. Sheep resources of Ethiopia : genetic diversity and breeding strategy

    OpenAIRE

    Gebremichael, S.

    2008-01-01

    Twenty percent of the world domestic animal breeds are classified as being “at risk” of extinction. Seventy percent of the mammalian breeds, for which no risk status data are available, are found in the developing world. This is a serious constraint to effective prioritization and planning of sustainable breed conservation measures, including sustainable breeding strategies. The objectives of this thesis were to develop improved approaches to characterization of sheep resources, and sustainab...

  7. In Silico Design of Human IMPDH Inhibitors Using Pharmacophore Mapping and Molecular Docking Approaches

    Directory of Open Access Journals (Sweden)

    Rui-Juan Li

    2015-01-01

    Full Text Available Inosine 5′-monophosphate dehydrogenase (IMPDH is one of the crucial enzymes in the de novo biosynthesis of guanosine nucleotides. It has served as an attractive target in immunosuppressive, anticancer, antiviral, and antiparasitic therapeutic strategies. In this study, pharmacophore mapping and molecular docking approaches were employed to discover novel Homo sapiens IMPDH (hIMPDH inhibitors. The Güner-Henry (GH scoring method was used to evaluate the quality of generated pharmacophore hypotheses. One of the generated pharmacophore hypotheses was found to possess a GH score of 0.67. Ten potential compounds were selected from the ZINC database using a pharmacophore mapping approach and docked into the IMPDH active site. We find two hits (i.e., ZINC02090792 and ZINC00048033 that match well the optimal pharmacophore features used in this investigation, and it is found that they form interactions with key residues of IMPDH. We propose that these two hits are lead compounds for the development of novel hIMPDH inhibitors.

  8. Constructivist-Visual Mind Map Teaching Approach and the Quality of Students' Cognitive Structures

    Science.gov (United States)

    Dhindsa, Harkirat S.; Makarimi-Kasim; Roger Anderson, O.

    2011-04-01

    This study compared the effects of a constructivist-visual mind map teaching approach (CMA) and of a traditional teaching approach (TTA) on (a) the quality and richness of students' knowledge structures and (b) TTA and CMA students' perceptions of the extent that a constructivist learning environment (CLE) was created in their classes. The sample of the study consisted of six classes (140 Form 3 students of 13-15 years old) selected from a typical coeducational school in Brunei. Three classes (40 boys and 30 girls) were taught using the TTA while three other classes (41 boys and 29 girls) used the CMA, enriched with PowerPoint presentations. After the interventions (lessons on magnetism), the students in both groups were asked to describe in writing their understanding of magnetism accrued from the lessons. Their written descriptions were analyzed using flow map analyses to assess their content knowledge and its organisation in memory as evidence of cognitive structure. The extent of CLE was measured using a published CLE survey. The results showed that the cognitive structures of the CMA students were more extensive, thematically organised and richer in interconnectedness of thoughts than those of TTA students. Moreover, CMA students also perceived their classroom learning environment to be more constructivist than their counterparts. It is, therefore, recommended that teachers consider using the CMA teaching technique to help students enrich their understanding, especially for more complex or abstract scientific content.

  9. Mapping CO2 emission in highly urbanized region using standardized microbial respiration approach

    Science.gov (United States)

    Vasenev, V. I.; Stoorvogel, J. J.; Ananyeva, N. D.

    2012-12-01

    Urbanization is a major recent land-use change pathway. Land conversion to urban has a tremendous and still unclear effect on soil cover and functions. Urban soil can act as a carbon source, although its potential for CO2 emission is also very high. The main challenge in analysis and mapping soil organic carbon (SOC) in urban environment is its high spatial heterogeneity and temporal dynamics. The urban environment provides a number of specific features and processes that influence soil formation and functioning and results in a unique spatial variability of carbon stocks and fluxes at short distance. Soil sealing, functional zoning, settlement age and size are the predominant factors, distinguishing heterogeneity of urban soil carbon. The combination of these factors creates a great amount of contrast clusters with abrupt borders, which is very difficult to consider in regional assessment and mapping of SOC stocks and soil CO2 emission. Most of the existing approaches to measure CO2 emission in field conditions (eddy-covariance, soil chambers) are very sensitive to soil moisture and temperature conditions. They require long-term sampling set during the season in order to obtain relevant results. This makes them inapplicable for the analysis of CO2 emission spatial variability at the regional scale. Soil respiration (SR) measurement in standardized lab conditions enables to overcome this difficulty. SR is predominant outgoing carbon flux, including autotrophic respiration of plant roots and heterotrophic respiration of soil microorganisms. Microbiota is responsible for 50-80% of total soil carbon outflow. Microbial respiration (MR) approach provides an integral CO2 emission results, characterizing microbe CO2 production in optimal conditions and thus independent from initial difference in soil temperature and moisture. The current study aimed to combine digital soil mapping (DSM) techniques with standardized microbial respiration approach in order to analyse and

  10. Citrus breeding, genetics and genomics in Japan.

    Science.gov (United States)

    Omura, Mitsuo; Shimada, Takehiko

    2016-01-01

    Citrus is one of the most cultivated fruits in the world, and satsuma mandarin (Citrus unshiu Marc.) is a major cultivated citrus in Japan. Many excellent cultivars derived from satsuma mandarin have been released through the improvement of mandarins using a conventional breeding method. The citrus breeding program is a lengthy process owing to the long juvenility, and it is predicted that marker-assisted selection (MAS) will overcome the obstacle and improve the efficiency of conventional breeding methods. To promote citrus molecular breeding in Japan, a genetic mapping was initiated in 1987, and the experimental tools and resources necessary for citrus functional genomics have been developed in relation to the physiological analysis of satsuma mandarin. In this paper, we review the progress of citrus breeding and genome researches in Japan and report the studies on genetic mapping, expression sequence tag cataloguing, and molecular characterization of breeding characteristics, mainly in terms of the metabolism of bio-functional substances as well as factors relating to, for example, fruit quality, disease resistance, polyembryony, and flowering. PMID:27069387

  11. Hyperspectral Data for Mangrove Species Mapping: A Comparison of Pixel-Based and Object-Based Approach

    Directory of Open Access Journals (Sweden)

    Muhammad Kamal

    2011-10-01

    Full Text Available Visual image interpretation and digital image classification have been used to map and monitor mangrove extent and composition for decades. The presence of a high-spatial resolution hyperspectral sensor can potentially improve our ability to differentiate mangrove species. However, little research has explored the use of pixel-based and object-based approaches on high-spatial hyperspectral datasets for this purpose. This study assessed the ability of CASI-2 data for mangrove species mapping using pixel-based and object-based approaches at the mouth of the Brisbane River area, southeast Queensland, Australia. Three mapping techniques used in this study: spectral angle mapper (SAM and linear spectral unmixing (LSU for the pixel-based approaches, and multi-scale segmentation for the object-based image analysis (OBIA. The endmembers for the pixel-based approach were collected based on existing vegetation community map. Nine targeted classes were mapped in the study area from each approach, including three mangrove species: Avicennia marina, Rhizophora stylosa, and Ceriops australis. The mapping results showed that SAM produced accurate class polygons with only few unclassified pixels (overall accuracy 69%, Kappa 0.57, the LSU resulted in a patchy polygon pattern with many unclassified pixels (overall accuracy 56%, Kappa 0.41, and the object-based mapping produced the most accurate results (overall accuracy 76%, Kappa 0.67. Our results demonstrated that the object-based approach, which combined a rule-based and nearest-neighbor classification method, was the best classifier to map mangrove species and its adjacent environments.

  12. A Semiparametric Approach for Composite Functional Mapping of Dynamic Quantitative Traits

    OpenAIRE

    Yang, Runqing; Gao, Huijiang; Wang, Xin; Zhang, Ji; Zeng, Zhao-Bang; Wu, Rongling

    2007-01-01

    Functional mapping has emerged as a powerful tool for mapping quantitative trait loci (QTL) that control developmental patterns of complex dynamic traits. Original functional mapping has been constructed within the context of simple interval mapping, without consideration of separate multiple linked QTL for a dynamic trait. In this article, we present a statistical framework for mapping QTL that affect dynamic traits by capitalizing on the strengths of functional mapping and composite interva...

  13. An integrated approach for updating cadastral maps in Pakistan using satellite remote sensing data

    Science.gov (United States)

    Ali, Zahir; Tuladhar, Arbind; Zevenbergen, Jaap

    2012-08-01

    Updating cadastral information is crucial for recording land ownership and property division changes in a timely fashioned manner. In most cases, the existing cadastral maps do not provide up-to-date information on land parcel boundaries. Such a situation demands that all the cadastral data and parcel boundaries information in these maps to be updated in a timely fashion. The existing techniques for acquiring cadastral information are discipline-oriented based on different disciplines such as geodesy, surveying, and photogrammetry. All these techniques require a large number of manpower, time, and cost when they are carried out separately. There is a need to integrate these techniques for acquiring cadastral information to update the existing cadastral data and (re)produce cadastral maps in an efficient manner. To reduce the time and cost involved in cadastral data acquisition, this study develops an integrated approach by integrating global position system (GPS) data, remote sensing (RS) imagery, and existing cadastral maps. For this purpose, the panchromatic image with 0.6 m spatial resolution and the corresponding multi-spectral image with 2.4 m spatial resolution and 3 spectral bands from QuickBird satellite were used. A digital elevation model (DEM) was extracted from SPOT-5 stereopairs and some ground control points (GCPs) were also used for ortho-rectifying the QuickBird images. After ortho-rectifying these images and registering the multi-spectral image to the panchromatic image, fusion between them was attained to get good quality multi-spectral images of these two study areas with 0.6 m spatial resolution. Cadastral parcel boundaries were then identified on QuickBird images of the two study areas via visual interpretation using participatory-GIS (PGIS) technique. The regions of study are the urban and rural areas of Peshawar and Swabi districts in the Khyber Pakhtunkhwa province of Pakistan. The results are the creation of updated cadastral maps with a

  14. Mapping Complex Urban Land Cover from Spaceborne Imagery: The Influence of Spatial Resolution, Spectral Band Set and Classification Approach

    Directory of Open Access Journals (Sweden)

    Rahman Momeni

    2016-01-01

    Full Text Available Detailed land cover information is valuable for mapping complex urban environments. Recent enhancements to satellite sensor technology promise fit-for-purpose data, particularly when processed using contemporary classification approaches. We evaluate this promise by comparing the influence of spatial resolution, spectral band set and classification approach for mapping detailed urban land cover in Nottingham, UK. A WorldView-2 image provides the basis for a set of 12 images with varying spatial and spectral characteristics, and these are classified using three different approaches (maximum likelihood (ML, support vector machine (SVM and object-based image analysis (OBIA to yield 36 output land cover maps. Classification accuracy is evaluated independently and McNemar tests are conducted between all paired outputs (630 pairs in total to determine which classifications are significantly different. Overall accuracy varied between 35% for ML classification of 30 m spatial resolution, 4-band imagery and 91% for OBIA classification of 2 m spatial resolution, 8-band imagery. The results demonstrate that spatial resolution is clearly the most influential factor when mapping complex urban environments, and modern “very high resolution” or VHR sensors offer great advantage here. However, the advanced spectral capabilities provided by some recent sensors, coupled with contemporary classification approaches (especially SVMs and OBIA, can also lead to significant gains in mapping accuracy. Ongoing development in instrumentation and methodology offer huge potential here and imply that urban mapping opportunities will continue to grow.

  15. Advances in protein improvement of spring barley by mutation breeding based on a quantitative genetic approach with integrated selection for protein content, lysine content and grain yield

    International Nuclear Information System (INIS)

    Simultaneous selection for several quantitative breeding characters is demonstrated by an 'integrated selection method' on spring barley with the characters protein content, lysine content and grain yield. A mutation breeding programme (modified pedigree selection) and a cross-breeding programme (pedigree selection) are compared on the basis of different selection procedures (integrated selection, selection using independent culling levels). The differences are demonstrated on a realized gain through selection (RGSsub(r)), relative to parents in M9. Application of 'integrated selection' is demonstrated in two stages, resulting in a general selection model for protein characters in relation to grain yield. Significant mutants selected in M9 on the basis of improved utilizable protein yield (UPY = gram utilizable protein/m2) are compared with their mutagenic origin. Differences in mutagenic efficiency among varieties and among types and numbers of repeated treatments are discussed. A significant improvement using integrated selection for UPY is found to be possible in the range of 10 to 15%, compared with parents. Improvement is observed in three significant fractions: (1) protein improved at higher rates than grain yield, (2) protein improved at equal rates with grain yield, and (3) protein improved at lower rates than grain yield. All mutants selected from the mutation breeding programme were found to inherit the three characters quantitatively. Selection between families (M2 to M7) and within families (M8 to M9) was effective at both stages, provided genetic advance was determined by the significant selection rates used throughout the entire selection process. (author)

  16. Validation of Land Cover Maps in China Using a Sampling-Based Labeling Approach

    Directory of Open Access Journals (Sweden)

    Yan Bai

    2015-08-01

    Full Text Available This paper presents a rigorous validation of five widely used global land cover products, i.e., GLCC (Global Land Cover Characterization, UMd (University of Maryland land cover product, GLC2000 (Global Land Cover 2000 project data, MODIS LC (Moderate Resolution Imaging Spectro-radiometer Land Cover product and GlobCover (GLOBCOVER land cover product, and a national land cover map GLCD-2005 (Geodata Land Cover Dataset for year 2005 against an independent reference data set over China. The land cover reference data sets in three epochs (1990, 2000, and 2005 were collected on a web-based prototype system using a sampling-based labeling approach. Results show that, in China, the highest overall accuracy is observed in GLCD-2005 (72.3%, followed by MODIS LC (68.9%, GLC2000 (65.2%, GlobCover (57.7% and GLCC (57.2%, while UMd has the lowest accuracy (48.6%; all of the products performed best in representing “Trees” and “Others”, well with “Grassland” and “Cropland”, but problematic with “Water” and “Urban” across China in general. Moreover, in respect of GLCD-2005, there are significant accuracy differences across seven geographical locations of China, ranging from 46.3% in the Southwest, 77.5% in the South, 79.2% in the Northwest, 80.8% in the North, 81.8% in the Northeast, 82.6% in the Central, to 89.0% in the East. This study indicates that a regionally focused land cover map would in fact be more accurate than extracting the same region from a globally produced map.

  17. Structuring an Efficient Organic Wheat Breeding Program

    Directory of Open Access Journals (Sweden)

    P. Stephen Baenziger

    2011-08-01

    Full Text Available Our long-term goal is to develop wheat cultivars that will improve the profitability and competitiveness of organic producers in Nebraska and the Northern Great Plains. Our approach is to select in early generations for highly heritable traits that are needed for both organic and conventional production (another breeding goal, followed by a targeted organic breeding effort with testing at two organic locations (each in a different ecological region beginning with the F6 generation. Yield analyses from replicated trials at two organic breeding sites and 7 conventional breeding sites from F6 through F12 nurseries revealed, using analyses of variance, biplots, and comparisons of selected lines that it is inappropriate to use data from conventional testing for making germplasm selections for organic production. Selecting and testing lines under organic production practices in different ecological regions was also needed and cultivar selections for organic production were different than those for conventional production. Modifications to this breeding protocol may include growing early generation bulks in an organic cropping system. In the future, our selection efforts should also focus on using state-of-the-art, non-transgenic breeding technologies (genomic selection, marker-assisted breeding, and high throughput phenotyping to synergistically improve organic and conventional wheat breeding.

  18. An efficient unsupervised index based approach for mapping urban vegetation from IKONOS imagery

    Science.gov (United States)

    Anchang, Julius Y.; Ananga, Erick O.; Pu, Ruiliang

    2016-08-01

    Despite the increased availability of high resolution satellite image data, their operational use for mapping urban land cover in Sub-Saharan Africa continues to be limited by lack of computational resources and technical expertise. As such, there is need for simple and efficient image classification techniques. Using Bamenda in North West Cameroon as a test case, we investigated two completely unsupervised pixel based approaches to extract tree/shrub (TS) and ground vegetation (GV) cover from an IKONOS derived soil adjusted vegetation index. These included: (1) a simple Jenks Natural Breaks classification and (2) a two-step technique that combined the Jenks algorithm with agglomerative hierarchical clustering. Both techniques were compared with each other and with a non-linear support vector machine (SVM) for classification performance. While overall classification accuracy was generally high for all techniques (>90%), One-Way Analysis of Variance tests revealed the two step technique to outperform the simple Jenks classification in terms of predicting the GV class. It also outperformed the SVM in predicting the TS class. We conclude that the unsupervised methods are technically as good and practically superior for efficient urban vegetation mapping in budget and technically constrained regions such as Sub-Saharan Africa.

  19. A Non-parametric Approach to Constrain the Transfer Function in Reverberation Mapping

    CERN Document Server

    Li, Yan-Rong; Bai, Jin-Ming

    2016-01-01

    Broad emission lines of active galactic nuclei stem from a spatially extended region (broad-line region; BLR) that are composed of discrete clouds and photoionized by the central ionizing continuum. The temporal behaviors of these emission lines are blurred echoes of the continuum variations (i.e., reverberation mapping; RM) and directly reflect structures and kinematics information of BLRs through the so-called transfer function (also known as velocity-delay map). Based on the previous works of Rybicki & Press (1992) and Zu et al. (2011), we develop an extended, non-parametric approach to determine the transfer function for RM data, in which the transfer function is expressed as a sum of a family of relatively-displaced Gaussian response functions. As such, arbitrary shapes of transfer functions associated with complicated BLR geometry can be seamlessly included, enabling us to relax the presumption of a specified transfer function frequently adopted in previous studies and to let it be determined by obs...

  20. Plant breeding and genetics newsletter. No. 9

    International Nuclear Information System (INIS)

    There have been a number of important events related to the activity of the Plant Breeding and Genetics sub-programme in the past six months. The joint FAO/IAEA RCMs on 'Molecular characterization of mutated genes controlling important traits for seed crop improvement' and 'Mutational analysis of root characters in annual food plants related to plant performance' were held in June, in Krakow, Poland. It was the third RCM of the CRP on crop plant genomics and the second in the CRP on root systems. More than 40 scientists from twenty countries participated in the meeting. Significant progress was achieved in presented projects of diverse areas of both CRPs. Although genomics and root genetics are methodologically among the most rapidly developing disciplines, the participants successfully tried to follow the latest developments. The Consultants Meeting on 'Physical mapping technologies for the identification and characterization of mutated genes contributing to crop quality' was also held in June, in Vienna. Physical mapping technologies provide new tools for the rapid advancement of breeding programs and are highly applicable to neglected crops in developing countries. Furthermore, they open new opportunities for developing modern approaches to plant improvement research. Consultants recommended the organization of a Co-ordinated Research Project dealing with application of these new technologies to breeding programmes with the use of induced mutations for crop improvement. It is expected that the new CRP will be initiated this year. In close collaboration with EU COST 851 'Gametic cells and molecular breeding for crop improvement' project we started with preparation and editing of a book on 'Doubled haploid production in crop plants. A manual'. More than 40 manuscripts were collected, reviewed by a team of EU COST 851 experts and are now in the final editing phase. Similarly, we finished editorial work on publishing the training material from the FAO/IAEA Training

  1. Inverse field-based approach for simultaneous B1 mapping at high fields - A phantom based study

    Science.gov (United States)

    Jin, Jin; Liu, Feng; Zuo, Zhentao; Xue, Rong; Li, Mingyan; Li, Yu; Weber, Ewald; Crozier, Stuart

    2012-04-01

    Based on computational electromagnetics and multi-level optimization, an inverse approach of attaining accurate mapping of both transmit and receive sensitivity of radiofrequency coils is presented. This paper extends our previous study of inverse methods of receptivity mapping at low fields, to allow accurate mapping of RF magnetic fields (B1) for high-field applications. Accurate receive sensitivity mapping is essential to image domain parallel imaging methods, such as sensitivity encoding (SENSE), to reconstruct high quality images. Accurate transmit sensitivity mapping will facilitate RF-shimming and parallel transmission techniques that directly address the RF inhomogeneity issue, arguably the most challenging issue of high-field magnetic resonance imaging (MRI). The inverse field-based approach proposed herein is based on computational electromagnetics and iterative optimization. It fits an experimental image to the numerically calculated signal intensity by iteratively optimizing the coil-subject geometry to better resemble the experiments. Accurate transmit and receive sensitivities are derived as intermediate results of the optimization process. The method is validated by imaging studies using homogeneous saline phantom at 7T. A simulation study at 300 MHz demonstrates that the proposed method is able to obtain receptivity mapping with errors an order of magnitude less than that of the conventional method. The more accurate receptivity mapping and simultaneously obtained transmit sensitivity mapping could enable artefact-reduced and intensity-corrected image reconstructions. It is hoped that by providing an approach to the accurate mapping of both transmit and receive sensitivity, the proposed method will facilitate a range of applications in high-field MRI and parallel imaging.

  2. A universal airborne LiDAR approach for tropical forest carbon mapping.

    Science.gov (United States)

    Asner, Gregory P; Mascaro, Joseph; Muller-Landau, Helene C; Vieilledent, Ghislain; Vaudry, Romuald; Rasamoelina, Maminiaina; Hall, Jefferson S; van Breugel, Michiel

    2012-04-01

    Airborne light detection and ranging (LiDAR) is fast turning the corner from demonstration technology to a key tool for assessing carbon stocks in tropical forests. With its ability to penetrate tropical forest canopies and detect three-dimensional forest structure, LiDAR may prove to be a major component of international strategies to measure and account for carbon emissions from and uptake by tropical forests. To date, however, basic ecological information such as height-diameter allometry and stand-level wood density have not been mechanistically incorporated into methods for mapping forest carbon at regional and global scales. A better incorporation of these structural patterns in forests may reduce the considerable time needed to calibrate airborne data with ground-based forest inventory plots, which presently necessitate exhaustive measurements of tree diameters and heights, as well as tree identifications for wood density estimation. Here, we develop a new approach that can facilitate rapid LiDAR calibration with minimal field data. Throughout four tropical regions (Panama, Peru, Madagascar, and Hawaii), we were able to predict aboveground carbon density estimated in field inventory plots using a single universal LiDAR model (r ( 2 ) = 0.80, RMSE = 27.6 Mg C ha(-1)). This model is comparable in predictive power to locally calibrated models, but relies on limited inputs of basal area and wood density information for a given region, rather than on traditional plot inventories. With this approach, we propose to radically decrease the time required to calibrate airborne LiDAR data and thus increase the output of high-resolution carbon maps, supporting tropical forest conservation and climate mitigation policy. PMID:22033763

  3. A simple qualitative approach for mapping regional landslide susceptibility in the Faroe Islands

    Directory of Open Access Journals (Sweden)

    M.-P. J. Dahl

    2010-02-01

    Full Text Available The Faroe Islands in the North Atlantic Ocean are highly susceptible to landslides. Following recent landslide incidents, Jarðfeingi (Faroese Earth and Energy Directorate has pointed out, that the risk of human lives or of property being lost or affected by landslides may be increasing. This paper aims at presenting and testing a simple qualitative approach for mapping regional landslide susceptibility in the Faroe Islands, using few key parameters. The susceptibility model holds information about both landslide initiation areas and runout zones. Landslide initiation areas are determined from slope angle thresholds (25°–40° and soil cover data, while runout zones are delineated using the angle of reach approach taking into account the presence/absence of geological benches in the runout path, which has not been considered in earlier studies. Data input is obtained from a landslide database containing 67 debris flows throughout the Faroe Islands. Angle of reach values differ significantly with the presence/absence of geological benches in the runout path. Two values of angle of reach, 21.5° and 27.6°, are used for calculating runout zones. The landslide susceptibility model is tested in a study area at the town of Klaksvík in the northern part of the Faroe Islands. A map validation comparing predicted susceptibility zones with a validation-dataset of 87 actual landslides in the study area reveal that 69% and 92%, respectively, of actual landslide initiation areas and runout zones are correctly predicted. Moreover 87% of the actual landslides are included in the overall predicted landslide susceptibility areas.

  4. Comparison of approaches for aquifer vulnerability mapping and recharge modelling at regional and local scales, Okanagan Basin, British Columbia

    OpenAIRE

    Liggett, Jessica Erin

    2008-01-01

    Aquifer vulnerability and direct recharge from precipitation were modelled in Okanagan Basin, British Columbia. The vulnerability study evaluated mapping approaches for regional and local scales using the DRASTIC method. Original rating tables provide sufficient detail for mapping at regional scales, where broad ranges of geologic material are present. However, modified rating tables improved spatial representation of input parameters at local scales, which is useful for local planning. Spati...

  5. Experimenting the design-based k-NN approach for mapping and estimation under forest management planning

    OpenAIRE

    Mattioli W; Quatrini V; Di Paolo S; Di Santo D; Giuliarelli D; Angelini A.; Portoghesi L; Corona P

    2012-01-01

    Estimation and mapping of forest attributes are a fundamental support for forest management planning. This study describes a practical experimentation concerning the use of design-based k-Nearest Neighbors (k-NN) approach to estimate and map selected attributes in the framework of inventories at forest management level. The study area was the Chiarino forest within the Gran Sasso and Monti della Laga National Park (central Italy). Aboveground biomass and current annual increment of tree volum...

  6. Multiple regression approach to mapping of quantitative trait loci (QTL) based on sib-pair data: a theoretical analysis

    OpenAIRE

    Xiong, Momiao; Guo, Sunwei

    2000-01-01

    The interval mapping method has been shown to be a powerful tool for mapping QTL. However, it is still a challenge to perform a simultaneous analysis of several linked QTLs, and to isolate multiple linked QTLs. To circumvent these problems, multiple regression analysis has been suggested for experimental species. In this paper, the multiple regression approach is extended to human sib-pair data through multiple regression of the squared difference in trait values between two...

  7. Genomic dairy cattle breeding

    DEFF Research Database (Denmark)

    Mark, Thomas; Sandøe, Peter

    2010-01-01

    The aim of this paper is to discuss the potential consequences of modern dairy cattle breeding for the welfare of dairy cows. The paper focuses on so-called genomic selection, which deploys thousands of genetic markers to estimate breeding values. The discussion should help to structure the...... thoughts of breeders and other stakeholders on how to best make use of genomic breeding in the future. Intensive breeding has played a major role in securing dramatic increases in milk yield since the Second World War. Until recently, the main focus in dairy cattle breeding was on production traits, but......, unfavourable genetic trends for metabolic, reproductive, claw and leg diseases indicate that these attempts have been insufficient. Today, novel genome-wide sequencing techniques are revolutionising dairy cattle breeding; these enable genetic changes to occur at least twice as rapidly as previously. While...

  8. Induced mutations in sesame breeding

    International Nuclear Information System (INIS)

    The scope of induced mutations in sesame (Sesamum indicum L.) breeding is reviewed. So far in Egypt, India, Iraq, Rep. of Korea, and Sri Lanka, 14 officially released varieties have been developed through induced mutations: 12 directly and 2 through cross breeding (one using the 'dt45' induced mutant from Israel). For another variety released in China there are no details. The induced mutations approach was adopted primarily in order to obtain genetic variability that was not available in the germplasm collection. The mutagens commonly applied have been gamma rays, EMS and sodium azide. Sesame seeds can withstand high mutagen doses, and there are genotypic differences in sensitivity between varieties. The mutants induced in the above named countries and others include better yield, improved seed retention, determinate habit, modified plant architecture and size, more uniform and shorter maturation period, earliness, resistance to diseases, genic male sterility, seed coat color, higher oil content and modified fatty acids composition. Some of the induced mutants have already given rise to improved varieties, the breeding value of other mutants is now being assessed and still others can serve as useful markers in genetic studies and breeding programmes. (author)

  9. Labelling plants the Chernobyl way: A new approach for mapping rhizodeposition and biopore reuse

    Science.gov (United States)

    Banfield, Callum; Kuzyakov, Yakov

    2016-04-01

    A novel approach for mapping root distribution and rhizodeposition using 137Cs and 14C was applied. By immersing cut leaves into vials containing 137CsCl solution, the 137Cs label is taken up and partly released into the rhizosphere, where it strongly binds to soil particles, thus labelling the distribution of root channels in the long term. Reuse of root channels in crop rotations can be determined by labelling the first crop with 137Cs and the following crop with 14C. Imaging of the β- radiation with strongly differing energies differentiates active roots growing in existing root channels (14C + 137Cs activity) from roots growing in bulk soil (14C activity only). The feasibility of the approach was shown in a pot experiment with ten plants of two species, Cichorium intybus L., and Medicago sativa L. The same plants were each labelled with 100 kBq of 137CsCl and after one week with 500 kBq of 14CO2. 96 h later pots were cut horizontally at 6 cm depth. After the first 137Cs + 14C imaging of the cut surface, imaging was repeated with three layers of plastic film between the cut surface and the plate for complete shielding of 14C β- radiation to the background level, producing an image of the 137Cs distribution. Subtracting the second image from the first gave the 14C image. Both species allocated 18 - 22% of the 137Cs and about 30 - 40% of 14C activity below ground. Intensities far above the detection limit suggest that this approach is applicable to map the root system by 137Cs and to obtain root size distributions through image processing. The rhizosphere boundary was defined by the point at which rhizodeposited 14C activity declined to 5% of the activity of the root centre. Medicago showed 25% smaller rhizosphere extension than Cichorium, demonstrating that plant-specific rhizodeposition patterns can be distinguished. Our new approach is appropriate to visualise processes and hotspots on multiple scales: Heterogeneous rhizodeposition, as well as size and counts

  10. A coherent geostatistical approach for combining choropleth map and field data in the spatial interpolation of soil properties.

    Science.gov (United States)

    Goovaerts, P

    2011-06-01

    Information available for mapping continuous soil attributes often includes point field data and choropleth maps (e.g. soil or geological maps) that model the spatial distribution of soil attributes as the juxtaposition of polygons (areas) with constant values. This paper presents two approaches to incorporate both point and areal data in the spatial interpolation of continuous soil attributes. In the first instance, area-to-point kriging is used to map the variability within soil units while ensuring the coherence of the prediction so that the average of disaggregated estimates is equal to the original areal datum. The resulting estimates are then used as local means in residual kriging. The second approach proceeds in one step and capitalizes on: 1) a general formulation of kriging that allows the combination of both point and areal data through the use of area-to-area, area-to-point, and point-to-point covariances in the kriging system, 2) the availability of GIS to discretize polygons of irregular shape and size, and 3) knowledge of the point-support variogram model that can be inferred directly from point measurements, thereby eliminating the need for deconvolution procedures. The two approaches are illustrated using the geological map and heavy metal concentrations recorded in the topsoil of the Swiss Jura. Sensitivity analysis indicates that the new procedures improve prediction over ordinary kriging and traditional residual kriging based on the assumption that the local mean is constant within each mapping unit. PMID:22308075

  11. Genomics-assisted breeding for boosting crop improvement in pigeonpea (Cajanus cajan

    Directory of Open Access Journals (Sweden)

    Lekha ePazhamala

    2015-02-01

    Full Text Available Pigeonpea is an important pulse crop grown predominantly in the tropical and sub-tropical regions of the world. Although pigeonpea growing area has considerably increased, yield has remained stagnant for the last six decades mainly due to the exposure of the crop to various biotic and abiotic constraints. In addition, low level of genetic variability and limited genomic resources have been serious impediments to pigeonpea crop improvement through modern breeding approaches. In recent years, however, due to the availability of next generation sequencing and high-throughput genotyping technologies, the scenario has changed tremendously. The reduced sequencing costs resulting in the decoding of the pigeonpea genome has led to the development of various genomic resources including molecular markers, transcript sequences and comprehensive genetic maps. Mapping of some important traits including resistance to Fusarium wilt and sterility mosaic disease, fertility restoration, determinacy with other agronomically important traits have paved the way for applying genomics-assisted breeding (GAB through marker assisted selection as well as genomic selection. This would lead to accelerate the development and improvement of both varieties and hybrids in pigeonpea. Particularly for hybrid breeding programme, mitochondrial genomes of cytoplasmic male sterile lines, maintainers and hybrids have also been sequenced to identify genes responsible for cytoplasmic male sterility. Furthermore, several diagnostic molecular markers have been developed to assess the purity of commercial hybrids. In summary, pigeonpea has become a genomic resources-rich crop and efforts have already been initiated to integrate these resources in pigeonpea breeding.

  12. A new approach of mapping soils in the Alps - Challenges of deriving soil information and creating soil maps for sustainable land use. An example from South Tyrol (Italy)

    Science.gov (United States)

    Baruck, Jasmin; Gruber, Fabian E.; Geitner, Clemens

    2015-04-01

    Nowadays sustainable land use management is gaining importance because intensive land use leads to increasing soil degradation. Especially in mountainous regions like the Alps sustainable land use management is important, as topography limits land use. Therefore, a database containing detailed information of soil characteristics is required. However, information of soil properties is far from being comprehensive. The project "ReBo - Terrain classification based on airborne laser scanning data to support soil mapping in the Alps", founded by the Autonomous Province of Bolzano, aims at developing a methodical framework of how to obtain soil data. The approach combines geomorphometric analysis and soil mapping to generate modern soil maps at medium-scale in a time and cost efficient way. In this study the open source GRASS GIS extension module r.geomorphon (Jasciewicz and Stepinski, 2013) is used to derive topographically homogeneous landform units out of high resolution DTMs on scale 1:5.000. Furthermore, for terrain segmentation and classification we additionally use medium-scale data sets (geology, parent material, land use etc.). As the Alps are characterized by a great variety of topography, parent material, wide range of moisture regimes etc. getting reliable soil data is difficult. Additionally, geomorphic activity (debris flow, landslide etc.) leads to natural disturbances. Thus, soil properties are highly diverse and largely scale dependent. Furthermore, getting soil information of anthropogenically influenced soils is an added challenge. Due to intensive cultivation techniques the natural link between the soil forming factors is often repealed. In South Tyrol we find the largest pome producing area in Europe. Normally, the annual precipitation is not enough for intensive orcharding. Thus, irrigation strategies are in use. However, as knowledge about the small scaled heterogeneous soil properties is mostly lacking, overwatering and modifications of the

  13. A COGNITIVE APPROACH TO CORPORATE GOVERNANCE: A VISUALIZATION TEST OF MENTAL MODELS WITH THE COGNITIVE MAPPING TECHNIQUE

    Directory of Open Access Journals (Sweden)

    Garoui NASSREDDINE

    2012-01-01

    Full Text Available The idea of this paper is to determine the mental models of actors in the fi rm with respect to the cognitive approach of corporate governance. The paper takes a corporate governance perspective, discusses mental models and uses the cognitive map to view the diagrams showing the ways of thinking and the conceptualization of the cognitive approach. In addition, it employs a cognitive mapping technique. Returning to the systematic exploration of grids for each actor, it concludes that there is a balance of concepts expressing their cognitive orientation.

  14. Breeding for genetic resistance to disease

    OpenAIRE

    Pinard-van der Laan, Marie-Helene

    2012-01-01

    Animal health issues are of increasing importance to all animal breeding sectors, including poultry, by raising health and welfare issues and causing major production costs, but also to citizens, by affecting possibly their own health and lifestyle choices. So far, traditional selective breeding approaches have been applied successfully by poultry breeders to enhance production and reproduction traits; but the inclusion of animal health related traits are scarcely considered because of a clea...

  15. A fast and cost-effective approach to develop and map EST-SSR markers: oak as a case study

    Directory of Open Access Journals (Sweden)

    Cherubini Marcello

    2010-10-01

    Full Text Available Abstract Background Expressed Sequence Tags (ESTs are a source of simple sequence repeats (SSRs that can be used to develop molecular markers for genetic studies. The availability of ESTs for Quercus robur and Quercus petraea provided a unique opportunity to develop microsatellite markers to accelerate research aimed at studying adaptation of these long-lived species to their environment. As a first step toward the construction of a SSR-based linkage map of oak for quantitative trait locus (QTL mapping, we describe the mining and survey of EST-SSRs as well as a fast and cost-effective approach (bin mapping to assign these markers to an approximate map position. We also compared the level of polymorphism between genomic and EST-derived SSRs and address the transferability of EST-SSRs in Castanea sativa (chestnut. Results A catalogue of 103,000 Sanger ESTs was assembled into 28,024 unigenes from which 18.6% presented one or more SSR motifs. More than 42% of these SSRs corresponded to trinucleotides. Primer pairs were designed for 748 putative unigenes. Overall 37.7% (283 were found to amplify a single polymorphic locus in a reference full-sib pedigree of Quercus robur. The usefulness of these loci for establishing a genetic map was assessed using a bin mapping approach. Bin maps were constructed for the male and female parental tree for which framework linkage maps based on AFLP markers were available. The bin set consisting of 14 highly informative offspring selected based on the number and position of crossover sites. The female and male maps comprised 44 and 37 bins, with an average bin length of 16.5 cM and 20.99 cM, respectively. A total of 256 EST-SSRs were assigned to bins and their map position was further validated by linkage mapping. EST-SSRs were found to be less polymorphic than genomic SSRs, but their transferability rate to chestnut, a phylogenetically related species to oak, was higher. Conclusion We have generated a bin map for oak

  16. 18th ICPR paper: A NEW VALUE STREAM MAPPING APPROACH FOR COMPLEX PRODUCTION SYSTEMS

    OpenAIRE

    Braglia, Marcello; Carmignani, Gionata; Zammori, Francesco Aldo

    2006-01-01

    Abstract In this paper an innovative framework to apply Value Stream Mapping to products with complex Bill of Materials is presented. Value Stream Mapping is one of the best tools to map a process and to identify its main criticalities. Unfortunately it can be effectively applied only to linear systems. When the manufacturing process is complex with flows merging together, Value Stream Mapping cannot be straightly used. Thus, the main objective of this work consists in the solution...

  17. Mapping behavioral landscapes for animal movement: a finite mixture modeling approach

    Science.gov (United States)

    Tracey, Jeff A.; Zhu, Jun; Boydston, Erin E.; Lyren, Lisa M.; Fisher, Robert N.; Crooks, Kevin R.

    2013-01-01

    Because of its role in many ecological processes, movement of animals in response to landscape features is an important subject in ecology and conservation biology. In this paper, we develop models of animal movement in relation to objects or fields in a landscape. We take a finite mixture modeling approach in which the component densities are conceptually related to different choices for movement in response to a landscape feature, and the mixing proportions are related to the probability of selecting each response as a function of one or more covariates. We combine particle swarm optimization and an Expectation-Maximization (EM) algorithm to obtain maximum likelihood estimates of the model parameters. We use this approach to analyze data for movement of three bobcats in relation to urban areas in southern California, USA. A behavioral interpretation of the models revealed similarities and differences in bobcat movement response to urbanization. All three bobcats avoided urbanization by moving either parallel to urban boundaries or toward less urban areas as the proportion of urban land cover in the surrounding area increased. However, one bobcat, a male with a dispersal-like large-scale movement pattern, avoided urbanization at lower densities and responded strictly by moving parallel to the urban edge. The other two bobcats, which were both residents and occupied similar geographic areas, avoided urban areas using a combination of movements parallel to the urban edge and movement toward areas of less urbanization. However, the resident female appeared to exhibit greater repulsion at lower levels of urbanization than the resident male, consistent with empirical observations of bobcats in southern California. Using the parameterized finite mixture models, we mapped behavioral states to geographic space, creating a representation of a behavioral landscape. This approach can provide guidance for conservation planning based on analysis of animal movement data using

  18. Towards a virtual hub approach for landscape assessment and multimedia ecomuseum using multitemporal-maps

    Science.gov (United States)

    Brumana, R.; Santana Quintero, M.; Barazzetti, L.; Previtali, M.; Banfi, F.; Oreni, D.; Roels, D.; Roncoroni, F.

    2015-08-01

    Landscapes are dynamic entities, stretching and transforming across space and time, and need to be safeguarded as living places for the future, with interaction of human, social and economic dimensions. To have a comprehensive landscape evaluation several open data are needed, each one characterized by its own protocol, service interface, limiting or impeding this way interoperability and their integration. Indeed, nowadays the development of websites targeted to landscape assessment and touristic purposes requires many resources in terms of time, cost and IT skills to be implemented at different scales. For this reason these applications are limited to few cases mainly focusing on worldwide known touristic sites. The capability to spread the development of web-based multimedia virtual museum based on geospatial data relies for the future being on the possibility to discover the needed geo-spatial data through a single point of access in an homogenous way. In this paper the proposed innovative approach may facilitate the access to open data in a homogeneous way by means of specific components (the brokers) performing interoperability actions required to interconnect heterogeneous data sources. In the specific case study here analysed it has been implemented an interface to migrate a geo-swat chart based on local and regional geographic information into an user friendly Google Earth©-based infrastructure, integrating ancient cadastres and modern cartography, accessible by professionals and tourists via web and also via portable devices like tables and smartphones. The general aim of this work on the case study on the Lake of Como (Tremezzina municipality), is to boost the integration of assessment methodologies with digital geo-based technologies of map correlation for the multimedia ecomuseum system accessible via web. The developed WebGIS system integrates multi-scale and multi-temporal maps with different information (cultural, historical, landscape levels

  19. Reliable Radiation Hybrid Maps: An Efficient Scalable Clustering-based Approach

    Science.gov (United States)

    The process of mapping markers from radiation hybrid mapping (RHM) experiments is equivalent to the traveling salesman problem and, thereby, has combinatorial complexity. As an additional problem, experiments typically result in some unreliable markers that reduce the overall quality of the map. We ...

  20. Mapping Natural Terroir Units using a multivariate approach and legacy data

    Science.gov (United States)

    Priori, Simone; Barbetti, Roberto; L'Abate, Giovanni; Bucelli, Piero; Storchi, Paolo; Costantini, Edoardo A. C.

    2014-05-01

    was then subdivided into 9 NTUs, statistically differentiated for the used variables. The vineyard areas of Siena province was subdivided into 9 NTU, statistically differentiated for the used variables. The study demonstrated the strength of a multivariate approach for NTU mapping at province scale (1:125,000), using viticultural legacy data. Identification and mapping of terroir diversity within the DOC and DOCG at the province scale suggest the adoption of viticultural subzones. The subzones, based on the NTU, could bring to the fruition of different wine-production systems that enhanced the peculiarities of the terroir.

  1. Tritium breeding materials

    International Nuclear Information System (INIS)

    Tritium breeding materials are essential to the operation of D-T fusion facilities. Both of the present options - solid ceramic breeding materials and liquid metal materials are reviewed with emphasis not only on their attractive features but also on critical materials issues which must be resolved

  2. Blackberry breeding and genetics

    Science.gov (United States)

    Blackberry (Rubus L. subgenus Rubus Watson) improvement has made substantial progress with over 400 cultivars named originating from wild selections to many releases from breeding efforts. Public breeding has been ongoing for over 100 years. The result of these improvements is commercial production ...

  3. Buffaloes breeding in Brasil

    Directory of Open Access Journals (Sweden)

    O. Bernardes

    2010-02-01

    Full Text Available Differently from what one could formerly imagine, that buffalo breeding activity would be solely directed to fill the so called cattle breeding gaps determined by inadequate environmental conditions for ordinary cattle breeding, it has been actually seen that in those areas where breeders could successfully organize industrial-agricultural chains, either on meat or milk and its related products production, there has been an expressive expansion .Buffalo breeding has shown to be an important alternative not only in farms of higher technological level as also , and mainly, on small farms where it has become a key factor for increasing the average income, besides keeping labor force in country areas. This article intends to point out and examine some aspects of buffalo breeding and its potentialities in Brazil.

  4. A new physical mapping approach refines the sex-determining gene positions on the Silene latifolia Y-chromosome

    Science.gov (United States)

    Kazama, Yusuke; Ishii, Kotaro; Aonuma, Wataru; Ikeda, Tokihiro; Kawamoto, Hiroki; Koizumi, Ayako; Filatov, Dmitry A.; Chibalina, Margarita; Bergero, Roberta; Charlesworth, Deborah; Abe, Tomoko; Kawano, Shigeyuki

    2016-01-01

    Sex chromosomes are particularly interesting regions of the genome for both molecular genetics and evolutionary studies; yet, for most species, we lack basic information, such as the gene order along the chromosome. Because they lack recombination, Y-linked genes cannot be mapped genetically, leaving physical mapping as the only option for establishing the extent of synteny and homology with the X chromosome. Here, we developed a novel and general method for deletion mapping of non-recombining regions by solving “the travelling salesman problem”, and evaluate its accuracy using simulated datasets. Unlike the existing radiation hybrid approach, this method allows us to combine deletion mutants from different experiments and sources. We applied our method to a set of newly generated deletion mutants in the dioecious plant Silene latifolia and refined the locations of the sex-determining loci on its Y chromosome map.

  5. A new experimental approach to study the stability of logistic map

    International Nuclear Information System (INIS)

    Remarkably benign looking logistic transformations xn+1 = rxn(1 - xn) for choosing x0 between 0 and 1 and 0 < r ≤ 4 have found a celebrated place in chaos, fractals and discrete dynamics. The purpose of this paper is to enhance the capabilities of logistic map via superior iterations. Stability of logistic map has been studied by running computer programs. Logistic map is stable for 0 < r ≤ 3.2 in Picard orbit. In superior orbit, we see that the range of stability of logistic map increases drastically. Also, chaotic behavior of logistic map disappears in certain cases.

  6. Soil Moisture Mapping in an Arid Area Using a Land Unit Area (LUA Sampling Approach and Geostatistical Interpolation Techniques

    Directory of Open Access Journals (Sweden)

    Saeid Gharechelou

    2016-03-01

    Full Text Available Soil moisture (SM plays a key role in many environmental processes and has a high spatial and temporal variability. Collecting sample SM data through field surveys (e.g., for validation of remote sensing-derived products can be very expensive and time consuming if a study area is large, and producing accurate SM maps from the sample point data is a difficult task as well. In this study, geospatial processing techniques are used to combine several geo-environmental layers relevant to SM (soil, geology, rainfall, land cover, etc. into a land unit area (LUA map, which delineates regions with relatively homogeneous geological/geomorphological, land use/land cover, and climate characteristics. This LUA map is used to guide the collection of sample SM data in the field, and the field data is finally spatially interpolated to create a wall-to-wall map of SM in the study area (Garmsar, Iran. The main goal of this research is to create a SM map in an arid area, using a land unit area (LUA approach to obtain the most appropriate sample locations for collecting SM field data. Several environmental GIS layers, which have an impact on SM, were combined to generate a LUA map, and then field surveying was done in each class of the LUA map. A SM map was produced based on LUA, remote sensing data indexes, and spatial interpolation of the field survey sample data. The several interpolation methods (inverse distance weighting, kriging, and co-kriging were evaluated for generating SM maps from the sample data. The produced maps were compared to each other and validated using ground truth data. The results show that the LUA approach is a reasonable method to create the homogenous field to introduce a representative sample for field soil surveying. The geostatistical SM map achieved adequate accuracy; however, trend analysis and distribution of the soil sample point locations within the LUA types should be further investigated to achieve even better results. Co

  7. Crater Mapping in the Pluto-Charon System: Considerations, Approach, and Progress

    Science.gov (United States)

    Robbins, S. J.; Singer, K. N.; Bray, V. J.; Schenk, P.; Zangari, A. M.; McKinnon, W. B.; Young, L. A.; Runyon, K. D.; Beyer, R. A.; Porter, S.; Lauer, T.; Weaver, H. A., Jr.; Olkin, C.; Ennico Smith, K.; Stern, A.

    2015-12-01

    NASA's New Horizons mission successfully made its closest approach to Pluto on July 14, 2015, at 11:49A.M. UTC. The flyby nature of the mission, distance to the system, and multiple planetary bodies to observe with a diverse instrument set required a complex imaging campaign marked by numerous trade-offs; these lead to a more complicated crater population mapping than a basic orbital mission. The Pluto and Charon imaging campaigns were full-disk or mosaics of the full disk until ≈3.5 hrs before closest approach when the pixel scale was 0.9 km/px. After this, several LORRI-specific imaging campaigns were conducted of the partial disk and later the full crescent, while additional strips were ride-alongs with other instruments. These should supply partial coverage at up to 70-80 m/px for Pluto and 160 m/px for Charon. The LORRI coverage at ≈0.4 km/px does not cover the entire encounter hemisphere, but the MVIC instrument provided comparable full-disk coverage (0.5 km/px) and partial disk at 0.3 km/px. The best images of the non-encounter hemispheres of Pluto and Charon are ≈21 km/px (taken midnight July 10-11). As with any single flyby mission, we are constrained by the best pixel scales and incidence angles at which images were taken during the flyby. While most high-resolution imaging by quantity has been done over areas of variable solar incidence as the spacecraft passed by Pluto and Charon, these cover a relatively small fraction of the bodies and most coverage has been at near-noon sun which makes crater identification difficult. Numerous team members are independently using a variety of crater mapping tools and image products, which will be reconciled and merged to make a more robust final database. We will present our consensus crater database to-date of both plutonian and charonian impact craters as well as correlations with preliminary geologic units. We will also discuss how the crater population compares with predictions and modeled Kuiper Belt

  8. A novel chaotic particle swarm optimization approach using Henon map and implicit filtering local search for economic load dispatch

    International Nuclear Information System (INIS)

    Particle swarm optimization (PSO) is a population-based swarm intelligence algorithm driven by the simulation of a social psychological metaphor instead of the survival of the fittest individual. Based on the chaotic systems theory, this paper proposed a novel chaotic PSO combined with an implicit filtering (IF) local search method to solve economic dispatch problems. Since chaotic mapping enjoys certainty, ergodicity and the stochastic property, the proposed PSO introduces chaos mapping using Henon map sequences which increases its convergence rate and resulting precision. The chaotic PSO approach is used to produce good potential solutions, and the IF is used to fine-tune of final solution of PSO. The hybrid methodology is validated for a test system consisting of 13 thermal units whose incremental fuel cost function takes into account the valve-point loading effects. Simulation results are promising and show the effectiveness of the proposed approach.

  9. An approach for mapping large-area impervious surfaces: Synergistic use of Landsat-7 ETM+ and high spatial resolution imagery

    Science.gov (United States)

    Yang, L.; Huang, C.; Homer, C.G.; Wylie, B.K.; Coan, M.J.

    2003-01-01

    A wide range of urban ecosystem studies, including urban hydrology, urban climate, land use planning, and resource management, require current and accurate geospatial data of urban impervious surfaces. We developed an approach to quantify urban impervious surfaces as a continuous variable by using multisensor and multisource datasets. Subpixel percent impervious surfaces at 30-m resolution were mapped using a regression tree model. The utility, practicality, and affordability of the proposed method for large-area imperviousness mapping were tested over three spatial scales (Sioux Falls, South Dakota, Richmond, Virginia, and the Chesapeake Bay areas of the United States). Average error of predicted versus actual percent impervious surface ranged from 8.8 to 11.4%, with correlation coefficients from 0.82 to 0.91. The approach is being implemented to map impervious surfaces for the entire United States as one of the major components of the circa 2000 national land cover database.

  10. Genomic Characterisation and Polymorphism Analysis of Candidate Genes for Milk Production Traits and Association Studies in Three Cattle Breeds

    OpenAIRE

    Seefried, Franz Reinhold

    2008-01-01

    In the past decades, various mapping experiments resulted in the detection of several markers affecting milk production traits on bovine chromosome 6. The aim of this study was to identify causative polymorphisms of milk traits using a multiple breed approach. Six selected candidate genes on chromosome 6 in cattle were characterised and screened for polymorphisms. Following this, 50 polymorphisms were genotyped in sires of German Brown, Fleckvieh and German Holstein for investigation in assoc...

  11. Which cities produce worldwide more excellent papers than can be expected? A new mapping approach--using Google Maps--based on statistical significance testing

    CERN Document Server

    Bornmann, Lutz

    2011-01-01

    The methods presented in this paper allow for a spatial analysis revealing centers of excellence around the world using programs that are freely available. Based on Web of Science data, field-specific excellence can be identified in cities where highly-cited papers were published. Compared to the mapping approaches published hitherto, our approach is more analytically oriented by allowing the assessment of an observed number of excellent papers for a city against the expected number. With this feature, this approach can not only identify the top performers in output but the "true jewels." These are cities locating authors who publish significantly more top cited papers than can be expected. As the examples in this paper show for physics, chemistry, and psychology, these cities do not necessarily have a high output of excellent papers.

  12. Agricultural Land Use mapping by multi-sensor approach for hydrological water quality monitoring

    Science.gov (United States)

    Brodsky, Lukas; Kodesova, Radka; Kodes, Vit

    2010-05-01

    The main objective of this study is to demonstrate potential of operational use of the high and medium resolution remote sensing data for hydrological water quality monitoring by mapping agriculture intensity and crop structures. In particular use of remote sensing mapping for optimization of pesticide monitoring. The agricultural mapping task is tackled by means of medium spatial and high temporal resolution ESA Envisat MERIS FR images together with single high spatial resolution IRS AWiFS image covering the whole area of interest (the Czech Republic). High resolution data (e.g. SPOT, ALOS, Landsat) are often used for agricultural land use classification, but usually only at regional or local level due to data availability and financial constraints. AWiFS data (nominal spatial resolution 56 m) due to the wide satellite swath seems to be more suitable for use at national level. Nevertheless, one of the critical issues for such a classification is to have sufficient image acquisitions over the whole vegetation period to describe crop development in appropriate way. ESA MERIS middle-resolution data were used in several studies for crop classification. The high temporal and also spectral resolution of MERIS data has indisputable advantage for crop classification. However, spatial resolution of 300 m results in mixture signal in a single pixel. AWiFS-MERIS data synergy brings new perspectives in agricultural Land Use mapping. Also, the developed methodology procedure is fully compatible with future use of ESA (GMES) Sentinel satellite images. The applied methodology of hybrid multi-sensor approach consists of these main stages: a/ parcel segmentation and spectral pre-classification of high resolution image (AWiFS); b/ ingestion of middle resolution (MERIS) vegetation spectro-temporal features; c/ vegetation signatures unmixing; and d/ semantic object-oriented classification of vegetation classes into final classification scheme. These crop groups were selected to be

  13. Exact Solution to (1+1)-Dimensional Higher-Order Schr(o)dinger Equation via an Extended Mapping Approach

    Institute of Scientific and Technical Information of China (English)

    ZHU Hai-Ping; ZHENG Chun-Long; FANG Jian-Ping

    2006-01-01

    Starting from a special variable transformation and with the help of an extended mapping approach,the high-order Schr(o)dinger equation (n = 3, 4) is solved. A new family of variable separation solutions with arbitrary functions is derived.

  14. Localized excitations with and without propagating properties in (2+1)-dimensions obtained by a mapping approach

    Institute of Scientific and Technical Information of China (English)

    Zheng Chun-Long; Fang Jian-Ping; Chen Li-Qun

    2005-01-01

    By means of an extended mapping approach, a new type of variable-separation excitation is derived with two arbitrary functions in a (2+1)-dimensional modified dispersive water-wave system. Based on the derived variable-separation excitation, abundant nonpropagating and propagating solitons such as dromions, rings, peakons and compactons are revealed by selecting appropriate functions in this paper.

  15. Stimulating Graphical Summarization in Late Elementary Education: The Relationship between Two Instructional Mind-Map Approaches and Student Characteristics

    Science.gov (United States)

    Merchie, Emmelien; Van Keer, Hilde

    2016-01-01

    This study examined the effectiveness of two instructional mind-mapping approaches to stimulate fifth and sixth graders' graphical summarization skills. Thirty-five fifth- and sixth-grade teachers and 644 students from 17 different elementary schools participated. A randomized quasi-experimental repeated-measures design was set up with two…

  16. Mapping Agricultural Fields in Sub-Saharan Africa with a Computer Vision Approach

    Science.gov (United States)

    Debats, S. R.; Luo, D.; Estes, L. D.; Fuchs, T.; Caylor, K. K.

    2014-12-01

    Sub-Saharan Africa is an important focus for food security research, because it is experiencing unprecedented population growth, agricultural activities are largely dominated by smallholder production, and the region is already home to 25% of the world's undernourished. One of the greatest challenges to monitoring and improving food security in this region is obtaining an accurate accounting of the spatial distribution of agriculture. Households are the primary units of agricultural production in smallholder communities and typically rely on small fields of less than 2 hectares. Field sizes are directly related to household crop productivity, management choices, and adoption of new technologies. As population and agriculture expand, it becomes increasingly important to understand both the distribution of field sizes as well as how agricultural communities are spatially embedded in the landscape. In addition, household surveys, a common tool for tracking agricultural productivity in Sub-Saharan Africa, would greatly benefit from spatially explicit accounting of fields. Current gridded land cover data sets do not provide information on individual agricultural fields or the distribution of field sizes. Therefore, we employ cutting edge approaches from the field of computer vision to map fields across Sub-Saharan Africa, including semantic segmentation, discriminative classifiers, and automatic feature selection. Our approach aims to not only improve the binary classification accuracy of cropland, but also to isolate distinct fields, thereby capturing crucial information on size and geometry. Our research focuses on the development of descriptive features across scales to increase the accuracy and geographic range of our computer vision algorithm. Relevant data sets include high-resolution remote sensing imagery and Landsat (30-m) multi-spectral imagery. Training data for field boundaries is derived from hand-digitized data sets as well as crowdsourcing.

  17. An approach to comparing tiling array and high throughput sequencing technologies for genomic transcript mapping

    Directory of Open Access Journals (Sweden)

    Rozowsky Joel

    2009-07-01

    Full Text Available Abstract Background There are two main technologies for transcriptome profiling, namely, tiling microarrays and high-throughput sequencing. Recently there has been a tremendous amount of excitement about the latter because of the advent of next-generation sequencing technologies and its promises. Consequently, the question of the moment is how these two technologies compare. Here we attempt to develop an approach to do a fair comparison of transcripts identified from tiling microarray and MPSS sequencing data. Findings This comparison is a challenging task because the sequencing data is discrete while the tiling array data is continuous. We use the published rice and Arabidopsis datasets which provide currently best matched sets of arrays and sequencing experiments using a slightly earlier generation of sequencing, the MPSS tag sequencing technology. After scoring the arrays consistently in both the organisms, a first pass comparison reveals a surprisingly small overlap in transcripts of 22% and 66% respectively, in rice and Arabidopsis. However, when we do the analysis in detail, we find that this is an underestimate. In particular, when we map the probe intensities onto the sequencing tags and then look at their intensity distribution, we see that they are very similar to exons. Furthermore, restricting our comparison to only protein-coding gene loci revealed a very good overlap between the two technologies. Conclusion Our approach to compare genome tiling microarray and MPSS sequencing data suggests that there is actually a reasonable overlap in transcripts identified by the two technologies. This overlap is distorted by the scoring and thresholding in the tiling array scoring procedure.

  18. Factors Influencing Seasonal Influenza Vaccination Uptake in Emergency Medical Services Workers: A Concept Mapping Approach.

    Science.gov (United States)

    Subramaniam, Dipti P; Baker, Elizabeth A; Zelicoff, Alan P; Elliott, Michael B

    2016-08-01

    Seasonal influenza has serious impacts on morbidity and mortality and has a significant economic toll through lost workforce time and strains on the health system. Health workers, particularly emergency medical services (EMS) workers have the potential to transmit influenza to those in their care, yet little is known of the factors that influence EMS workers' decisions regarding seasonal influenza vaccination (SIV) uptake, a key factor in reducing potential for transmitting disease. This study utilizes a modified Theory of Planned Behavior (TPB) model as a guiding framework to explore the factors that influence SIV uptake in EMS workers. Concept mapping, which consists of six-stages (preparation, generation, structuring, representation, interpretation, and utilization) that use quantitative and qualitative approaches, was used to identify participants' perspectives towards SIV. This study identified nine EMS-conceptualized factors that influence EMS workers' vaccination intent and behavior. The EMS-conceptualized factors align with the modified TPB model and suggest the need to consider community-wide approaches that were not initially conceptualized in the model. Additionally, the expansion of non-pharmaceutical measures went above and beyond original conceptualization. Overall, this study demonstrates the need to develop customized interventions such as messages highlighting the importance of EMS workers receiving SIV as the optimum solution. EMS workers who do not intend to receive the SIV should be provided with accurate information on the SIV to dispel misconceptions. Finally, EMS workers should also receive interventions which promote voluntary vaccination, encouraging them to be proactive in the health decisions they make for themselves. PMID:26721630

  19. Improving semi-automated glacier mapping with a multi-method approach: applications in central Asia

    Science.gov (United States)

    Smith, T.; Bookhagen, B.; Cannon, F.

    2015-09-01

    Studies of glaciers generally require precise glacier outlines. Where these are not available, extensive manual digitization in a geographic information system (GIS) must be performed, as current algorithms struggle to delineate glacier areas with debris cover or other irregular spectral profiles. Although several approaches have improved upon spectral band ratio delineation of glacier areas, none have entered wide use due to complexity or computational intensity. In this study, we present and apply a glacier mapping algorithm in Central Asia which delineates both clean glacier ice and debris-covered glacier tongues. The algorithm is built around the unique velocity and topographic characteristics of glaciers and further leverages spectral and spatial relationship data. We found that the algorithm misclassifies between 2 and 10 % of glacier areas, as compared to a ~ 750 glacier control data set, and can reliably classify a given Landsat scene in 3-5 min. The algorithm does not completely solve the difficulties inherent in classifying glacier areas from remotely sensed imagery but does represent a significant improvement over purely spectral-based classification schemes, such as the band ratio of Landsat 7 bands three and five or the normalized difference snow index. The main caveats of the algorithm are (1) classification errors at an individual glacier level, (2) reliance on manual intervention to separate connected glacier areas, and (3) dependence on fidelity of the input Landsat data.

  20. An hybrid approach to CMB lensing reconstruction on all-sky intensity maps

    CERN Document Server

    Plaszczynski, S; Perotto, L; Starck, J-L

    2012-01-01

    Based on realistic simulations, we propose an hybrid method to reconstruct the lensing potential power spectrum, directly on PLANCK-like CMB frequency maps. It implies using a large galactic mask and dealing with a strong inhomogeneous noise. For l 100 we develop a method based on tiling the cut-sky with local 10x10 degrees overlapping tangent planes (referred to in the following as "patches"). It requires to solve various issues concerning their size/position, non-periodic boundaries and irregularly sampled data after the sphere-to-plane projection. We show how the leading noise term of the quadratic lensing estimator applied onto an apodized patch can still be taken directly from the data. To not loose spatial accuracy, we developed a tool that allows the fast determination of the complex Fourier series coefficients from a bi-dimensional irregularly sampled dataset, without performing an interpolation. We show that the multi-patch approach allows the lensing power spectrum reconstruction with a very small b...

  1. A KNOWLEDGE BASED APPROACH FOR QUERY OPTIMIZATION IN PREFERENTIAL MAPPING RELATIONAL DATABASES

    Directory of Open Access Journals (Sweden)

    P. Ranjani

    2015-10-01

    Full Text Available Relational query databases provide a high level declarative interface to access data stored in relational databases. Two key components of the query evaluation component of a SQL database system are the query optimizer and the query execution engine. System R optimization framework since this was a remarkably elegant approach that helped fuel much of the subsequent work in optimization. Transparent and efficient evaluations of preferential queries are allowed by relational database systems. This results in experimenting extensive evaluation on two real world data sets which illustrates the feasibility and advantages of the framework. Early pruning of results based on score or confidence during query processing are enabled by combining the prefer operator with the rank and rank join operators. During preference evaluation, both the conditional and the scoring part of a preference are used. The conditional part acts as a soft constraint that determines which records are scored without disqualifying any duplicates from the query result. To introduce a preferences mapping relational data model that extends database with profile preferences for query optimizing and an extended algebra that captures the essence of processing queries with ranking method. Based on a set of algebraic properties and a cost model that to propose, to provide several query optimization strategies for extended query plans. To describe a query execution algorithm that blends preference evaluation with query execution, while making effective use of the native query engine.

  2. A Knowledge Based Approach for Query Optimization in Preferential Mapping Relational Databases

    Directory of Open Access Journals (Sweden)

    P.Ranjani

    2014-10-01

    Full Text Available Relational query databases provide a high level declarative interface to access data stored in relational databases. Two key components of the query evaluation component of a SQL database system are the query optimizer and the query execution engine. System R optimization framework since this was a remarkably elegant approach that helped fuel much of the subsequent work in optimization. Transparent and efficient evaluations of preferential queries are allowed by relational database systems. This results in experimenting extensive evaluation on two real world data sets which illustrates the feasibility and advantages of the framework. Early pruning of results based on score or confidence during query processing are enabled by combining the prefer operator with the rank and rank join operators. During preference evaluation, both the conditional and the scoring part of a preference are used. The conditional part acts as a soft constraint that determines which records are scored without disqualifying any duplicates from the query result. To introduce a preferences mapping relational data model that extends database with profile preferences for query optimizing and an extended algebra that captures the essence of processing queries with ranking method. Based on a set of algebraic properties and a cost model that to propose, to provide several query optimization strategies for extended query plans. To describe a query execution algorithm that blends preference evaluation with query execution, while making effective use of the native query engine.

  3. Space-time-wavelength mapping: a new approach for electronic control of optical tweezers

    CERN Document Server

    Rahman, Shah; Zhao, Qiancheng; Atasever, Tuva; Boyraz, Ozdal

    2015-01-01

    We present a new approach for electronic control of optical tweezers. The key technique, called 'space-time-wavelength mapping', involves time-domain modulation which is translated onto spatial domain by diffraction and enables direct control of location and polarity of force hot-spots created by Lorentz force (gradient force). In this study 150 fs optical pulses are dispersed in time and space to achieve a focused elliptical beam that is ~20 {\\mu}m long and ~2 {\\mu}m wide. In order to manipulate the intensity gradient along the beam at the focal spot, we use an electro-optic modulator to modulate power spectral distribution of the femtosecond beam after temporal dispersion. The electro-optic modulator is supplied with a chosen RF waveform that dictates the manipulation of the power spectral distribution. By choosing the appropriate RF waveform, it is possible to create force fields for cell stretching and compression as well as multiple hot spots (of > 200 pN force) for attractive or repulsive forces. We pre...

  4. Mutation breeding in Japan

    International Nuclear Information System (INIS)

    The achievements made in mutation breeding in Japan over the past 40 years are outlined from the viewpoint of practical breeding. Fifty-four varieties of 23 crops were obtained by direct use of induced mutants. These include 12 cereal mutant varieties, five food legumes, nine industrial crops, seven vegetables and 18 ornamentals. Ten varieties were obtained by national breeding institutes, 14 by prefectural stations and 30 by universities or private firms. The varieties produced by the national breeding programme were registered and released with Norin numbers. In most cases, ionizing radiation was used. Forty additional mutant varieties were developed through cross-breeding using induced mutants as the gene sources. Of the 33 rice varieties in this category, 21, including six national varieties, resulted from crosses involving Reimei, a semi-dwarf mutant variety. Another semi-dwarf mutant parent was used to breed two more national varieties. Three early heading mutants were also integrated into cross-breeding programmes and produced three national and two prefectural varieties. A large grain mutant produced three varieties for sake brewing. A new recessive resistant mutant allele to the soil borne virus (BaYMV) was induced in barley. One variety was bred using this mutant as a parent. Another promising disease resistant clone was induced by chronic irradiation in a gamma field in the leading Japanese pear variety Nijisseiki, which is susceptible to black spot disease caused by Alternaria alternata (Fr.) Keissler. This mutant clone maintained all the superior qualities of the original variety. The significant role of the Institute of Radiation Breeding as a core in mutation breeding is mentioned briefly. (author). 10 refs, 2 figs, 6 tabs

  5. Mapping XML Data to Relational Data: A DOM-Based Approach

    CERN Document Server

    Atay, Mustafa; Liu, Dapeng; Lu, Shiyong; Fotouhi, Farshad

    2010-01-01

    XML has emerged as the standard for representing and exchanging data on the World Wide Web. It is critical to have efficient mechanisms to store and query XML data to exploit the full power of this new technology. Several researchers have proposed to use relational databases to store and query XML data. While several algorithms of schema mapping and query mapping have been proposed, the problem of mapping XML data to relational data, i.e., mapping an XML INSERT statement to a sequence of SQL INSERT statements, has not been addressed thoroughly in the literature. In this paper, we propose an efficient linear algorithm for mapping XML data to relational data. This algorithm is based on our previous proposed inlining algorithm for mapping DTDs to relational schemas and can be easily adapted to other inlining algorithms.

  6. MAPPING THE WORLD – A NEW APPROACH FOR VOLUNTEERED GEOGRAPHIC INFORMATION IN THE CLOUD

    OpenAIRE

    M. S. Moeller; Furhmann, S.

    2015-01-01

    The OSM project provides a geodata basis for the entire world under the CC-SA licence agreement. But some parts of the world are mapped more densely compared to other regions. However, many less developed countries show a lack of valid geo-information. Africa for example is a sparsely mapped continent. During a huge Ebola outbreak in 2014 the lack of data became apparent. Help organization like the American Red Cross and the Humanitarian Openstreetmap Team organized mappings campaign...

  7. The Revisiting Problem in Mobile Robot Map Building: A Hierarchical Bayesian Approach

    OpenAIRE

    Stewart, Benjamin; Ko, Jonathan; Fox, Dieter; Konolige, Kurt

    2012-01-01

    We present an application of hierarchical Bayesian estimation to robot map building. The revisiting problem occurs when a robot has to decide whether it is seeing a previously-built portion of a map, or is exploring new territory. This is a difficult decision problem, requiring the probability of being outside of the current known map. To estimate this probability, we model the structure of a "typical" environment as a hidden Markov model that generates sequences of views observed by a robot ...

  8. Genetic mapping of quantitative trait loci in plants - a novel statistical approach.

    OpenAIRE

    Jansen, R.C.

    1995-01-01

    Quantitative variation is a feature of many important traits such as yield, quality and disease resistance in crop plants and farm animals, and diseases in humans. The genetic mapping, understanding and manipulation of quantitative trait loci (QTLs) are therefore of prime importance. Only by using genetically marked chromosomes is it possible to detect and map these QTLs. The recent advent of complete genetic maps of molecular markers for many plant and animal species therefore heralds a new ...

  9. Mapping the World - a New Approach for Volunteered Geographic Information in the Cloud

    Science.gov (United States)

    Moeller, M. S.; Furhmann, S.

    2015-05-01

    The OSM project provides a geodata basis for the entire world under the CC-SA licence agreement. But some parts of the world are mapped more densely compared to other regions. However, many less developed countries show a lack of valid geo-information. Africa for example is a sparsely mapped continent. During a huge Ebola outbreak in 2014 the lack of data became apparent. Help organization like the American Red Cross and the Humanitarian Openstreetmap Team organized mappings campaign to fill the gaps with valid OSM geodata. This paper gives a short introduction into this mapping activity.

  10. Educational Approach to Seismic Risk Mitigation in Indian Himalayas -Hazard Map Making Workshops at High Schools-

    Science.gov (United States)

    Koketsu, K.; Oki, S.; Kimura, M.; Chadha, R. K.; Davuluri, S.

    2014-12-01

    How can we encourage people to take preventive measures against damage risks and empower them to take the right actions in emergencies to save their lives? The conventional approach taken by scientists had been disseminating intelligible information on up-to-date seismological knowledge. However, it has been proven that knowledge alone does not have enough impact to modify people's behaviors in emergencies (Oki and Nakayachi, 2012). On the other hand, the conventional approach taken by practitioners had been to conduct emergency drills at schools or workplaces. The loss of many lives from the 2011 Tohoku earthquake has proven that these emergency drills were not enough to save people's lives, unless they were empowered to assess the given situation on their own and react flexibly. Our challenge is to bridge the gap between knowledge and practice. With reference to best practices observed in Tohoku, such as The Miracles of Kamaishi, our endeavor is to design an effective Disaster Preparedness Education Program that is applicable to other disaster-prone regions in the world, even with different geological, socio-economical and cultural backgrounds. The key concepts for this new approach are 1) empowering individuals to take preventive actions to save their lives, 2) granting community-based understanding of disaster risks and 3) building a sense of reality and relevancy to disasters. With these in mind, we held workshops at some high schools in the Lesser Himalayan Region, combining lectures with an activity called "Hazard Map Making" where students proactively identify and assess the hazards around their living areas and learn practical strategies on how to manage risks. We observed the change of awareness of the students by conducting a preliminary questionnaire survey and interviews after each session. Results strongly implied that the significant change of students' attitudes towards disaster preparedness occurred not by the lectures of scientific knowledge, but

  11. Assessment of Social Vulnerability Identification at Local Level around Merapi Volcano - A Self Organizing Map Approach

    Science.gov (United States)

    Lee, S.; Maharani, Y. N.; Ki, S. J.

    2015-12-01

    The application of Self-Organizing Map (SOM) to analyze social vulnerability to recognize the resilience within sites is a challenging tasks. The aim of this study is to propose a computational method to identify the sites according to their similarity and to determine the most relevant variables to characterize the social vulnerability in each cluster. For this purposes, SOM is considered as an effective platform for analysis of high dimensional data. By considering the cluster structure, the characteristic of social vulnerability of the sites identification can be fully understand. In this study, the social vulnerability variable is constructed from 17 variables, i.e. 12 independent variables which represent the socio-economic concepts and 5 dependent variables which represent the damage and losses due to Merapi eruption in 2010. These variables collectively represent the local situation of the study area, based on conducted fieldwork on September 2013. By using both independent and dependent variables, we can identify if the social vulnerability is reflected onto the actual situation, in this case, Merapi eruption 2010. However, social vulnerability analysis in the local communities consists of a number of variables that represent their socio-economic condition. Some of variables employed in this study might be more or less redundant. Therefore, SOM is used to reduce the redundant variable(s) by selecting the representative variables using the component planes and correlation coefficient between variables in order to find the effective sample size. Then, the selected dataset was effectively clustered according to their similarities. Finally, this approach can produce reliable estimates of clustering, recognize the most significant variables and could be useful for social vulnerability assessment, especially for the stakeholder as decision maker. This research was supported by a grant 'Development of Advanced Volcanic Disaster Response System considering

  12. Mapping soil vulnerability to floods under varying land use and climate: A new approach

    Science.gov (United States)

    Alaoui, Abdallah; Spiess, Pascal; Beyeler, Marcel

    2016-04-01

    the hydrological connectivity between zones of various predisposition to excess surface runoff under different land uses. These promising results indicate that the approach is suited for mapping soil vulnerability to floods under varying land use and climate at any scale.

  13. Structure and Evolution of Mediterranean Forest Research: A Science Mapping Approach.

    Directory of Open Access Journals (Sweden)

    Pierfrancesco Nardi

    Full Text Available This study aims at conducting the first science mapping analysis of the Mediterranean forest research in order to elucidate its research structure and evolution. We applied a science mapping approach based on co-term and citation analyses to a set of scientific publications retrieved from the Elsevier's Scopus database over the period 1980-2014. The Scopus search retrieved 2,698 research papers and reviews published by 159 peer-reviewed journals. The total number of publications was around 1% (N = 17 during the period 1980-1989 and they reached 3% (N = 69 in the time slice 1990-1994. Since 1995, the number of publications increased exponentially, thus reaching 55% (N = 1,476 during the period 2010-2014. Within the thirty-four years considered, the retrieved publications were published by 88 countries. Among them, Spain was the most productive country, publishing 44% (N = 1,178 of total publications followed by Italy (18%, N = 482 and France (12%, N = 336. These countries also host the ten most productive scientific institutions in terms of number of publications in Mediterranean forest subjects. Forest Ecology and Management and Annals of Forest Science were the most active journals in publishing research in Mediterranean forest. During the period 1980-1994, the research topics were poorly characterized, but they become better defined during the time slice 1995-1999. Since 2000s, the clusters become well defined by research topics. Current status of Mediterranean forest research (20092014 was represented by four clusters, in which different research topics such as biodiversity and conservation, land-use and degradation, climate change effects on ecophysiological responses and soil were identified. Basic research in Mediterranean forest ecosystems is mainly conducted by ecophysiological research. Applied research was mainly represented by land-use and degradation, biodiversity and conservation and fire research topics. The citation analyses

  14. Structure and Evolution of Mediterranean Forest Research: A Science Mapping Approach

    Science.gov (United States)

    Nardi, Pierfrancesco; Di Matteo, Giovanni; Palahi, Marc; Scarascia Mugnozza, Giuseppe

    2016-01-01

    This study aims at conducting the first science mapping analysis of the Mediterranean forest research in order to elucidate its research structure and evolution. We applied a science mapping approach based on co-term and citation analyses to a set of scientific publications retrieved from the Elsevier’s Scopus database over the period 1980–2014. The Scopus search retrieved 2,698 research papers and reviews published by 159 peer-reviewed journals. The total number of publications was around 1% (N = 17) during the period 1980–1989 and they reached 3% (N = 69) in the time slice 1990–1994. Since 1995, the number of publications increased exponentially, thus reaching 55% (N = 1,476) during the period 2010–2014. Within the thirty-four years considered, the retrieved publications were published by 88 countries. Among them, Spain was the most productive country, publishing 44% (N = 1,178) of total publications followed by Italy (18%, N = 482) and France (12%, N = 336). These countries also host the ten most productive scientific institutions in terms of number of publications in Mediterranean forest subjects. Forest Ecology and Management and Annals of Forest Science were the most active journals in publishing research in Mediterranean forest. During the period 1980–1994, the research topics were poorly characterized, but they become better defined during the time slice 1995–1999. Since 2000s, the clusters become well defined by research topics. Current status of Mediterranean forest research (20092014) was represented by four clusters, in which different research topics such as biodiversity and conservation, land-use and degradation, climate change effects on ecophysiological responses and soil were identified. Basic research in Mediterranean forest ecosystems is mainly conducted by ecophysiological research. Applied research was mainly represented by land-use and degradation, biodiversity and conservation and fire research topics. The citation analyses

  15. Structure and Evolution of Mediterranean Forest Research: A Science Mapping Approach.

    Science.gov (United States)

    Nardi, Pierfrancesco; Di Matteo, Giovanni; Palahi, Marc; Scarascia Mugnozza, Giuseppe

    2016-01-01

    This study aims at conducting the first science mapping analysis of the Mediterranean forest research in order to elucidate its research structure and evolution. We applied a science mapping approach based on co-term and citation analyses to a set of scientific publications retrieved from the Elsevier's Scopus database over the period 1980-2014. The Scopus search retrieved 2,698 research papers and reviews published by 159 peer-reviewed journals. The total number of publications was around 1% (N = 17) during the period 1980-1989 and they reached 3% (N = 69) in the time slice 1990-1994. Since 1995, the number of publications increased exponentially, thus reaching 55% (N = 1,476) during the period 2010-2014. Within the thirty-four years considered, the retrieved publications were published by 88 countries. Among them, Spain was the most productive country, publishing 44% (N = 1,178) of total publications followed by Italy (18%, N = 482) and France (12%, N = 336). These countries also host the ten most productive scientific institutions in terms of number of publications in Mediterranean forest subjects. Forest Ecology and Management and Annals of Forest Science were the most active journals in publishing research in Mediterranean forest. During the period 1980-1994, the research topics were poorly characterized, but they become better defined during the time slice 1995-1999. Since 2000s, the clusters become well defined by research topics. Current status of Mediterranean forest research (20092014) was represented by four clusters, in which different research topics such as biodiversity and conservation, land-use and degradation, climate change effects on ecophysiological responses and soil were identified. Basic research in Mediterranean forest ecosystems is mainly conducted by ecophysiological research. Applied research was mainly represented by land-use and degradation, biodiversity and conservation and fire research topics. The citation analyses revealed highly

  16. Mutation breeding in chickpea

    International Nuclear Information System (INIS)

    Chickpea is an important food legume in Turkey. Turkey is one of the most important gene centers in the world for legumes. The most widely known characteristic of chickpea is that it is an important vegetable protein source used in human and animal nutrition. However, the dry grains of chickpea, has 2-3 times more protein than our traditional food of wheat. In addition, cheakpea is also energy source because of its high carbohydrate content. It is very rich in some vitamin and mineral basis. In the plant breeding, mutation induction has become an effective way of supplementing existing germplasm and improving cultivars. Many successful examples of mutation induction have proved that mutation breeding is an effective and important approach to food legume improvement. The induced mutation technique in chickpea has proved successful and good results have been attained. Realizing the potential of induced mutations, a mutation breeding programme was initiated at the Nuclear Agriculture Section of the Saraykoey Nuclear Research and Training Center in 1994. The purpose of the study was to obtain high yielding chickpea mutants with large seeds, good cooking quality and high protein content. Beside this some characters such as higher adaptation ability, tolerant to cold and drought, increased machinery harvest type, higher yield, resistant to diseases especially to antracnose and pest were investigated too. Parents varieties were ILC-482, AK-7114 and AKCIN-91 (9 % seed moisture content and germination percentage 98 %) in these experiments. The irradiation doses were 0 (control), 50, 100, 150, 200, 250, 300, 350, 400, 500 ve 600 Gy for greenhouse experiments and 0 (control), 50, 100, 150, 200, 250, 300, 350 ve 400 Gy for field experiments, respectively. One thousand seeds for per treatment were sown in the field for the M1. At maturity, 3500 single plants were harvested and 20 seeds were taken from each M1 plant and planted in the following season. During plant growth

  17. A Bac Library and Paired-PCR Approach to Mapping and Completing the Genome Sequence of Sulfolobus Solfataricus P2

    DEFF Research Database (Denmark)

    She, Qunxin; Confalonieri, F.; Zivanovic, Y.;

    2000-01-01

    The original strategy used in the Sulfolobus solfatnricus genome project was to sequence non overlapping, or minimally overlapping, cosmid or lambda inserts without constructing a physical map. However, after only about two thirds of the genome sequence was completed, this approach became counter...... selected for walking over small gaps and preparing template libraries for larger ones. It is concluded that an optimal strategy for sequencing microorganism genomes involves construction of a high-resolution physical map by BAC end analyses, PCR screening and paired-PCR chromosome walking after about half...... the genome sequence has been accumulated....

  18. SOYBEAN - MOLECULAR ASPECTS OF BREEDING

    Directory of Open Access Journals (Sweden)

    Aleksandra Sudarić

    2012-12-01

    Full Text Available The book Soybean: Molecular Aspects of Breeding focuses recent progress in our understanding of the genetics and molecular biology of soybean. This book is divided into four parts and contains 22 chapters. Part I, Molecular Biology and Biotechnology focuses advances in molecular biology and laboratory procedures that have been developed recently to manipulate DNA. Part II, Breeding for abiotic stress covers proteomics approaches form as a powerful tool for investigating the molecular mechanisms of the plant responses to various types of abiotic stresses. Part III, Breeding for biotic stress addresses issues related to application of molecular based strategies in order to increase soybean resistance to various biotic factors. Part IV, Recent Technology reviews recent technologies into the realm of soybean monitoring, processing and product use. While the information accumulated in this book is of primary interest for plant breeders, valuable insights are also offered to agronomists, molecular biologists, physiologists, plant pathologists, food scientists and students. The book is a result of efforts made by many experts from different countries (USA, Japan, Croatia, Serbia, China, Canada, Malawi, Iran, Hong Kong, Brasil, Mexico.

  19. Garlic breeding system innovations

    NARCIS (Netherlands)

    Zheng, S.J.; Kamenetsky, R.; Féréol, L.; Barandiaran, X.; Rabinowitch, H.D.; Chovelon, V.; Kik, C.

    2007-01-01

    This review outlines innovative methods for garlic breeding improvement and discusses the techniques used to increase variation like mutagenesis and in vitro techniques, as well as the current developments in florogenesis, sexual hybridization, genetic transformation and mass propagation. Sexual ste

  20. Simulation Modeling in Plant Breeding: Principles and Applications

    Institute of Scientific and Technical Information of China (English)

    WANG Jian-kang; Wolfgang H Pfeiffer

    2007-01-01

    Conventional plant breeding largely depends on phenotypic selection and breeder's experience, therefore the breeding efficiency is low and the predictions are inaccurate. Along with the fast development in molecular biology and biotechnology, a large amount of biological data is available for genetic studies of important breeding traits in plants,which in turn allows the conduction of genotypic selection in the breeding process. However, gene information has not been effectively used in crop improvement because of the lack of appropriate tools. The simulation approach can utilize the vast and diverse genetic information, predict the cross performance, and compare different selection methods. Thus,the best performing crosses and effective breeding strategies can be identified. QuLine is a computer tool capable of defining a range, from simple to complex genetic models, and simulating breeding processes for developing final advanced lines. On the basis of the results from simulation experiments, breeders can optimize their breeding methodology and greatly improve the breeding efficiency. In this article, the underlying principles of simulation modeling in crop enhancement is initially introduced, following which several applications of QuLine are summarized, by comparing the different selection strategies, the precision parental selection, using known gene information, and the design approach in breeding. Breeding simulation allows the definition of complicated genetic models consisting of multiple alleles, pleiotropy, epistasis, and genes, by environment interaction, and provides a useful tool for breeders, to efficiently use the wide spectrum of genetic data and information available.

  1. A new combinatorial identity for unicellular maps, via a direct bijective approach

    CERN Document Server

    Chapuy, Guillaume

    2010-01-01

    A unicellular map, or one-face map, is a graph embedded in an orientable surface such that its complement is a topological disk. In this paper, we give a new viewpoint to the structure of these objects, by describing a decomposition of any unicellular map into a unicellular map of smaller genus. This gives a new combinatorial identity for the number $\\epsilon_g(n)$ of unicellular maps of size $n$ and genus $g$. Contrarily to the Harer-Zagier recurrence formula, this identity is recursive in only one parameter (the genus). Iterating the construction gives an explicit bijection between unicellular maps and plane trees with distinguished vertices, which gives a combinatorial explanation (and proof) of the fact that $\\epsilon_g(n)$ is the product of the $n$-th Catalan number by a polynomial in $n$. The combinatorial interpretation also gives a new and simple formula for this polynomial. Variants of the problem are considered, like bipartite unicellular maps, or unicellular maps with cubic vertices only.

  2. Ontology Mapping Neural Network: An Approach to Learning and Inferring Correspondences among Ontologies

    Science.gov (United States)

    Peng, Yefei

    2010-01-01

    An ontology mapping neural network (OMNN) is proposed in order to learn and infer correspondences among ontologies. It extends the Identical Elements Neural Network (IENN)'s ability to represent and map complex relationships. The learning dynamics of simultaneous (interlaced) training of similar tasks interact at the shared connections of the…

  3. Predicting Childhood Sexual or Physical Abuse: A Logistic Regression Geo-mapping Approach to Prevention

    OpenAIRE

    Tadoum, Roland K.; Smolij, Kamila; Lyn, Michelle A.; Johnson, Craig W.

    2005-01-01

    This study investigates the degree to which gender, ethnicity, relationship to perpetrator, and geo-mapped socio-economic factors significantly predict the incidence of childhood sexual abuse, physical abuse and non- abuse. These variables are then linked to geographic identifiers using geographic information system (GIS) technology to develop a geo-mapping framework for child sexual and physical abuse prevention.

  4. Breeding for disease resistance

    OpenAIRE

    Pinard-van der Laan, Marie-Helene

    2013-01-01

    In the context of intensification and specialization of poultry production, next to welfare regulation on animal breeding, animal health issues are of increasing importance to the breeding sector because of the huge related production losses. But animal health and welfare issues are also of importance to the consumers because of potential effects on their own health and their lifestyle choices. Most effective disease control strategies should be developed in an integrated animal health manage...

  5. PRINCIPLES OF ANIMAL BREEDING

    OpenAIRE

    Sonja Jovanovac

    2014-01-01

    University textbook Principles of Animal Breeding is intended for students of agriculture and veterinary medicine. The material is the adapted curricula of undergraduate and graduate level studies in the framework of which the modules Principles of animal breeding as well as Basics of genetics and selection of animals attended are listened. The textbook contains 14 chapters and a glossary of terms. Its concept enables combining fundamental and modern knowledge in the ...

  6. Welfare in horse breeding

    OpenAIRE

    Campbell, M L H; Sandøe, Peter

    2015-01-01

    Welfare problems related to the way horses are bred, whether by coitus or by the application of artificial reproduction techniques (ARTs), have been given no discrete consideration within the academic literature. This paper reviews the existing knowledge base about welfare issues in horse breeding and identifies areas in which data is lacking. We suggest that all methods of horse breeding are associated with potential welfare problems, but also that the judicious use of ARTs can sometimes hel...

  7. An integrated approach to flood hazard assessment on alluvial fans using numerical modeling, field mapping, and remote sensing

    Science.gov (United States)

    Pelletier, J.D.; Mayer, L.; Pearthree, P.A.; House, P.K.; Demsey, K.A.; Klawon, J.K.; Vincent, K.R.

    2005-01-01

    Millions of people in the western United States live near the dynamic, distributary channel networks of alluvial fans where flood behavior is complex and poorly constrained. Here we test a new comprehensive approach to alluvial-fan flood hazard assessment that uses four complementary methods: two-dimensional raster-based hydraulic modeling, satellite-image change detection, fieldbased mapping of recent flood inundation, and surficial geologic mapping. Each of these methods provides spatial detail lacking in the standard method and each provides critical information for a comprehensive assessment. Our numerical model simultaneously solves the continuity equation and Manning's equation (Chow, 1959) using an implicit numerical method. It provides a robust numerical tool for predicting flood flows using the large, high-resolution Digital Elevation Models (DEMs) necessary to resolve the numerous small channels on the typical alluvial fan. Inundation extents and flow depths of historic floods can be reconstructed with the numerical model and validated against field- and satellite-based flood maps. A probabilistic flood hazard map can also be constructed by modeling multiple flood events with a range of specified discharges. This map can be used in conjunction with a surficial geologic map to further refine floodplain delineation on fans. To test the accuracy of the numerical model, we compared model predictions of flood inundation and flow depths against field- and satellite-based flood maps for two recent extreme events on the southern Tortolita and Harquahala piedmonts in Arizona. Model predictions match the field- and satellite-based maps closely. Probabilistic flood hazard maps based on the 10 yr, 100 yr, and maximum floods were also constructed for the study areas using stream gage records and paleoflood deposits. The resulting maps predict spatially complex flood hazards that strongly reflect small-scale topography and are consistent with surficial geology. In

  8. Jute breeding in Bangladesh

    International Nuclear Information System (INIS)

    The evolution, domestication, variability and adaptation of fibre jutes in Bangladesh are described. Domestication of fibre jutes, in evolutionary terms, is recent and the spectrum of variability within them is narrow. Yield improvement by breeding has been minimal and the reasons for this are suggested. Recent germplasm collecting expeditions to the eastern hill tracts of Bangladesh have revealed wide-spectrum diversity among the vegetable jutes grown there. Variability among the vegetable types can be utilized to improve the fibre types and to this end various hybridization schemes have now been initiated by the Bangladesh Jute Research Institute. The initial breeding priority is yield per se but ideotype characteristics have been delineated. The objectives of the breeding programme are likely to become more specific as the agronomic worth of these characteristics becomes more clearly defined. The rationale for mutation breeding in jute has been the narrow-spectrum diversity within the fibre types; the wide-spectrum diversity among the hill tract vegetable jutes should, however, be exploited in imaginative hybridization programmes before resorting to large-scale mutation breeding programmes. Mutation breeding may, however, be a valuable tool for inducing changes in fibre quality characteristics when technologists identify new uses for jute and specify their requirements. At present, however, quality is assessed subjectively. (author)

  9. Water-sanitation-hygiene mapping: an improved approach for data collection at local level.

    Science.gov (United States)

    Giné-Garriga, Ricard; de Palencia, Alejandro Jiménez-Fernández; Pérez-Foguet, Agustí

    2013-10-01

    Strategic planning and appropriate development and management of water and sanitation services are strongly supported by accurate and accessible data. If adequately exploited, these data might assist water managers with performance monitoring, benchmarking comparisons, policy progress evaluation, resources allocation, and decision making. A variety of tools and techniques are in place to collect such information. However, some methodological weaknesses arise when developing an instrument for routine data collection, particularly at local level: i) comparability problems due to heterogeneity of indicators, ii) poor reliability of collected data, iii) inadequate combination of different information sources, and iv) statistical validity of produced estimates when disaggregated into small geographic subareas. This study proposes an improved approach for water, sanitation and hygiene (WASH) data collection at decentralised level in low income settings, as an attempt to overcome previous shortcomings. The ultimate aim is to provide local policymakers with strong evidences to inform their planning decisions. The survey design takes the Water Point Mapping (WPM) as a starting point to record all available water sources at a particular location. This information is then linked to data produced by a household survey. Different survey instruments are implemented to collect reliable data by employing a variety of techniques, such as structured questionnaires, direct observation and water quality testing. The collected data is finally validated through simple statistical analysis, which in turn produces valuable outputs that might feed into the decision-making process. In order to demonstrate the applicability of the method, outcomes produced from three different case studies (Homa Bay District-Kenya-; Kibondo District-Tanzania-; and Municipality of Manhiça-Mozambique-) are presented. PMID:23850660

  10. Relation of project managers' personality and project performance: An approach based on value stream mapping

    Directory of Open Access Journals (Sweden)

    Maurizio Bevilacqua

    2014-09-01

    Full Text Available Purpose: This work investigates the influence of project managers’ personality on the success of a project in a Multinational Corporation. The methodology proposed for analyzing the project managers’ personality is based on the Myers-Briggs Type Indicator.Design/methodology/approach: Forty projects carried out in 2012 by multinational corporation, concerning new product development (NPD, have been analyzed, comparing the profile of project managers with results obtained in terms of traditional performance indexes (time delay and over-budget of projects and performance indexes usually used in “Lean Production” sector (waste time and type of “wastes”. A detailed analysis of the most important “wastes” during the project development is carried out using the Value Stream Mapping (VSM technique.Findings and Originality/value: Relying on the Myers–Briggs personality instrument, results show that extroverted managers (as opposed to introverted managers carry out projects that show lower delay and lower waste time. Introverted managers often make “Over-processing” and “Defect” types of waste. Moreover, lower delay and over-budget have been shown by perceiving managers.Research limitations: Regarding the limitations of this work it is necessary to highlight that we collected data from project managers in a retrospective way. While we believe that several aspects of our data collection effort helped enhance the accuracy of the results, future research could conduct real-time case study research to get more detailed insights into the proposed relationships and avoid retrospective bias. Moreover we focused on a single respondent, the project manager. This helped us ensure that their interpretations played an important role in product development. But, we cannot examined the opinion of team members that could be different from project managers opinion regarding some questions.Originality/value: This research provides insight useful

  11. Biotechnology and apple breeding in Japan.

    Science.gov (United States)

    Igarashi, Megumi; Hatsuyama, Yoshimichi; Harada, Takeo; Fukasawa-Akada, Tomoko

    2016-01-01

    Apple is a fruit crop of significant economic importance, and breeders world wide continue to develop novel cultivars with improved characteristics. The lengthy juvenile period and the large field space required to grow apple populations have imposed major limitations on breeding. Various molecular biological techniques have been employed to make apple breeding easier. Transgenic technology has facilitated the development of apples with resistance to fungal or bacterial diseases, improved fruit quality, or root stocks with better rooting or dwarfing ability. DNA markers for disease resistance (scab, powdery mildew, fire-blight, Alternaria blotch) and fruit skin color have also been developed, and marker-assisted selection (MAS) has been employed in breeding programs. In the last decade, genomic sequences and chromosome maps of various cultivars have become available, allowing the development of large SNP arrays, enabling efficient QTL mapping and genomic selection (GS). In recent years, new technologies for genetic improvement, such as trans-grafting, virus vectors, and genome-editing, have emerged. Using these techniques, no foreign genes are present in the final product, and some of them show considerable promise for application to apple breeding. PMID:27069388

  12. Possibilities for marker-assisted selection in aquaculture breeding schemes

    International Nuclear Information System (INIS)

    FAO estimates that there are around 200 species in aquaculture. However, only a few species have ongoing selective breeding programmes. Marker-assisted selection (MAS) is not used in any aquaculture breeding scheme today. The aim of this chapter, therefore, is to review briefly the current status of aquaculture breeding schemes and to evaluate the possibilities for MAS of aquaculture species. Genetic marker maps have been published for some species in culture. The marker density of these maps is, in general, rather low and the maps are composed of many amplified fragment length polymorphism (AFLP) markers anchored to few microsatellites. Some quantitative trait loci (QTL) have been identified for economically important traits, but they are not yet mapped at a high density. Computer simulations of within-family MAS schemes show a very high increase in genetic gain compared with conventional family-based breeding schemes, mainly due to the large family sizes that are typical for aquaculture breeding schemes. The use of genetic markers to identify individuals and their implications for breeding schemes with control of inbreeding are discussed. (author)

  13. Information Science in the web era: a term-based approach to domain mapping.

    OpenAIRE

    Ibekwe-SanJuan, Fidelia

    2009-01-01

    We propose a methodology for mapping the research in Information Science (IS) field based on a combined use of symbolic (linguistic) and numeric information. Using the same list of 12 IS journals as in earlier studies on this same topic (White & McCain 1998 ; Zhao & Strotmann 2008a&b), we mapped the structure of research in IS for two consecutive periods: 1996-2005 and 2006-2008. We focused on mapping the content of scientific publications from the title and abstract fields of underlying publ...

  14. 2-D quadratic maps and 3-D ode systems a rigorous approach

    CERN Document Server

    Elhadj, Zeraoulia

    2010-01-01

    This book is based on research on the rigorous proof of chaos and bifurcations in 2-D quadratic maps, especially the invertible case such as the Hénon map, and in 3-D ODE's, especially piecewise linear systems such as the Chua's circuit. In addition, the book covers some recent works in the field of general 2-D quadratic maps, especially their classification into equivalence classes, and finding regions for chaos, hyperchaos, and non-chaos in the space of bifurcation parameters.Following the main introduction to the rigorous tools used to prove chaos and bifurcations in the two representative

  15. A new approach to analyze strategy map using an integrated BSC and FUZZY DEMATEL

    Directory of Open Access Journals (Sweden)

    Seyed Abdollah Heydariyeh

    2012-01-01

    Full Text Available Today, with ever-increasing competition in global economic conditions, the necessity of effective implementation of strategy map has become an inevitable and necessary. The strategy map represents a general and structured framework for strategic objectives and plays an important role in forming competitive advantages for organizations. It is important to find important factors influencing strategy map and prioritize them based on suitable factors. In this paper, we propose an integration of BSC and Fuzzy DEMATEL technique to rank different items influencing strategy of a production plan. The proposed technique is implemented for real-world case study of glass production.

  16. Inventory analysis of West African cattle breeds

    International Nuclear Information System (INIS)

    The improvement of livestock productivity and the preservation of their genetic diversity to allow breeders to select animals adapted to environmental changes, diseases and social needs, require a detailed inventory and genetic characterization of domesticated animal breeds. Indeed, in developing countries, the notion of breed is not clearly defined, as visual traits are often used and characterization procedures are often subjective. So it is necessary to upgrade the phenotypic approach using genetic information. At CIRDES, a regional centre for subhumid livestock research and development, such studies have been conducted. This paper focuses on cattle breed inventory in seven countries of West Africa as a tool for genetic research on cattle improvement. Data collection was done using a bibliographical study, complemented by in situ investigations. According to phenotypic description and concepts used by indigenous livestock keepers, 13 local cattle breeds were recognized: N'dama, Kouri, the Baoule-Somba group, the Lagoon cattle group, zebu Azawak, zebu Maure, zebu Touareg, zebu Goudali, zebu Bororo, zebu White Fulani, zebu Djelli, zebu Peuhl soudanien and zebu Gobra (Toronke). Nine exotic breeds, (American Brahman, Gir, Girolando, Droughtmaster, Santa Gertrudis, Holstein, Montbeliarde, Jersey and Brown Swiss) and five typical cross-breeds (Holstein x Goudali; Montbeliarde x Goudali; Holstein x Azawak; Brown Swiss x Azawak; and Brown Swiss x zebu peuhl soudanien) were also found. From this initial investigation, the areas of heavy concentration of herds and the most important breeds were described. The review has also indicated the necessity for a balance between improving livestock productivity and the conservation of trypanotolerant breeds at risk of extinction in West Africa. (author)

  17. State space approach for joint estimation of activity and attenuation map from PET emission sinograms

    Institute of Scientific and Technical Information of China (English)

    Liu Huafeng; You Hongshun; Shi Pengcheng

    2007-01-01

    Quantitative estimation of radioactivity map has important clinical implications for better diagnosis and understanding of cancers. Although attenuation map and activity map are usually treated sequentially, they can obviously benefit a great deal when the transmission data is missing. In this paper, we propose a novel scheme of simultaneously solving for attenuation map and activity distribution from emission sinograms. Our strategy combines the measurement model of PET, and the attenuation parameters are treated as random variables with known prior statistics. After the conversion to state space representation, the extended Kalman filtering procedures are adopted to linearize the equations and to provide the joint estimates in an approximate optimal sense. Experiments have been performed on both synthetic data to illustrate its abilities and benefits.

  18. A National Approach to Quantify and Map Biodiversity Conservation Metrics within an Ecosystem Services Framework

    Science.gov (United States)

    Ecosystem services, i.e., "services provided to humans from natural systems," have become a key issue of this century in resource management, conservation planning, human well-being, and environmental decision analysis. Mapping and quantifying ecosystem services have be...

  19. RESEARCH ON SOME THEORETICAL PROBLEMS OF MAP DATA HANDLING USING FRACTAL APPROACH

    Institute of Scientific and Technical Information of China (English)

    2000-01-01

    Some theoretical problems of fractal geographical map data handling are dis cussed and some new methods about fractal dimension introducing, developing, comparing and estimating are proposed in this paper.

  20. Use of linkage disequilibrium approaches to map genes for bipolar disorder in the Costa Rican population

    Energy Technology Data Exchange (ETDEWEB)

    Escamilla, M.A.; Reus, V.I.; Smith, L.B.; Freimer, N.B. [Univ. of California, San Francisco, CA (United States)] [and others

    1996-05-31

    Linkage disequilibrium (LD) analysis provides a powerful means for screening the genome to map the location of disease genes, such as those for bipolar disorder (BP). As described in this paper, the population of the Central Valley of Costa Rica, which is descended from a small number of founders, should be suitable for LD mapping; this assertion is supported by reconstruction of extended haplotypes shared by distantly related individuals in this population suffering low-frequency hearing loss (LFHL1), which has previously been mapped by linkage analysis. A sampling strategy is described for applying LD methods to map genes for BP, and clinical and demographic characteristics of an initially collected sample are discussed. This sample will provide a complement to a previously collected set of Costa Rican BP families which is under investigation using standard linkage analysis. 42 refs., 4 figs., 2 tabs.

  1. A concept mapping approach to guide and understand dissemination and implementation.

    Science.gov (United States)

    Green, Amy E; Fettes, Danielle L; Aarons, Gregory A

    2012-10-01

    Many efforts to implement evidence-based programs do not reach their full potential or fail due to the variety of challenges inherent in dissemination and implementation. This article describes the use of concept mapping-a mixed method strategy-to study implementation of behavioral health innovations and evidence-based practice (EBP). The application of concept mapping to implementation research represents a practical and concise way to identify and quantify factors affecting implementation, develop conceptual models of implementation, target areas to address as part of implementation readiness and active implementation, and foster communication among stakeholders. Concept mapping is described and a case example is provided to illustrate its use in an implementation study. Implications for the use of concept mapping methods in both research and applied settings towards the dissemination and implementation of behavioral health services are discussed. PMID:22892987

  2. Main Issues Regarding the Relationship between Cognitive Maps and Internet Consumer Behavior - a Knowledge Based Approach

    OpenAIRE

    Bogdan Onete; Mihaela Constantinescu; Alina Filip

    2007-01-01

    The Internet has become an important tool in achieving strategic objectives for many organizations in the context of a more dynamic business environment. The development of e-commerce was influenced by changes in consumer behavior, technology and competition. The ways the change in consumer behavior have formed and will develop are highlighted in the economic literature by the concept of cognitive map. The application of cognitive maps as representation systems for the web produces a better i...

  3. A hybrid wetland map for China: A synergistic approach using census and spatially explicit datasets

    OpenAIRE

    Ma, K.; You, L.; Liu, J; Zhang, M

    2012-01-01

    Wetlands play important ecological, economic, and cultural roles in societies around the world. However, wetland degradation has become a serious ecological issue, raising the global sustainability concern. An accurate wetland map is essential for wetland management. Here we used a fuzzy method to create a hybrid wetland map for China through the combination of five existing wetlands datasets, including four spatially explicit wetland distribution data and one wetland census. Our results sho...

  4. A Hybrid Wetland Map for China: A Synergistic Approach Using Census and Spatially Explicit Datasets

    OpenAIRE

    Ma, Kun; You, Liangzhi; Liu, Junguo; Zhang, Mingxiang

    2012-01-01

    Wetlands play important ecological, economic, and cultural roles in societies around the world. However, wetland degradation has become a serious ecological issue, raising the global sustainability concern. An accurate wetland map is essential for wetland management. Here we used a fuzzy method to create a hybrid wetland map for China through the combination of five existing wetlands datasets, including four spatially explicit wetland distribution data and one wetland census. Our results show...

  5. A Maximum Likelihood Approach to Functional Mapping of Longitudinal Binary Traits

    OpenAIRE

    Wang Chenguang; Li Hongying; Wang Zhong; Wang Yaqun; Wang Ningtao; Wang Zuoheng; Wu Rongling

    2012-01-01

    Despite their importance in biology and biomedicine, genetic mapping of binary traits that change over time has not been well explored. In this article, we develop a statistical model for mapping quantitative trait loci (QTLs) that govern longitudinal responses of binary traits. The model is constructed within the maximum likelihood framework by which the association between binary responses is modeled in terms of conditional log odds-ratios. With this parameterization, the maximum likelihood...

  6. COMPARATIVE PERFORMANCE ANALYSIS OF A HYPER-TEMPORAL NDVI ANALYSIS APPROACH AND A LANDSCAPE-ECOLOGICAL MAPPING APPROACH

    OpenAIRE

    Ali, A.; Bie, C. A. J. M; Scarrott, R. G.; N.T.T. Ha; A. K. Skidmore

    2012-01-01

    Both agricultural area expansion and intensification are necessary to cope with the growing demand for food, and the growing threat of food insecurity which is rapidly engulfing poor and under-privileged sections of the global population. Therefore, it is of paramount importance to have the ability to accurately estimate crop area and spatial distribution. Remote sensing has become a valuable tool for estimating and mapping cropland areas, useful in food security monitoring. This work contrib...

  7. Wave propagation properties in oscillatory chains with cubic nonlinearities via nonlinear map approach

    Energy Technology Data Exchange (ETDEWEB)

    Romeo, Francesco [Dipartimento di Ingegneria Strutturale e Geotecnica, Universita di Roma ' La Sapienza' , Via Gramsci 53, 00197 Rome (Italy)] e-mail: francesco.romeo@uniromal.it; Rega, Giuseppe [Dipartimento di Ingegneria Strutturale e Geotecnica, Universita di Roma ' La Sapienza' , Via Gramsci 53, 00197 Rome (Italy)] e-mail: giuseppe.rega@uniromal.it

    2006-02-01

    Free wave propagation properties in one-dimensional chains of nonlinear oscillators are investigated by means of nonlinear maps. In this realm, the governing difference equations are regarded as symplectic nonlinear transformations relating the amplitudes in adjacent chain sites (n, n + 1) thereby considering a dynamical system where the location index n plays the role of the discrete time. Thus, wave propagation becomes synonymous of stability: finding regions of propagating wave solutions is equivalent to finding regions of linearly stable map solutions. Mechanical models of chains of linearly coupled nonlinear oscillators are investigated. Pass- and stop-band regions of the mono-coupled periodic system are analytically determined for period-q orbits as they are governed by the eigenvalues of the linearized 2D map arising from linear stability analysis of periodic orbits. Then, equivalent chains of nonlinear oscillators in complex domain are tackled. Also in this case, where a 4D real map governs the wave transmission, the nonlinear pass- and stop-bands for periodic orbits are analytically determined by extending the 2D map analysis. The analytical findings concerning the propagation properties are then compared with numerical results obtained through nonlinear map iteration.

  8. Wave propagation properties in oscillatory chains with cubic nonlinearities via nonlinear map approach

    International Nuclear Information System (INIS)

    Free wave propagation properties in one-dimensional chains of nonlinear oscillators are investigated by means of nonlinear maps. In this realm, the governing difference equations are regarded as symplectic nonlinear transformations relating the amplitudes in adjacent chain sites (n, n + 1) thereby considering a dynamical system where the location index n plays the role of the discrete time. Thus, wave propagation becomes synonymous of stability: finding regions of propagating wave solutions is equivalent to finding regions of linearly stable map solutions. Mechanical models of chains of linearly coupled nonlinear oscillators are investigated. Pass- and stop-band regions of the mono-coupled periodic system are analytically determined for period-q orbits as they are governed by the eigenvalues of the linearized 2D map arising from linear stability analysis of periodic orbits. Then, equivalent chains of nonlinear oscillators in complex domain are tackled. Also in this case, where a 4D real map governs the wave transmission, the nonlinear pass- and stop-bands for periodic orbits are analytically determined by extending the 2D map analysis. The analytical findings concerning the propagation properties are then compared with numerical results obtained through nonlinear map iteration

  9. Mapping the EQ-5D index from the cystic fibrosis questionnaire-revised using multiple modelling approaches.

    OpenAIRE

    Acaster, S.; Pinder, B.; Mukuria, C.; Copans, A.

    2015-01-01

    BACKGROUND: This study was designed to develop a mapping algorithm to estimate EQ-5D utility values from Cystic Fibrosis Questionnaire-Revised (CFQ-R) data. METHODS: A cross-sectional survey of adults with cystic fibrosis (CF) was conducted in the UK. The survey consisted of the CFQ-R, the EQ-5D and a background questionnaire. Eight regression models, exploring item and domain level predictors, were evaluated using three different modelling approaches: ordinary least squares (OLS), Tobit, and...

  10. Mapping the EQ-5D index from the cystic fibrosis questionnaire-revised using multiple modelling approaches

    OpenAIRE

    Acaster, Sarah; Pinder, Binny; Mukuria, Clara; Copans, Amanda

    2015-01-01

    Background This study was designed to develop a mapping algorithm to estimate EQ-5D utility values from Cystic Fibrosis Questionnaire-Revised (CFQ-R) data. Methods A cross-sectional survey of adults with cystic fibrosis (CF) was conducted in the UK. The survey consisted of the CFQ-R, the EQ-5D and a background questionnaire. Eight regression models, exploring item and domain level predictors, were evaluated using three different modelling approaches: ordinary least squares (OLS), Tobit, and a...

  11. A Multi - Disciplinary Approach Combining Geological, Geomorphological and Geophysical Data for Mapping the Susceptibility to Sinkholes

    Science.gov (United States)

    Margiotta, Stefano; Negri, Sergio; Quarta, Tatiana A. M.; Parise, Mario

    2013-04-01

    The Salento region of southern Italy has a great number of active sinkholes, related to both natural and anthropogenic cavities. The presence of sinkholes is at the origin of several problems to the built-up environment, due to the increasing population growth and development pressures. In such a context, the detection of cavities, and therefore the assessment of the sinkhole hazard presents numerous difficulties. Multidisciplinary - approach, comprising geological, geomorphological and geophysical analyses, is therefore necessary to obtain comprehensive knowledge of the complex phenomena in karstic areas. Geophysical methods can also be of great help to identify and map the areas at higher risk of collapse. In this case it is important to identify the features related to the underground voids, likely evolving to sinkholes, by contrasts in physical properties such as density, electrical resistivity, and so on, with the surrounding sediments. At the same time, identification of the presence of sinkholes by geophysical methods has to adapt to the different geological conditions, so that there is not the possibility to use the same techniques everywhere. At this aim, the present paper illustrates the advantages of integrating geological and geomorphological surveys with surface geophysical techniques such as seismic, geoelectrical and ground penetrating radar methods for the identification of sinkhole-prone areas. The present work illustrates the results concerning a sinkhole system at Nociglia (inland Salento, southeastern Italy) where the shallow phreatic speleogenesis operates close to the water table level with formation of karst conduits and proto-caves whose evolution occurs through successive roof collapse, formation of wide caverns and sinkhole development at the surface. All of this creates serious problems to the nearby infrastructures, including a province road that has often been threatened by the sinkhole development. Geological and geomorphological

  12. Visualizing the topical structure of the medical sciences: a self-organizing map approach.

    Directory of Open Access Journals (Sweden)

    André Skupin

    Full Text Available BACKGROUND: We implement a high-resolution visualization of the medical knowledge domain using the self-organizing map (SOM method, based on a corpus of over two million publications. While self-organizing maps have been used for document visualization for some time, (1 little is known about how to deal with truly large document collections in conjunction with a large number of SOM neurons, (2 post-training geometric and semiotic transformations of the SOM tend to be limited, and (3 no user studies have been conducted with domain experts to validate the utility and readability of the resulting visualizations. Our study makes key contributions to all of these issues. METHODOLOGY: Documents extracted from Medline and Scopus are analyzed on the basis of indexer-assigned MeSH terms. Initial dimensionality is reduced to include only the top 10% most frequent terms and the resulting document vectors are then used to train a large SOM consisting of over 75,000 neurons. The resulting two-dimensional model of the high-dimensional input space is then transformed into a large-format map by using geographic information system (GIS techniques and cartographic design principles. This map is then annotated and evaluated by ten experts stemming from the biomedical and other domains. CONCLUSIONS: Study results demonstrate that it is possible to transform a very large document corpus into a map that is visually engaging and conceptually stimulating to subject experts from both inside and outside of the particular knowledge domain. The challenges of dealing with a truly large corpus come to the fore and require embracing parallelization and use of supercomputing resources to solve otherwise intractable computational tasks. Among the envisaged future efforts are the creation of a highly interactive interface and the elaboration of the notion of this map of medicine acting as a base map, onto which other knowledge artifacts could be overlaid.

  13. Geomorphons — a pattern recognition approach to classification and mapping of landforms

    Science.gov (United States)

    Jasiewicz, Jarosław; Stepinski, Tomasz F.

    2013-01-01

    We introduce a novel method for classification and mapping of landform elements from a DEM based on the principle of pattern recognition rather than differential geometry. At the core of the method is the concept of geomorphon (geomorphologic phonotypes) — a simple ternary pattern that serves as an archetype of a particular terrain morphology. A finite number of 498 geomorphons constitute a comprehensive and exhaustive set of all possible morphological terrain types including standard elements of landscape, as well as unfamiliar forms rarely found in natural terrestrial surfaces. A single scan of a DEM assigns an appropriate geomorphon to every cell in the raster using a procedure that self-adapts to identify the most suitable spatial scale at each location. As a result, the method classifies landform elements at a range of different spatial scales with unprecedented computational efficiency. A general purpose geomorphometric map — an interpreted map of topography — is obtained by generalizing allgeomorphons to a small number of the most common landform elements. Due to the robustness and high computational efficiency of the method high resolution geomorphometric maps having continental and even global extents can be generated from giga-cell DEMs. Such maps are a valuable new resource for both manual and automated geomorphometric analyses. In order to demonstrate a practical application of this new method, a 30 m cell- 1 geomorphometric map of the entire country of Poland is generated and the features and potential usage of this map are briefly discussed. The computer implementation of the method is outlined. The code is available in the public domain.

  14. A Generic Approach to Self-localization and Mapping of Mobile Robots Without Using a Kinematic Model

    DEFF Research Database (Denmark)

    Kesper, Patrick; Berscheid, Lars; Wörgötter, Florentin; Manoonpong, Poramate

    environment of a robot. Scan-matching is applied to compensate for noisy IMU measurements. This approach does not require any robot-specific characteristics, e.g. wheel encoders or kinematic models. In principle, this minimal sensory setup can be mounted on different robot systems without major modifications......In this paper a generic approach to the SLAM (Simultaneous Localization and Mapping) problem is proposed. The approach is based on a probabilistic SLAM algorithm and employs only two portable sensors, an inertial measurement unit (IMU) and a laser range finder (LRF) to estimate the state and...... to the underlying algorithms. The sensory setup with the probabilistic algorithm is tested in real-world experiments on two different kinds of robots: a simple two-wheeled robot and the six-legged hexapod AMOSII. The obtained results indicate a successful implementation of the approach and confirm...

  15. Segmentation and automated measurement of chronic wound images: probability map approach

    Science.gov (United States)

    Ahmad Fauzi, Mohammad Faizal; Khansa, Ibrahim; Catignani, Karen; Gordillo, Gayle; Sen, Chandan K.; Gurcan, Metin N.

    2014-03-01

    estimated 6.5 million patients in the United States are affected by chronic wounds, with more than 25 billion US dollars and countless hours spent annually for all aspects of chronic wound care. There is need to develop software tools to analyze wound images that characterize wound tissue composition, measure their size, and monitor changes over time. This process, when done manually, is time-consuming and subject to intra- and inter-reader variability. In this paper, we propose a method that can characterize chronic wounds containing granulation, slough and eschar tissues. First, we generate a Red-Yellow-Black-White (RYKW) probability map, which then guides the region growing segmentation process. The red, yellow and black probability maps are designed to handle the granulation, slough and eschar tissues, respectively found in wound tissues, while the white probability map is designed to detect the white label card for measurement calibration purpose. The innovative aspects of this work include: 1) Definition of a wound characteristics specific probability map for segmentation, 2) Computationally efficient regions growing on 4D map; 3) Auto-calibration of measurements with the content of the image. The method was applied on 30 wound images provided by the Ohio State University Wexner Medical Center, with the ground truth independently generated by the consensus of two clinicians. While the inter-reader agreement between the readers is 85.5%, the computer achieves an accuracy of 80%.

  16. Impact of a concept map teaching approach on nursing students' critical thinking skills.

    Science.gov (United States)

    Kaddoura, Mahmoud; Van-Dyke, Olga; Yang, Qing

    2016-09-01

    Nurses confront complex problems and decisions that require critical thinking in order to identify patient needs and implement best practices. An active strategy for teaching students the skills to think critically is the concept map. This study explores the development of critical thinking among nursing students in a required pathophysiology and pharmacology course during the first year of a Bachelor of Science in Nursing in response to concept mapping as an interventional strategy, using the Health Education Systems, Incorporated critical thinking test. A two-group experimental study with a pretest and posttest design was used. Participants were randomly divided into a control group (n = 42) taught by traditional didactic lecturing alone, and an intervention group (n = 41), taught by traditional didactic lecturing with concept mapping. Students in the concept mapping group performed much better on the Health Education Systems, Incorporated than students in the control group. It is recommended that deans, program directors, and nursing faculties evaluate their curricula to integrate concept map teaching strategies in courses in order to develop critical thinking abilities in their students. PMID:26891960

  17. Brain mapping in a patient with congenital blindness – a case for multimodal approaches

    Directory of Open Access Journals (Sweden)

    Jarod L Roland

    2013-07-01

    Full Text Available Recent advances in basic neuroscience research across a wide range of methodologies have contributed significantly to our understanding of human cortical electrophysiology and functional brain imaging. Translation of this research into clinical neurosurgery has opened doors for advanced mapping of functionality that previously was prohibitively difficult, if not impossible. Here we present the case of a unique individual with congenital blindness and medically refractory epilepsy who underwent neurosurgical treatment of her seizures. Pre-operative evaluation presented the challenge of accurately and robustly mapping the cerebral cortex for an individual with a high probability of significant cortical re-organization. Additionally, a blind individual has unique priorities in one’s ability to read Braille by touch and sense the environment primarily by sound than the non-vision impaired person. For these reasons we employed additional measures to map sensory, motor, speech, language, and auditory perception by employing a number of cortical electrophysiologic mapping and functional magnetic resonance imaging methods. Our data show promising results in the application of these adjunctive methods in the pre-operative mapping of otherwise difficult to localize, and highly variable, functional cortical areas.

  18. A new approach for creating customizable cytoarchitectonic probabilistic maps without a template.

    Science.gov (United States)

    Tahmasebi, Amir M; Abolmaesumi, Purang; Geng, Xiujuan; Morosan, Patricia; Amunts, Katrin; Christensen, Gary E; Johnsrude, Ingrid S

    2009-01-01

    We present a novel technique for creating template-free probabilistic maps of the cytoarchitectonic areas using a groupwise registration. We use the technique to transform 10 human post-mortem structural MR data sets, together with their corresponding cytoarchitectonic information, to a common space. We have targeted the cytoarchitectonically defined subregions of the primary auditory cortex. Thanks to the template-free groupwise registration, the created maps are not macroanatomically biased towards a specific geometry/topology. The advantage of the group-wise versus pairwise registration in avoiding such anatomical bias is better revealed in studies with small number of subjects and a high degree of variability among the individuals such as the post-mortem data. A leave-one-out cross-validation method was used to compare the sensitivity, specificity and positive predictive value of the proposed and published maps. We observe a significant improvement in localization of cytoarchitectonically defined subregions in primary auditory cortex using the proposed maps. The proposed maps can be tailored to any subject space by registering the subject image to the average of the groupwise-registered post-mortem images. PMID:20426184

  19. Microzonation Mapping Of The Yanbu Industrial City, Western Saudi Arabia: A Multicriteria Decision Analysis Approach

    Science.gov (United States)

    Moustafa, Sayed, Sr.; Alarifi, Nassir S.; Lashin, Aref A.

    2016-04-01

    Urban areas along the western coast of Saudi Arabia are susceptible to natural disasters and environmental damages due to lack of planning. To produce a site-specific microzonation map of the rapidly growing Yanbu industrial city, spatial distribution of different hazard entities are assessed using the Analytical Hierarchal Process (AHP) together with Geographical Information System (GIS). For this purpose six hazard parameter layers are considered, namely; fundamental frequency, site amplification, soil strength in terms of effective shear-wave velocity, overburden sediment thickness, seismic vulnerability index and peak ground acceleration. The weight and rank values are determined during AHP and are assigned to each layer and its corresponding classes, respectively. An integrated seismic microzonation map was derived using GIS platform. Based on the derived map, the study area is classified into five hazard categories: very low, low, moderate high, and very high. The western and central parts of the study area, as indicated from the derived microzonation map, are categorized as a high hazard zone as compared to other surrounding places. The produced microzonation map of the current study is envisaged as a first-level assessment of the site specific hazards in the Yanbu city area, which can be used as a platform by different stakeholders in any future land-use planning and environmental hazard management.

  20. Precision animal breeding

    OpenAIRE

    Flint, A.P.F.; WOOLLIAMS, J. A.

    2007-01-01

    We accept that we are responsible for the quality of life of animals in our care. We accept that the activities of man affect all the living things with which we share this planet. But we are slow to realize that as a result we have a duty of care for all living things. That duty extends to the breeding of animals for which we are responsible. When animals are bred by man for a purpose, the aim should be to meet certain goals: to improve the precision with which breeding outcomes can be predi...

  1. Welfare in horse breeding

    DEFF Research Database (Denmark)

    Campbell, M.L.H.; Sandøe, Peter

    2015-01-01

    Welfare problems related to the way horses are bred, whether by coitus or by the application of artificial reproduction techniques (ARTs), have been given no discrete consideration within the academic literature. This paper reviews the existing knowledge base about welfare issues in horse breeding...... and identifies areas in which data is lacking. We suggest that all methods of horse breeding are associated with potential welfare problems, but also that the judicious use of ARTs can sometimes help to address those problems. We discuss how negative welfare effects could be identified and limited and...

  2. Understanding Users' Meaning Constructions of IS Adoption and Use - A Cognitive Mapping Approach

    DEFF Research Database (Denmark)

    Jensen, Tina Blegind; Kjærgaard, Annemette

    adoptive use behavior. We study the post-adoption process of a larger Electronic Patient Record (EPR) project, focusing specifically on how two different professional groups, doctors and nurses, make sense of the technology as it becomes integrated into their work processes. We use cognitive mapping to...... represent the users' perceptions of the information system in order to study their sensemaking. In continuation of present findings, we aim to develop the use of cognitive mapping further in order to move from using it as a static snapshot understanding of the users' perceptions to a dynamic tool for...... studying post-adoption processes as dynamic, on-going sensemaking processes....

  3. A Very Simple Approach for 3-D to 2-D Mapping

    OpenAIRE

    Dey, Sandipan; Abraham, Ajith; Sanyal, Sugata

    2010-01-01

    Many times we need to plot 3-D functions e.g., in many scientificc experiments. To plot this 3-D functions on 2-D screen it requires some kind of mapping. Though OpenGL, DirectX etc 3-D rendering libraries have made this job very simple, still these libraries come with many complex pre- operations that are simply not intended, also to integrate these libraries with any kind of system is often a tough trial. This article presents a very simple method of mapping from 3D to 2D, that is free from...

  4. Relaxation time of Gauss's continued-fraction map. I. The Hilbert space approach (Koopmanism)

    International Nuclear Information System (INIS)

    It is shown that U*, the adjoint of Koopman's isometric operator Uf(x) = f(Tx) corresponding to the map Tx = x-1 (mod 1) of the unit interval, is isomorphic to a symmetric integral operator when restricted to a Hilbert space of holomorphic functions f. This result, also obtained by Babenko in a different setting, allows them to derive new trace formulas. Using generalized Temple's inequalities, they determine the relaxation time of the above system with great accuracy. In contrast to a widespread belief, it appears to be unrelated to the entropy of the map T

  5. Acoustical source mapping based on deconvolution approaches for circular microphone arrays

    DEFF Research Database (Denmark)

    Tiana Roig, Elisabet; Jacobsen, Finn

    2011-01-01

    Recently, the aeroacoustic community has examined various methods based on deconvolution to improve the visualization of acoustic fields scanned with planar arrays of microphones. These methods are based on the assumption that the beamforming map in an observation plane parallel to the array can be...... though these methods are originally designed for planar sparse arrays, they can be adapted to uniform circular arrays for mapping the sound over 360º. Such geometry has the advantage that the beamforming response has always the same shape around the focusing direction, or in other words, that the...

  6. A combined segmentation and pixel-based classification approach of QuickBird imagery for land cover mapping

    Science.gov (United States)

    Wang, Jianmei; Li, Deren; Qin, Wenzhong

    2005-10-01

    Recent advances in remote-sensing technology suggest that satellite-based earth observation (EO) has great potential for providing and updating spatial information in a timely and cost-effective manner. However, with the improvement of the spatial resolution of satellite image, the detail of the image has become more complicated. Even though texture features included for multi-spectral high-resolution satellite imagery, conventional methods for pixel-based classification have limited success. In order to take better advantage of spatial information of high-resolution satellite imagery, a combined segmentation and pixel-based classification approach is presented in this paper. Firstly, pixel-based multi-spectral maximum-likelihood classification approach obtains initial classification result. Secondly, image segmentation is created by watershed transform and region merging. Finally, based on the proportions of each class present in each segment obtain final classification map. A QuickBird imagery of the suburban area of Shanghai in China is used to validate the proposed method. Experiment proves that classification map produced by the combined approach, is visual noise-free, has clean borders, and has better classification accuracy than that by pixel-based classification approach.

  7. Study on mapping Quantitative Trait Loci for animal complex binary traits using Bayesian-Markov chain Monte Carlo approach

    Institute of Scientific and Technical Information of China (English)

    LIU; Jianfeng; ZHANG; Yuan; ZHANG; Qin; WANG; Lixian; ZHANG; Jigang

    2006-01-01

    It is a challenging issue to map Quantitative Trait Loci (QTL) underlying complex discrete traits, which usually show discontinuous distribution and less information, using conventional statistical methods. Bayesian-Markov chain Monte Carlo (Bayesian-MCMC) approach is the key procedure in mapping QTL for complex binary traits, which provides a complete posterior distribution for QTL parameters using all prior information. As a consequence, Bayesian estimates of all interested variables can be obtained straightforwardly basing on their posterior samples simulated by the MCMC algorithm. In our study, utilities of Bayesian-MCMC are demonstrated using simulated several animal outbred full-sib families with different family structures for a complex binary trait underlied by both a QTL and polygene. Under the Identity-by-Descent-Based variance component random model, three samplers basing on MCMC, including Gibbs sampling, Metropolis algorithm and reversible jump MCMC, were implemented to generate the joint posterior distribution of all unknowns so that the QTL parameters were obtained by Bayesian statistical inferring. The results showed that Bayesian-MCMC approach could work well and robust under different family structures and QTL effects. As family size increases and the number of family decreases, the accuracy of the parameter estimates will be improved. When the true QTL has a small effect, using outbred population experiment design with large family size is the optimal mapping strategy.

  8. Experimenting the design-based k-NN approach for mapping and estimation under forest management planning

    Directory of Open Access Journals (Sweden)

    Mattioli W

    2012-02-01

    Full Text Available Estimation and mapping of forest attributes are a fundamental support for forest management planning. This study describes a practical experimentation concerning the use of design-based k-Nearest Neighbors (k-NN approach to estimate and map selected attributes in the framework of inventories at forest management level. The study area was the Chiarino forest within the Gran Sasso and Monti della Laga National Park (central Italy. Aboveground biomass and current annual increment of tree volume were selected as the attributes of interest for the test. Field data were acquired within 28 sample plots selected by stratified random sampling. Satellite data were acquired by a Landsat 5 TM multispectral image. Attributes from field surveys and Landsat image processing were coupled by k-NN to predict the attributes of interest for each pixel of the Landsat image. Achieved results demonstrate the effectiveness of the k-NN approach for statistical estimation, that is compatible with the produced forest attribute raster maps and also proves to be characterized, in the considered study case, by a precision double than that obtained by conventional inventory based on field sample plots only.

  9. A novel lidar-driven two-level approach for real-time unmanned ground vehicle navigation and map building

    Science.gov (United States)

    Luo, Chaomin; Krishnan, Mohan; Paulik, Mark; Cui, Bo; Zhang, Xingzhong

    2013-12-01

    In this paper, a two-level LIDAR-driven hybrid approach is proposed for real-time unmanned ground vehicle navigation and map building. Top level is newly designed enhanced Voronoi Diagram (EVD) method to plan a global trajectory for an unmanned vehicle. Bottom level employs Vector Field Histogram (VFH) algorithm based on the LIDAR sensor information to locally guide the vehicle under complicated workspace, in which it autonomously traverses from one node to another within the planned EDV with obstacle avoidance. To find the least-cost path within the EDV, novel distance and angle based search heuristic algorithms are developed, in which the cost of an edge is the risk of traversing the edge. An EVD is first constructed based on the environment, which is utilized to generate the initial global trajectory with obstacle avoidance. The VFH algorithm is employed to guide the vehicle to follow the path locally. Its effectiveness and efficiency of real-time navigation and map building for unmanned vehicles have been successfully validated by simulation studies and experiments. The proposed approach is successfully experimented on an actual unmanned vehicle to demonstrate the real-time navigation and map building performance of the proposed method. The vehicle appears to follow a very stable path while navigating through various obstacles.

  10. Gas hydrates stability zone thickness map of Indian deep offshore areas - A GIS based approach

    Digital Repository Service at National Institute of Oceanography (India)

    Rastogi, A; Deka, B.; Bhattacharya, G.C.; Ramprasad, T.; KameshRaju, K.A; Srinivas, K.; Murty, G.P.S.; Chaubey, A; Ramana, M.V.; Subrahmanyam, V.; Sarma, K.V.L.N.S.; Desa, M.; Paropkari, A; Menezes, A.A.A; Murty, V.S.N.; Antony, M.K.; SubbaRaju, L.V.; Desa, E.; Veerayya, M.

    under limited range of temperature and pressure conditions, which normally exist within few hundred meters of ocean sediments, in water depths greater than about 300 m. For the first time, GIS software has been used to map potential areas for the gas...

  11. Comparing Kriging and Regression Approaches for Mapping Soil Clay Content in a diverse Danish Landscape

    DEFF Research Database (Denmark)

    Adhikari, Kabindra; Bou Kheir, Rania; Greve, Mette Balslev;

    2013-01-01

    Information on the spatial variability of soil texture including soil clay content in a landscape is very important for agricultural and environmental use. Different prediction techniques are available to assess and map spatial variability of soil properties, but selecting the most suitable...

  12. An Innovative Approach to Scheme Learning Map Considering Tradeoff Multiple Objectives

    Science.gov (United States)

    Lin, Yu-Shih; Chang, Yi-Chun; Chu, Chih-Ping

    2016-01-01

    An important issue in personalized learning is to provide learners with customized learning according to their learning characteristics. This paper focused attention on scheming learning map as follows. The learning goal can be achieved via different pathways based on alternative materials, which have the relationships of prerequisite, dependence,…

  13. Mapping Patterns of Perceptions: A Community-Based Approach to Cultural Competence Assessment

    Science.gov (United States)

    Davis, Tamara S.

    2007-01-01

    Unclear definitions and limited system-level assessment measures inhibit cultural responsiveness in children's mental health. This study explores an alternative method to conceptualize and assess cultural competence in four children's mental health systems of care communities from family and professional perspectives. Concept Mapping was used to…

  14. A Multi-Objective Approach to Visualize Proportions and Similarities Between Individuals by Rectangular Maps

    DEFF Research Database (Denmark)

    Carrizosa, Emilio; Guerrero, Vanesa; Morales, Dolores Romero

    In this paper we address the problem of visualizing the proportions and the similarities attached to a set of individuals. We represent this information using a rectangular map, i.e., a subdivision of a rectangle into rectangular portions so that each portion is associated with one individual, th...

  15. A new approach for deriving Flood hazard maps from SAR data and global hydrodynamic models

    Science.gov (United States)

    Matgen, P.; Hostache, R.; Chini, M.; Giustarini, L.; Pappenberger, F.; Bally, P.

    2014-12-01

    With the flood consequences likely to amplify because of the growing population and ongoing accumulation of assets in flood-prone areas, global flood hazard and risk maps are needed for improving flood preparedness at large scale. At the same time, with the rapidly growing archives of SAR images of floods, there is a high potential of making use of these images for global and regional flood management. In this framework, an original method that integrates global flood inundation modeling and microwave remote sensing is presented. It takes advantage of the combination of the time and space continuity of a global inundation model with the high spatial resolution of satellite observations. The availability of model simulations over a long time period offers opportunities for estimating flood non-exceedance probabilities in a robust way. These probabilities can be attributed to historical satellite observations. Time series of SAR-derived flood extent maps and associated non-exceedance probabilities can then be combined generate flood hazard maps with a spatial resolution equal to that of the satellite images, which is most of the time higher than that of a global inundation model. In principle, this can be done for any area of interest in the world, provided that a sufficient number of relevant remote sensing images are available. As a test case we applied the method on the Severn River (UK) and the Zambezi River (Mozambique), where large archives of Envisat flood images can be exploited. The global ECMWF flood inundation model is considered for computing the statistics of extreme events. A comparison with flood hazard maps estimated with in situ measured discharge is carried out. The first results confirm the potentiality of the method. However, further developments on two aspects are required to improve the quality of the hazard map and to ensure the acceptability of the product by potential end user organizations. On the one hand, it is of paramount importance to

  16. Geospatial Predictive Modelling for Climate Mapping of Selected Severe Weather Phenomena Over Poland: A Methodological Approach

    Science.gov (United States)

    Walawender, Ewelina; Walawender, Jakub P.; Ustrnul, Zbigniew

    2016-02-01

    The main purpose of the study is to introduce methods for mapping the spatial distribution of the occurrence of selected atmospheric phenomena (thunderstorms, fog, glaze and rime) over Poland from 1966 to 2010 (45 years). Limited in situ observations as well the discontinuous and location-dependent nature of these phenomena make traditional interpolation inappropriate. Spatially continuous maps were created with the use of geospatial predictive modelling techniques. For each given phenomenon, an algorithm identifying its favourable meteorological and environmental conditions was created on the basis of observations recorded at 61 weather stations in Poland. Annual frequency maps presenting the probability of a day with a thunderstorm, fog, glaze or rime were created with the use of a modelled, gridded dataset by implementing predefined algorithms. Relevant explanatory variables were derived from NCEP/NCAR reanalysis and downscaled with the use of a Regional Climate Model. The resulting maps of favourable meteorological conditions were found to be valuable and representative on the country scale but at different correlation (r) strength against in situ data (from r = 0.84 for thunderstorms to r = 0.15 for fog). A weak correlation between gridded estimates of fog occurrence and observations data indicated the very local nature of this phenomenon. For this reason, additional environmental predictors of fog occurrence were also examined. Topographic parameters derived from the SRTM elevation model and reclassified CORINE Land Cover data were used as the external, explanatory variables for the multiple linear regression kriging used to obtain the final map. The regression model explained 89 % of annual frequency of fog variability in the study area. Regression residuals were interpolated via simple kriging.

  17. A Karnaugh map based approach towards systemic reviews and meta-analysis.

    Science.gov (United States)

    Hassan, Abdul Wahab; Hassan, Ahmad Kamal

    2016-01-01

    Studying meta-analysis and systemic reviews since long had helped us conclude numerous parallel or conflicting studies. Existing studies are presented in tabulated forms which contain appropriate information for specific cases yet it is difficult to visualize. On meta-analysis of data, this can lead to absorption and subsumption errors henceforth having undesirable potential of consecutive misunderstandings in social and operational methodologies. The purpose of this study is to investigate an alternate forum for meta-data presentation that relies on humans' strong pictorial perception capability. Analysis of big-data is assumed to be a complex and daunting task often reserved on the computational powers of machines yet there exist mapping tools which can analyze such data in a hand-handled manner. Data analysis on such scale can benefit from the use of statistical tools like Karnaugh maps where all studies can be put together on a graph based mapping. Such a formulation can lead to more control in observing patterns of research community and analyzing further for uncertainty and reliability metrics. We present a methodological process of converting a well-established study in Health care to its equaling binary representation followed by furnishing values on to a Karnaugh Map. The data used for the studies presented herein is from Burns et al (J Publ Health 34(1):138-148, 2011) consisting of retrospectively collected data sets from various studies on clinical coding data accuracy. Using a customized filtration process, a total of 25 studies were selected for review with no, partial, or complete knowledge of six independent variables thus forming 64 independent cells on a Karnaugh map. The study concluded that this pictorial graphing as expected had helped in simplifying the overview of meta-analysis and systemic reviews. PMID:27064957

  18. Breeding for adaptation to drought

    International Nuclear Information System (INIS)

    Full text: I will describe an approach we have used to breed improved cowpea varieties for an environment that experiences very severe droughts - the African Sahel. I will then speculate on how this approach might be enhanced for cowpea and some other C3 species by including selection for carbon stable isotope composition, i.e carbon isotope discrimination by plants (Δ). The approach in breeding for adaptation to drought involved selecting parents and then progeny with a type of grain desired by consumers and optimal time of flowering and cycle length, incorporating resistances to important diseases and pests, and yield-testing advanced lines in many locations throughout the target production zone in experiment station and farm conditions over several years. Can we now make further progress in breeding to improve adaptation to drought by including selection for Δ? The approach I recommend is to choose varieties or elite lines as parents that have differences in Δ but similar high grain quality and optimal time to flowering, cycle length and harvest index. In many cases, pre-breeding will be needed to develop appropriate elite lines and it may be difficult to develop lines that differ in Δ but also have the other necessary traits. Then crosses would be made and progeny would be selected that have the required grain quality, phenology, harvest index, and multiple resistances to pests and diseases. Selected stable lines would be screened for Δ values. Finally, selected advanced lines would be subjected to the necessary multilocation tests for yield, grain quality and other agronomic traits in the target production zone. But, should one select for Δ values that are lower or higher than those of the best current cultivars? Theory and experimental tests have shown that for C3 species, Δ is negatively correlated with intrinsic, integrated water-use efficiency. Water-use efficiency (W) is the ratio of crop biomass production to transpiration. A yield

  19. Identification and mapping the high nature value farmland by the comparison of a combined and species approaches in Tuscany, Italy

    Directory of Open Access Journals (Sweden)

    Giulio Lazzerini

    2015-09-01

    Full Text Available Low-intensity farming systems play a crucial role in nature conservation by preserving 50% of habitats, flora and fauna occurring in Europe. For this reason the identification, classification and mapping of high nature value farmlands (HNVfs is becoming an overriding concern. In this study, two different approaches, namely combined approach and species-based approach, were used to spatially identify HNVfs (type 1, 2 and 3 across Tuscany region (Italy. The first approach calculated different indicators (extensive practices indicator, crop diversity indicator, landscape element indicator at 1×1 km grid cell spatial resolution using pre-existent spatial datasets integrated within a global information system environment. Whilst, the speciesbased approach relied on a pre-existent regional naturalistic inventory. All indicators and the resulting HNVfs derived from the two approaches were aggregated at municipality level. Despite some difference, the two adopted approaches intercepted spatially the same HNVfs areas, accounting for 35% of the total utilised agricultural area of the region. Just 16% of HNVfs resulted located inside protected areas, thus under current conservation and protection management actions. Finally, HNVfs of the Tuscany region were spatially aggregated in four relevant agro-ecosystems by taking into consideration the cropping systems and the landscape elements’ characteristics peculiar in the region.

  20. Mutation breeding in mangosteen

    International Nuclear Information System (INIS)

    Mangosteen the queen of the tropical fruits is apomitic and only a cultivar is reported and it reproduces asexually. Conventional breeding is not possible and the other methods to create variabilities are through genetic engineering and mutation breeding. The former technique is still in the infantry stage in mangosteen research while the latter has been an established tool in breeding to improve cultivars. In this mutation breeding seeds of mangosteen were irradiated using gamma rays and the LD 50 for mangosteen was determined and noted to be very low at 10 Gy. After sowing in the seedbed, the seedlings were transplanted in polybags and observed in the nursery bed for about one year before planted in the field under old oil palm trees in Station MARDI, Kluang. After evaluation and screening, about 120 mutant mangosteen plants were selected and planted in Kluang. The plants were observed and some growth data taken. There were some mutant plants that have good growth vigour and more vigorous that the control plants. The trial are now in the fourth year and the plants are still in the juvenile stage. (Author)

  1. 水稻白叶枯病抗性基因的鉴定、定位、克隆与育种应用%Identification, Mapping, Isolation of the Genes Resisting to Bacterial Blight and Their Breeding Application in Rice

    Institute of Scientific and Technical Information of China (English)

    夏春; 陈红旗; 朱旭东

    2012-01-01

    Bacterial blight, caused by Xanthomonas oryzae pv. Oryzae, is the most devastating plant bacterial disease in Asia. Exploration, identification and utilization of new resistant germplasms to rice breeding are the effective pathway to control the disease. Mapping and cloning the resistant genes makes MAS (marker-assisted selection) and transgenic technology play a great role in breeding program for disease resistance and let people have a profound insight on molecular mechanism of resistance to bacterial blight. In this paper, mapping, cloning and application of the genes resisting to bacterial blight were summarized, and also some suggestion was put forward to relieve the damaging extent caused by bacterial blight via utilizing disease resistant breeding program.%水稻白叶枯病是由黄单胞杆菌水稻变种(Xanthomonas oryzae pv.oryzae Xoo)引起的细菌性病害,发掘、鉴定和利用新抗源是控制水稻白叶枯病的有效途径.白叶枯抗性基因定位和克隆,使分子标记辅助选择和转基因技术在白叶枯抗病育种中发挥了重大作用,也使人们在分子水平对白叶枯病抗性机制有了深刻认识.文章综述了白叶枯病抗性基因定位,克隆以及在育种方面的应用,并对如何利用抗病育种减轻白叶枯病的危害提出了几点建议.

  2. The use of genetic markers in poultry breeding.

    OpenAIRE

    Beek, van der, A.J.

    1996-01-01

    This thesis focuses on the design of linkage and quantitative trait locus (QTL) mapping experiments and on the use of genetic markers in poultry breeding schemes. Criteria to optimize the design of experiments that use outbred populations to create a linkage map were described. Those criteria were used to evaluate designs of experiments to map codominant and dominant genetic markers using half-sib of full-sib family structures. Once a linkage map is created, QTLs can be placed on the map. Det...

  3. An Approach To Safe Path Planning For Mobile Robot In The Dynamic Environment Based On Compact Maps

    Directory of Open Access Journals (Sweden)

    LanFeng Zhou

    2012-02-01

    Full Text Available For path planning of the mobile robot in dynamic environment, this paper proposed an approach to safe path planning based on compact maps. This algorithm utilizes an efficient stream decimation algorithm of massive mesh to build compact maps of the environment models. And it uses a knowledge based genetic algorithm to find the global optimal safe path. The fitness of the algorithm is linear with gap, and has less computation demand. The proposed knowledge based genetic algorithm incorporates the domain knowledge into its initial population and adjusts adaptively the parameter, which increases greatly the efficiency of the algorithm, in order to plan safe path of the mobile robot in the dynamic environment. Various simulation results show the effectiveness and efficiency of the presented method.

  4. Stochastic Portfolio Selection Using Breeding Swarm Optimization

    Science.gov (United States)

    Moradi, Shahab Mohammad; Khaloozadeh, Hamid; Forghani, Nosratollah

    In this study, the portfolio selection problem is concerned, in case that expected return rates are stochastic variables and the breeding swarm algorithm is applied to solve this problem. The first, the stochastic portfolio model and reliable decision are presented. The second, the global evolutionary computation algorithm-breeding swarm is proposed in order to overcome the computational complexity and local and global searching limitation of traditional optimization methods. Finally, a numerical example of portfolio selection problem is given. Findings endorse the effectiveness of the newly proposed algorithm in comparison to particle swarm optimization method. The results show that the breeding swarm approach to portfolio selection has high potential to achieve better solution and higher convergence.

  5. Mutation breeding newsletter. No. 45

    International Nuclear Information System (INIS)

    This issue of the Mutation Breeding newsletter contains 39 articles dealing with radiation induced mutations and chemical mutagenesis techniques in plant breeding programs with the aims of improving crop productivity and disease resistance as well as exploring genetic variabilities

  6. A multi-temporal fusion-based approach for land cover mapping in support of nuclear incident response

    Science.gov (United States)

    Sah, Shagan

    An increasingly important application of remote sensing is to provide decision support during emergency response and disaster management efforts. Land cover maps constitute one such useful application product during disaster events; if generated rapidly after any disaster, such map products can contribute to the efficacy of the response effort. In light of recent nuclear incidents, e.g., after the earthquake/tsunami in Japan (2011), our research focuses on constructing rapid and accurate land cover maps of the impacted area in case of an accidental nuclear release. The methodology involves integration of results from two different approaches, namely coarse spatial resolution multi-temporal and fine spatial resolution imagery, to increase classification accuracy. Although advanced methods have been developed for classification using high spatial or temporal resolution imagery, only a limited amount of work has been done on fusion of these two remote sensing approaches. The presented methodology thus involves integration of classification results from two different remote sensing modalities in order to improve classification accuracy. The data used included RapidEye and MODIS scenes over the Nine Mile Point Nuclear Power Station in Oswego (New York, USA). The first step in the process was the construction of land cover maps from freely available, high temporal resolution, low spatial resolution MODIS imagery using a time-series approach. We used the variability in the temporal signatures among different land cover classes for classification. The time series-specific features were defined by various physical properties of a pixel, such as variation in vegetation cover and water content over time. The pixels were classified into four land cover classes - forest, urban, water, and vegetation - using Euclidean and Mahalanobis distance metrics. On the other hand, a high spatial resolution commercial satellite, such as RapidEye, can be tasked to capture images over the

  7. Mapping Aquatic Vegetation in a Large, Shallow Eutrophic Lake: A Frequency-Based Approach Using Multiple Years of MODIS Data

    Directory of Open Access Journals (Sweden)

    Xiaohan Liu

    2015-08-01

    Full Text Available Aquatic vegetation serves many important ecological and socioeconomic functions in lake ecosystems. The presence of floating algae poses difficulties for accurately estimating the distribution of aquatic vegetation in eutrophic lakes. We present an approach to map the distribution of aquatic vegetation in Lake Taihu (a large, shallow eutrophic lake in China and reduce the influence of floating algae on aquatic vegetation mapping. Our approach involved a frequency analysis over a 2003–2013 time series of the floating algal index (FAI based on moderate-resolution imaging spectroradiometer (MODIS data. Three phenological periods were defined based on the vegetation presence frequency (VPF and the growth of algae and aquatic vegetation: December and January composed the period of wintering aquatic vegetation; February and March composed the period of prolonged coexistence of algal blooms and wintering aquatic vegetation; and June to October was the peak period of the coexistence of algal blooms and aquatic vegetation. By comparing and analyzing the satellite-derived aquatic vegetation distribution and 244 in situ measurements made in 2013, we established a FAI threshold of −0.025 and VPF thresholds of 0.55, 0.45 and 0.85 for the three phenological periods. We validated the accuracy of our approach by comparing the results between the satellite-derived maps and the in situ results obtained from 2008–2012. The overall classification accuracy was 87%, 81%, 77%, 88% and 73% in the five years from 2008–2012, respectively. We then applied the approach to the MODIS images from 2003–2013 and obtained the total area of the aquatic vegetation, which varied from 265.94 km2 in 2007 to 503.38 km2 in 2008, with an average area of 359.62 ± 69.20 km2 over the 11 years. Our findings suggest that (1 the proposed approach can be used to map the distribution of aquatic vegetation in eutrophic algae-rich waters and (2 dramatic changes occurred in the

  8. A 21st century approach to tackling dengue: Crowdsourced surveillance, predictive mapping and tailored communication.

    Science.gov (United States)

    Lwin, May O; Vijaykumar, Santosh; Fernando, Owen Noel Newton; Cheong, Siew Ann; Rathnayake, Vajira Sampath; Lim, Gentatsu; Theng, Yin-Leng; Chaudhuri, Subhasis; Foo, Schubert

    2014-02-01

    This paper describes a social media system to prevent dengue in Sri Lanka and potentially in the rest of the South and Southeast Asia regions. The system integrates three concepts of public health prevention that have thus far been implemented only in silos. First, the predictive surveillance component uses a computer simulation to forewarn health authorities and the general public about impending disease outbreaks. The civic engagement component allows the general public to use social media tools to interact and engage with health authorities by aiding them in surveillance efforts by reporting symptoms, mosquito bites and breeding sites using smartphone technologies. The health communication component utilizes citizen data gathered from the first two components to disseminate customized health awareness messages to enhance knowledge and increase preventive behaviors among citizens. The system, known as "Mo-Buzz," will be made available on a host of digital platforms like simple mobile phones, smart phones and a website. We present challenges and lessons learnt including content validation, stakeholder collaborations and applied trans-disciplinary research. PMID:24161879

  9. Allele mining and enhanced genetic recombination for rice breeding.

    Science.gov (United States)

    Leung, Hei; Raghavan, Chitra; Zhou, Bo; Oliva, Ricardo; Choi, Il Ryong; Lacorte, Vanica; Jubay, Mona Liza; Cruz, Casiana Vera; Gregorio, Glenn; Singh, Rakesh Kumar; Ulat, Victor Jun; Borja, Frances Nikki; Mauleon, Ramil; Alexandrov, Nickolai N; McNally, Kenneth L; Sackville Hamilton, Ruaraidh

    2015-12-01

    Traditional rice varieties harbour a large store of genetic diversity with potential to accelerate rice improvement. For a long time, this diversity maintained in the International Rice Genebank has not been fully used because of a lack of genome information. The publication of the first reference genome of Nipponbare by the International Rice Genome Sequencing Project (IRGSP) marked the beginning of a systematic exploration and use of rice diversity for genetic research and breeding. Since then, the Nipponbare genome has served as the reference for the assembly of many additional genomes. The recently completed 3000 Rice Genomes Project together with the public database (SNP-Seek) provides a new genomic and data resource that enables the identification of useful accessions for breeding. Using disease resistance traits as case studies, we demonstrated the power of allele mining in the 3,000 genomes for extracting accessions from the GeneBank for targeted phenotyping. Although potentially useful landraces can now be identified, their use in breeding is often hindered by unfavourable linkages. Efficient breeding designs are much needed to transfer the useful diversity to breeding. Multi-parent Advanced Generation InterCross (MAGIC) is a breeding design to produce highly recombined populations. The MAGIC approach can be used to generate pre-breeding populations with increased genotypic diversity and reduced linkage drag. Allele mining combined with a multi-parent breeding design can help convert useful diversity into breeding-ready genetic resources. PMID:26606925

  10. Mapping excellence in the geography of science: An approach based on Scopus data

    CERN Document Server

    Bornmann, Lutz; Walch-Solimena, Christiane; Ettl, Christoph

    2011-01-01

    As research becomes an ever more globalized activity, there is growing interest in national and international comparisons of standards and quality in different countries and regions. A sign for this trend is the increasing interest in rankings of universities according to their research performance, both inside but also outside the scientific environment. New methods presented in this paper, enable us to map centers of excellence around the world using programs that are freely available. Based on Scopus data, field-specific excellence can be identified and agglomerated in regions and cities where recently highly-cited papers were published. Differences in performance rates can be visualized on the map using colors and sizes of the marks.

  11. An approach to define potential radon emission level maps using indoor radon concentration measurements and radiogeochemical data positive proportion relationships

    International Nuclear Information System (INIS)

    The aim of this paper is to present the first step of a new approach to make a map of radonprone areas showing different potential radon emission levels in the Quebec province. This map is a tool intended to assist the Quebec government in identifying populations with a higher risk of indoor radon gas exposure. This map of radon-prone areas used available radiogeochemical information for the province of Quebec: (1) Equivalent uranium (eU) concentration from airborne surface gamma-ray surveys; (2) uranium concentration measurements in sediments; and (3) bedrock and surficial geology. Positive proportion relationships (PPR) between each individual criterion and the 1417 available basement radon concentrations were demonstrated. It was also shown that those criteria were reliable indicators of radon-prone areas. The three criteria were discretized into 3, 2 and 2 statistically significant different classes respectively. For each class, statistical heterogeneity was validated by Kruskal–Wallis one way analyses of variance on ranks. Maps of radon-prone areas were traced down for each criterion. Based on this statistical study and on the maps of radon-prone areas in Quebec, 18% of the dwellings located in areas with an equivalent uranium (eU) concentration from airborne surface gamma-ray surveys under 0.75 ppm showed indoor radon concentrations above 150 Bq/m3. This percentage increases to 33% when eU concentrations are between 0.75 ppm and 1.25 ppm and exceeds 40% when eU concentrations are above 1.25 ppm. A uranium concentration in sediments above 20 ppm showed an indoor radon concentration geometric mean of 215 Bq/m3 with more than 69% of the dwellings exceeding 150 Bq/m3 or more than 50% of dwellings exceeding the Canadian radon guideline of 200 Bq/m3. It is also shown that the radon emission potential is higher where a uranium-rich bedrock unit is not covered by a low permeability (silt/clay) surficial deposit. -- Highlights: • 5 criteria were identified in

  12. A Robust Approach for a Filter-Based Monocular Simultaneous Localization and Mapping (SLAM) System

    OpenAIRE

    Antoni Grau; Rodrigo Munguía; Bernardino Castillo-Toledo

    2013-01-01

    Simultaneous localization and mapping (SLAM) is an important problem to solve in robotics theory in order to build truly autonomous mobile robots. This work presents a novel method for implementing a SLAM system based on a single camera sensor. The SLAM with a single camera, or monocular SLAM, is probably one of the most complex SLAM variants. In this case, a single camera, which is freely moving through its environment, represents the sole sensor input to the system. The sensors have a large...

  13. The development of an adolescent smoking cessation intervention—an Intervention Mapping approach to planning

    OpenAIRE

    Dalum, Peter; Schaalma, Herman; Kok, Gerjo

    2011-01-01

    The objective of this project was to develop a theory- and evidence-based adolescent smoking cessation intervention using both new and existing materials. We used the Intervention Mapping framework for planning health promotion programmes. Based on a needs assessment, we identified important and changeable determinants of cessation behaviour, specified change objectives for the intervention programme, selected theoretical change methods for accomplishing intervention objectives and finally op...

  14. Mapping paddy rice in Asia: a multi-sensor, time-series approach.

    OpenAIRE

    Clauss, Kersten; Mack, Benjamin; Dech, Stefan; Künzer, Claudia

    2016-01-01

    Rice is the most important food crop in Asia and the mapping and monitoring of paddy rice fields is an important task in the context of food security, food trade policy and greenhouse gas emissions modelling. Two countries where rice is of special significance are China, the largest producer and importer of rice, and Vietnam, where rice exports contribute a fifth to the GDP. Both countries are facing increasing pressure in terms of food security due to population and economic g...

  15. A Machine Learning Approach to Mapping Agricultural Fields Across Sub-Saharan Africa

    Science.gov (United States)

    Debats, S. R.; Fuchs, T. J.; Thompson, D. R.; Estes, L. D.; Evans, T. P.; Caylor, K. K.

    2013-12-01

    Food production in sub-Saharan Africa is dominated by smallholder agriculture. Rainfed farming practices and the prevailing dryland conditions render crop yields vulnerable to increasing climatic variability. As a result, smallholder farmers are among the poorest and most food insecure groups among the region's population. Quantifying the distribution of smallholder agriculture across sub-Saharan Africa would greatly assist efforts to boost food security. Existing agricultural land cover data sets are limited to estimating the percentage of cropland within a coarse grid cell. The goal of this research is to develop a statistical machine learning algorithm to map individual agricultural fields, mirroring the accuracy of hand-digitization. For the algorithm, a random forest pixel-wise classifier learns by example from training data to distinguish between fields and non-fields. The algorithm then applies this training to classify previously unseen data. These classifications can then be smoothed into coherent regions corresponding to agricultural fields. Our training data set consists of hand-digitized boundaries of agricultural fields in South Africa, commissioned by its government in 2008. Working with 1 km x 1 km scenes across South Africa, the hand-digitized field boundaries are matched with satellite images extracted from Google Maps. To highlight different information contained within the images, several image processing filters are applied. The inclusion of Landsat images for additional training information is also explored. After training and testing the algorithm in South Africa, we aim to expand our mapping efforts across sub-Saharan Africa. Through Princeton's Mapping Africa project, crowdsourcing will produce additional training data sets of hand-digitized field boundaries in new areas of interest. This algorithm and the resulting data sets will provide previously unavailable information at an unprecedented level of detail on the largest and most

  16. A change detection approach to flood mapping in urban areas using TerraSAR-X

    OpenAIRE

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

    2013-01-01

    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 ...

  17. A Highly Efficient Approach to Protein Interactome Mapping Based on Collaborative Filtering Framework

    OpenAIRE

    Luo, Xin; You, Zhuhong; Zhou, Mengchu; Li, Shuai; Leung, Hareton; Xia, Yunni; Zhu, Qingsheng

    2015-01-01

    The comprehensive mapping of protein-protein interactions (PPIs) is highly desired for one to gain deep insights into both fundamental cell biology processes and the pathology of diseases. Finely-set small-scale experiments are not only very expensive but also inefficient to identify numerous interactomes despite their high accuracy. High-throughput screening techniques enable efficient identification of PPIs; yet the desire to further extract useful knowledge from these data leads to the pro...

  18. Mass Movement Susceptibility in the Western San Juan Mountains, Colorado: A Preliminary 3-D Mapping Approach

    Science.gov (United States)

    Kelkar, K. A.; Giardino, J. R.

    2015-12-01

    Mass movement is a major activity that impacts lives of humans and their infrastructure. Human activity in steep, mountainous regions is especially at risk to this potential hazard. Thus, the identification and quantification of risk by mapping and determining mass movement susceptibility are fundamental in protecting lives, resources and ensuring proper land use regulation and planning. Specific mass-movement processes including debris flows, rock falls, snow avalanches and landslides continuously modify the landscape of the San Juan Mountains. Historically, large-magnitude slope failures have repeatedly occurred in the region. Common triggers include intense, long-duration precipitation, freeze-thaw processes, human activity and various volcanic lithologies overlying weaker sedimentary formations. Predicting mass movement is challenging because of its episodic and spatially, discontinuous occurrence. Landslides in mountain terrain are characterized as widespread, highly mobile and have a long duration of activity. We developed a 3-D model for landslide susceptibility using Geographic Information Systems Technology (GIST). The study area encompasses eight USGS quadrangles: Ridgway, Dallas, Mount Sneffels, Ouray, Telluride, Ironton, Ophir and Silverton. Fieldwork consisted of field reconnaissance mapping at 1:5,000 focusing on surficial geomorphology. Field mapping was used to identify potential locations, which then received additional onsite investigation and photographic documentation of features indicative of slope failure. A GIS module was created using seven terrain spatial databases: geology, surficial geomorphology (digitized), slope aspect, slope angle, vegetation, soils and distance to infrastructure to map risk. The GIS database will help determine risk zonation for the study area. Correlations between terrain parameters leading to slope failure were determined through the GIS module. This 3-D model will provide a spatial perspective of the landscape to

  19. Development of a robotic mobile mapping system by vision-aided inertial navigation: a geomatics approach

    OpenAIRE

    Bayoud, Fadi Atef; Merminod, Bertrand

    2007-01-01

    Vision-based inertial-aided navigation is gaining ground due to its many potential applications. In previous decades, the integration of vision and inertial sensors was monopolised by the defence industry due to its complexity and unrealistic economic burden. After the technology advancement, high-quality hardware and computing power became reachable for the investigation and realisation of various applications. In this thesis, a mapping system by vision-aided inertial navigation was develope...

  20. Contemporary approaches to studying and mapping of active water exchange zone of ground water

    Science.gov (United States)

    Moraru, C. Ye

    2016-03-01

    The article deals with a zone of ground water active exchange. New principles of the zone study and mapping under the platform hydrogeological condition are discussed. The assessment and distribution techniques are suggested for the active water exchange zone under the condition of hydrogeological parameterization uncertainty. The efficiency and significance of the suggested techniques are proved using the example of ground water in the southwest of Black Sea artesian basin.

  1. Emerging Genomic Tools for Legume Breeding: Current Status and Future Prospects

    Science.gov (United States)

    Pandey, Manish K.; Roorkiwal, Manish; Singh, Vikas K.; Ramalingam, Abirami; Kudapa, Himabindu; Thudi, Mahendar; Chitikineni, Anu; Rathore, Abhishek; Varshney, Rajeev K.

    2016-01-01

    Legumes play a vital role in ensuring global nutritional food security and improving soil quality through nitrogen fixation. Accelerated higher genetic gains is required to meet the demand of ever increasing global population. In recent years, speedy developments have been witnessed in legume genomics due to advancements in next-generation sequencing (NGS) and high-throughput genotyping technologies. Reference genome sequences for many legume crops have been reported in the last 5 years. The availability of the draft genome sequences and re-sequencing of elite genotypes for several important legume crops have made it possible to identify structural variations at large scale. Availability of large-scale genomic resources and low-cost and high-throughput genotyping technologies are enhancing the efficiency and resolution of genetic mapping and marker-trait association studies. Most importantly, deployment of molecular breeding approaches has resulted in development of improved lines in some legume crops such as chickpea and groundnut. In order to support genomics-driven crop improvement at a fast pace, the deployment of breeder-friendly genomics and decision support tools seems appear to be critical in breeding programs in developing countries. This review provides an overview of emerging genomics and informatics tools/approaches that will be the key driving force for accelerating genomics-assisted breeding and ultimately ensuring nutritional and food security in developing countries. PMID:27199998

  2. Emerging Genomic Tools for Legume Breeding: Current Status and Future Prospects.

    Science.gov (United States)

    Pandey, Manish K; Roorkiwal, Manish; Singh, Vikas K; Ramalingam, Abirami; Kudapa, Himabindu; Thudi, Mahendar; Chitikineni, Anu; Rathore, Abhishek; Varshney, Rajeev K

    2016-01-01

    Legumes play a vital role in ensuring global nutritional food security and improving soil quality through nitrogen fixation. Accelerated higher genetic gains is required to meet the demand of ever increasing global population. In recent years, speedy developments have been witnessed in legume genomics due to advancements in next-generation sequencing (NGS) and high-throughput genotyping technologies. Reference genome sequences for many legume crops have been reported in the last 5 years. The availability of the draft genome sequences and re-sequencing of elite genotypes for several important legume crops have made it possible to identify structural variations at large scale. Availability of large-scale genomic resources and low-cost and high-throughput genotyping technologies are enhancing the efficiency and resolution of genetic mapping and marker-trait association studies. Most importantly, deployment of molecular breeding approaches has resulted in development of improved lines in some legume crops such as chickpea and groundnut. In order to support genomics-driven crop improvement at a fast pace, the deployment of breeder-friendly genomics and decision support tools seems appear to be critical in breeding programs in developing countries. This review provides an overview of emerging genomics and informatics tools/approaches that will be the key driving force for accelerating genomics-assisted breeding and ultimately ensuring nutritional and food security in developing countries. PMID:27199998

  3. Rice breeding problems in Korea

    International Nuclear Information System (INIS)

    This paper deals with general rice production in Korea and the problems encountered. The history of rice growing and breeding in Korea is outlined and a description of recent advances in rice breeding is given, including a discussion of some uses of radiation treatments in the breeding programme during the last few years. (author). 2 figs, 3 tabs

  4. Structural-genetic approach to analysis and mapping of Chernobyl's radionuclide contamination field

    International Nuclear Information System (INIS)

    As a main tool for revealing and interpreting the internal structure of radionuclide contamination field, around the Chernobyl NPP the reliable and validated detailed scale maps of contamination densities could serve. Such maps should have, on the one hand, a high enough density of initial observation points (not less than 1 to 10 points per 1 sq.cm. of final map) and, on the other hand, a high representativeness of each observation point, i.e. reliability of presentation of its vicinity (0.1 to 1 sq.km). The available analytical data files of soil sampling in the exclusion zone conform neither to the first requirement, nor to the second one: real density of sampling does not exceed 0-2 to 0.5 points per 1 sq.m, and the representativeness of obtained results has a typical variation from medium values (in the neighbourhood of 0.1 to 1 sq.km) to 3 to 5 times

  5. Real-time ozone mapping using a regression-interpolation hybrid approach, applied to Tucson, Arizona.

    Science.gov (United States)

    Abraham, Joseph S; Comrie, Andrew C

    2004-08-01

    Real-time ozone (O3) maps, intended for public access and mass media, are generated from spatially interpolating (i.e., kriging) sparse monitoring data and are typically characterized by over-smoothed surfaces that inadequately represent local-scale spatial patterns (e.g., averaged over 1 km2). In this paper, a hybrid regression-interpolation methodology is developed to enhance the representation of local-scale spatiotemporal patterns with an application to Tucson, Arizona. The mapping of local patterns is enhanced with pre-interpolation regression modeling of local-scale deviation-from-mean variability, preserving variation in the monitor data that is ubiquitous across the modeling domain (i.e., the areal mean). The model is trained on several years of deviation-from-mean hourly O3 data, and predictor variables are developed using theoretically and empirically derived proxy regression variables. The regression model explains a significant proportion of the variation in the data (r2 = 0.54), with an average error of 7.1 ppb. When augmented with the areal mean, the r2 of the pre-interpolation model increases to 0.847. Model residuals are then spatially interpolated to the extents of the modeling domain. Final concentration estimate maps are the summation of areal mean, regression, and spatially interpolated surfaces, preserving absolute values at monitor locations. PMID:15373359

  6. Compression map, functional groups and fossilization: A chemometric approach (Pennsylvanian neuropteroid foliage, Canada)

    Science.gov (United States)

    D'Angelo, J. A.; Zodrow, E.L.; Mastalerz, Maria

    2012-01-01

    Nearly all of the spectrochemical studies involving Carboniferous foliage of seed-ferns are based on a limited number of pinnules, mainly compressions. In contrast, in this paper we illustrate working with a larger pinnate segment, i.e., a 22-cm long neuropteroid specimen, compression-preserved with cuticle, the compression map. The objective is to study preservation variability on a larger scale, where observation of transparency/opacity of constituent pinnules is used as a first approximation for assessing the degree of pinnule coalification/fossilization. Spectrochemical methods by Fourier transform infrared spectrometry furnish semi-quantitative data for principal component analysis.The compression map shows a high degree of preservation variability, which ranges from comparatively more coalified pinnules to less coalified pinnules that resemble fossilized-cuticles, noting that the pinnule midveins are preserved more like fossilized-cuticles. A general overall trend of coalified pinnules towards fossilized-cuticles, i.e., variable chemistry, is inferred from the semi-quantitative FTIR data as higher contents of aromatic compounds occur in the visually more opaque upper location of the compression map. The latter also shows a higher condensation of the aromatic nuclei along with some variation in both ring size and degree of aromatic substitution. From principal component analysis we infer correspondence between transparency/opacity observation and chemical information which correlate with varying degree to fossilization/coalification among pinnules. ?? 2011 Elsevier B.V.

  7. a Virtual Hub Brokering Approach for Integration of Historical and Modern Maps

    Science.gov (United States)

    Bruno, N.; Previtali, M.; Barazzetti, L.; Brumana, R.; Roncella, R.

    2016-06-01

    Geospatial data are today more and more widespread. Many different institutions, such as Geographical Institutes, Public Administrations, collaborative communities (e.g., OSM) and web companies, make available nowadays a large number of maps. Besides this cartography, projects of digitizing, georeferencing and web publication of historical maps have increasingly spread in the recent years. In spite of these variety and availability of data, information overload makes difficult their discovery and management: without knowing the specific repository where the data are stored, it is difficult to find the information required and problems of interconnection between different data sources and their restricted interoperability limit a wide utilization of available geo-data. This paper aims to describe some actions performed to assure interoperability between data, in particular spatial and geographic data, gathered from different data providers, with different features and referring to different historical periods. The article summarizes and exemplifies how, starting from projects of historical map digitizing and Historical GIS implementation, respectively for the Lombardy and for the city of Parma, the interoperability is possible in the framework of the ENERGIC OD project. The European project ENERGIC OD, thanks to a specific component - the virtual hub - based on a brokering framework, copes with the previous listed problems and allows the interoperability between different data sources.

  8. Conservation priorities of Iberoamerican pig breeds and their ancestors based on microsatellite information.

    Science.gov (United States)

    Cortés, O; Martinez, A M; Cañon, J; Sevane, N; Gama, L T; Ginja, C; Landi, V; Zaragoza, P; Carolino, N; Vicente, A; Sponenberg, P; Delgado, J V

    2016-07-01

    Criollo pig breeds are descendants from pigs brought to the American continent starting with Columbus second trip in 1493. Pigs currently play a key role in social economy and community cultural identity in Latin America. The aim of this study was to establish conservation priorities among a comprehensive group of Criollo pig breeds based on a set of 24 microsatellite markers and using different criteria. Spain and Portugal pig breeds, wild boar populations of different European geographic origins and commercial pig breeds were included in the analysis as potential genetic influences in the development of Criollo pig breeds. Different methods, differing in the weight given to within- and between-breed genetic variability, were used in order to estimate the contribution of each breed to global genetic diversity. As expected, the partial contribution to total heterozygosity gave high priority to Criollo pig breeds, whereas Weitzman procedures prioritized Iberian Peninsula breeds. With the combined within- and between-breed approaches, different conservation priorities were achieved. The Core Set methodologies highly prioritized Criollo pig breeds (Cr. Boliviano, Cr. Pacifico, Cr. Cubano and Cr. Guadalupe). However, weighing the between- and within-breed components with FST and 1-FST, respectively, resulted in higher contributions of Iberian breeds. In spite of the different conservation priorities according to the methodology used, other factors in addition to genetic information also need to be considered in conservation programmes, such as the economic, cultural or historical value of the breeds involved. PMID:27025169

  9. Dangers and Opportunities: A Conceptual Map of Information Literacy Assessment Approaches

    Science.gov (United States)

    Oakleaf, Megan

    2008-01-01

    The culture of assessment in higher education requires academic librarians to demonstrate the impact of information literacy instruction on student learning. As a result, many librarians seek to gain knowledge about the information literacy assessment approaches available to them. This article identifies three major assessment approaches: (1)…

  10. Modeling eye movements in visual agnosia with a saliency map approach: bottom-up guidance or top-down strategy?

    Science.gov (United States)

    Foulsham, Tom; Barton, Jason J S; Kingstone, Alan; Dewhurst, Richard; Underwood, Geoffrey

    2011-08-01

    Two recent papers (Foulsham, Barton, Kingstone, Dewhurst, & Underwood, 2009; Mannan, Kennard, & Husain, 2009) report that neuropsychological patients with a profound object recognition problem (visual agnosic subjects) show differences from healthy observers in the way their eye movements are controlled when looking at images. The interpretation of these papers is that eye movements can be modeled as the selection of points on a saliency map, and that agnosic subjects show an increased reliance on visual saliency, i.e., brightness and contrast in low-level stimulus features. Here we review this approach and present new data from our own experiments with an agnosic patient that quantifies the relationship between saliency and fixation location. In addition, we consider whether the perceptual difficulties of individual patients might be modeled by selectively weighting the different features involved in a saliency map. Our data indicate that saliency is not always a good predictor of fixation in agnosia: even for our agnosic subject, as for normal observers, the saliency-fixation relationship varied as a function of the task. This means that top-down processes still have a significant effect on the earliest stages of scanning in the setting of visual agnosia, indicating severe limitations for the saliency map model. Top-down, active strategies-which are the hallmark of our human visual system-play a vital role in eye movement control, whether we know what we are looking at or not. PMID:21316191

  11. A flexible approach to the syntax-phonology mapping of intonational phrases

    OpenAIRE

    Hamlaoui, F.; Szendroi, K.

    2015-01-01

    This paper addresses ‘a central question for [...] any theory of the syntactic- prosodic constituency relation’ (Selkirk, 2011, 17): how to best characterize the notion of ‘clause’ in ALIGN/MATCH constraints related to the syntax-prosody mapping of the intona- tional phrase. We propose that the notion of ‘clause’ should be determined in each construc- tion by making reference to the highest projection in the root clause (see Downing, 1970), to which the verbal material (i.e. the verb itself, ...

  12. Bayesian approach for thermal diffusivity mapping from infrared images with spatially random heat pulse heating

    Energy Technology Data Exchange (ETDEWEB)

    Fudym, O [RAPSODEE UMR 2392 CNRS, Mines Albi, Campus Jarlard, Albi (France); Orlande, H R B [PEM/COPPE, Federal University of Rio de Janeiro (Brazil); Bamford, M; Batsale, J C [TREFLE-ENSAM, UMR 8508 CNRS, Talence (France)], E-mail: fudym@enstimac.fr

    2008-11-01

    This paper aims at the identification of spatially-dependent thermophysical properties and is focused on the mapping of thermal diffusivity. A one-dimensional heat conduction problem is used for the comparison of ordinary least-squares, maximum a posteriori and Markov Chain Monte Carlo methods. Simulated temperature measurements are used in the inverse analysis, which is based on a nodal strategy that results on a linear estimation problem. The nodal strategy relies on the availability of temperature measurements with fine spatial resolution and high frequency, typical of nowadays infrared cameras.

  13. Mapping suitability of rice production systems for mitigation: Strategic approach for prioritizing improved irrigation management across scales

    Science.gov (United States)

    Wassmann, Reiner; Sander, Bjoern Ole

    2016-04-01

    After the successful conclusion of the COP21 in Paris, many developing countries are now embracing the task of reducing emissions with much vigor than previously. In many countries of South and South-East Asia, the agriculture sector constitutes a vast share of the national GHG budget which can mainly be attributed to methane emissions from flooded rice production. Thus, rice growing countries are now looking for tangible and easily accessible information as to how to reduce emissions from rice production in an efficient manner. Given present and future food demand, mitigation options will have to comply with aim of increasing productivity. At the same time, limited financial resources demand for strategic planning of potential mitigation projects based on cost-benefit ratios. At this point, the most promising approach for mitigating methane emissions from rice is an irrigation technique called Alternate Wetting and Drying (AWD). AWD was initially developed for saving water and subsequently, represents an adaptation strategy in its own right by coping with less rainfall. Moreover, AWD also reduces methane emissions in a range from 30-70%. However, AWD is not universally suitable. It is attractive to farmers who have to pump water and may save fuel under AWD, but renders limited incentives in situations where there is no real pressing water scarcity. Thus, planning for AWD adoption at larger scale, e.g. for country-wide programs, should be based on a systematic prioritization of target environments. This presentation encompasses a new methodology for mapping suitability of water-saving in rice production - as a means for planning adaptation and mitigation programs - alongside with preliminary results. The latter comprises three new GIS maps on climate-driven suitability of AWD in major rice growing countries (Philippines, Vietnam, Bangladesh). These maps have been derived from high-resolution data of the areal and temporal extent of rice production that are now

  14. Mutation breeding in peas

    International Nuclear Information System (INIS)

    The pea as an ancient crop plant still today has wide uses and is an import source of food protein. It is also an important object for genetic studies and as such has been widely used in mutation induction experiments. However, in comparison with cereals this ancient crop plant (like several other grain legumes) has gained relatively little from advances in breeding. The review focuses on the prospects of genetic improvement of pea by induced mutations, discusses principles and gives methodological information. (author)

  15. An integrated remote sensing approach for landslide susceptibly mapping at the volcanic islands of Vulcano and Lipari (Eolian Island, Italy)

    Science.gov (United States)

    Scifoni, Silvia; Palenzuela Baena, José A.; Marsella, Maria; Pepe, Susi; Sansosti, Eugenio; Solaro, Giuseppe; Tizzani, Piero

    2015-10-01

    Volcanic Island can be affected by instability phenomena such as landslide and partial collapse events, even in quiescent period. Starting from data collected by an aerial laser scanning survey at cm-level accuracy), a GIS based approach was implemented in order to perform a landslide-susceptibility analysis. The results of this analysis were compared and integrated with data derived from Differential Synthetic Aperture Radar Interferometry (DinSAR) analysis able to identify the most active areas and quantify the on-going deformation processes. The analysis is focused on the on the active volcanic edifice of Vulcano Island and in some areas of Lipari island, both include in the Eaolian Islands in Sicily (Italy). The developed approach represent a step-forward for the compilation of hazard maps furnishing in an overall contest, updated and georeferenced quantitative data, describing the morphology and the present behaviour of the slopes in the area of investigation.

  16. Application of digital soil mapping in traditional soil survey - an approach used for the production of the national soil map of the United Arab

    Science.gov (United States)

    Abdelfattah, M. A.; Pain, C.

    2012-04-01

    Digital soil maps are essential part of the soil assessment framework which supports soil-related decisions and policy-making and therefore it is of crucial importance that they are of known quality. Digital soil mapping is perhaps the next great advancement in soil survey information. Traditional soil survey has always struggled with the collection of data. The amount of soil data and information required to justify the mapping product, how to interpolate date to similar areas, and how to incorporate older data are all challenges that need further exploration. The present study used digital soil mapping to develop a generalized national soil map of the United Arab Emirates with available recent traditional soil survey of Abu Dhabi Emirate (2006-2009) and Northern Emirates (2010-2012), together with limited data from Dubai Emirate, an important part of the country. The map was developed by joining, generalizing, and correlating the information contained in the Soil Survey of Abu Dhabi Emirate, the Soil map of Dubai with limited data, and the Soil Survey of the Northern Emirates. Because the soil surveys were completed at different times and with different standards and procedures, the original map lines and soil classifications had to be modified in order to integrate the three original maps and legends into this single national level map. The Advanced Spaceborne Thermal Emission and Reflection Radiometer (ASTER) Global Digital Elevation Model (GDEM) version 2 was used to guide line placement of the map units. It was especially helpful for the Torripsamments units which are separated based on local landscape relief characteristics. A generalized soil map of the United Arab Emirates is produced, which consists of fifteen map units, twelve are named for the soil great group that dominants each unit. Three are named "Rock outcrop", "Mountains", or "Miscellaneous units". Statistical details are also presented. Soil great groups are appropriate taxa to use for soil

  17. Designing a workplace return-to-work program for occupational low back pain: an intervention mapping approach

    Directory of Open Access Journals (Sweden)

    Ammendolia Carlo

    2009-06-01

    Full Text Available Abstract Background Despite over 2 decades of research, the ability to prevent work-related low back pain (LBP and disability remains elusive. Recent research suggests that interventions that are focused at the workplace and incorporate the principals of participatory ergonomics and return-to-work (RTW coordination can improve RTW and reduce disability following a work-related back injury. Workplace interventions or programs to improve RTW are difficult to design and implement given the various individuals and environments involved, each with their own unique circumstances. Intervention mapping provides a framework for designing and implementing complex interventions or programs. The objective of this study is to design a best evidence RTW program for occupational LBP tailored to the Ontario setting using an intervention mapping approach. Methods We used a qualitative synthesis based on the intervention mapping methodology. Best evidence from systematic reviews, practice guidelines and key articles on the prognosis and management of LBP and improving RTW was combined with theoretical models for managing LBP and changing behaviour. This was then systematically operationalized into a RTW program using consensus among experts and stakeholders. The RTW Program was further refined following feedback from nine focus groups with various stakeholders. Results A detailed five step RTW program was developed. The key features of the program include; having trained personnel coordinate the RTW process, identifying and ranking barriers and solutions to RTW from the perspective of all important stakeholders, mediating practical solutions at the workplace and, empowering the injured worker in RTW decision-making. Conclusion Intervention mapping provided a useful framework to develop a comprehensive RTW program tailored to the Ontario setting.

  18. Defined Map Units of the seafloor of Boston Harbor and Approaches (BOTTOMTYPE, UTM 19, WGS84)

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — This data is a qualitatively-derived interpretative polygon shapefile defining the bottom types of the seafloor from Boston Harbor and the harbor approaches,...

  19. Application of knowledge-based approaches in software architecture : A systematic mapping study

    NARCIS (Netherlands)

    Li, Zengyang; Liang, Peng; Avgeriou, Paris

    2013-01-01

    Context: Knowledge management technologies have been employed across software engineering activities for more than two decades. Knowledge-based approaches can be used to facilitate software architecting activities (e.g., architectural evaluation). However, there is no comprehensive understanding on

  20. On Prigogine's approaches to irreversibility: a case study by the baker map

    Directory of Open Access Journals (Sweden)

    S. Tasaki

    2004-05-01

    Full Text Available The baker map is investigated by two different theories of irreversibility by Prigogine and his colleagues, namely, the Λ-transformation and complex spectral theories, and their structures are compared. In both theories, the evolution operator U† of observables (the Koopman operator is found to acquire dissipativity by restricting observables to an appropriate subspace Φ of the Hilbert space L2 of square integrable functions. Consequently, its spectral set contains an annulus in the unit disc. However, the two theories are not equivalent. In the Λ-transformation theory, a bijective map Λ†−1:Φ→L2 is looked for and the evolution operator U of densities (the Frobenius-Perron operator is transformed to a dissipative operator W=ΛUΛ−1. In the complex spectral theory, the class of densities is restricted further so that most values in the interior of the annulus are removed from the spectrum, and the relaxation of expectation values is described in terms of a few point spectra in the annulus (Pollicott-Ruelle resonances and faster decaying terms.

  1. A NEW APPROACH TO CONSTRAIN BLACK HOLE SPINS IN ACTIVE GALAXIES USING OPTICAL REVERBERATION MAPPING

    International Nuclear Information System (INIS)

    A tight relation between the size of the broad-line region (BLR) and optical luminosity has been established in about 50 active galactic nuclei studied through reverberation mapping of the broad Hβ emission line. The R BLR-L relation arises from simple photoionization considerations. Using a general relativistic model of an optically thick, geometrically thin accretion disk, we show that the ionizing luminosity jointly depends on black hole mass, accretion rate, and spin. The non-monotonic relation between the ionizing and optical luminosity gives rise to a complicated relation between the BLR size and the optical luminosity. We show that the reverberation lag of Hβ to the varying continuum depends very sensitively on black hole spin. For retrograde spins, the disk is so cold that there is a deficit of ionizing photons in the BLR, resulting in shrinkage of the hydrogen ionization front with increasing optical luminosity, and hence shortened Hβ lags. This effect is specially striking for luminous quasars undergoing retrograde accretion, manifesting in strong deviations from the canonical R BLR-L relation. This could lead to a method to estimate black hole spins of quasars and to study their cosmic evolution. At the same time, the small scatter of the observed R BLR-L relation for the current sample of reverberation-mapped active galaxies implies that the majority of these sources have rapidly spinning black holes

  2. APPROACH TO BREEDING SITE SELECTION OF KELP GULL (LARUS DOMINICANUS LICHTENSTEIN 1823) IN AN URBAN AREA FROM COQUIMBO REGION (CHILE) AND A NEW NESTING SUBSTRATE

    OpenAIRE

    Chávez-Villavicencio, C.

    2014-01-01

    An approach to the nest site selection of Kelp Gull (Larus dominicanus) in an urban area and a new nesting substrate is recorded. Data were collected between November 2012 and December 2013 in an urban area of the Coquimbo Region (Chile). The selection of sites was modeled with a logistic regression using two variables (distance to the nearest nest and distance closest to the sea) and selecting random points within the study area. 13 nests built mainly of thatch were recorded. ...

  3. Using the Hadoop/MapReduce approach for monitoring the CERN storage system and improving the ATLAS computing model

    CERN Document Server

    Russo, Stefano Alberto; Lamanna, M

    The processing of huge amounts of data, an already fundamental task for the research in the elementary particle physics field, is becoming more and more important also for companies operating in the Information Technology (IT) industry. In this context, if conventional approaches are adopted several problems arise, starting from the congestion of the communication channels. In the IT sector, one of the approaches designed to minimize this congestion on is to exploit the data locality, or in other words, to bring the computation as closer as possible to where the data resides. The most common implementation of this concept is the Hadoop/MapReduce framework. In this thesis work I evaluate the usage of Hadoop/MapReduce in two areas: a standard one similar to typical IT analyses, and an innovative one related to high energy physics analyses. The first consists in monitoring the history of the storage cluster which stores the data generated by the LHC experiments, the second in the physics analysis of the latter, ...

  4. Landslide susceptibility mapping of vicinity of Yaka Landslide (Gelendost, Turkey) using conditional probability approach in GIS

    Science.gov (United States)

    Ozdemir, Adnan

    2009-06-01

    On 19 February 2007, a landslide occurred on the Alaardıç Slope, located 1.6 km south of the town of Yaka (Gelendost, Turkey.) Subsequently, the displaced materials transformed into a mud flow in Eğlence Creek and continued 750 m downstream towards the town of Yaka. The mass poised for motion in the Yaka Landslide source area and its vicinity, which would be triggered to a kinetic state by trigger factors such as heavy or sustained rainfall and/or snowmelt, poise a danger in the form of loss of life and property to Yaka with its population of 3,000. This study was undertaken to construct a susceptibility mapping of the vicinity of the Yaka Landslide’s source area and to relate it to movement of the landslide mass with the goal of prevention or mitigation of loss of life and property. The landslide susceptibility map was formulated by designating the relationship of the effecting factors that cause landslides such as lithology, gradient, slope aspect, elevation, topographical moisture index, and stream power index to the landslide map, as determined by analysis of the terrain, through the implementation of the conditional probability method. It was determined that the surface area of the Goksogut formation, which has attained lithological characteristics of clayey limestone with a broken and separated base and where area landslides occur, possesses an elevation of 1,100-1,300 m, a slope gradient of 15°-35° and a slope aspect between 0°-67.5° and 157°-247°. Loss of life and property may be avoided by the construction of structures to check the debris mass in Eğlence Creek, the cleaning of the canal which passes through Yaka, the broadening of the canal’s base area, elevating the protective edges along the canal and the establishment of a protective zone at least 10-m wide on each side of the canal to deter against damage from probable landslide occurrence and mud flow.

  5. A New Approach to the Internal Calibration of Reverberation Mapping Spectra

    CERN Document Server

    Fausnaugh, M M

    2016-01-01

    We present a new procedure for the internal (night-to-night) calibration of time series spectra, with specific applications to optical AGN reverberation mapping data. The traditional calibration technique assumes that the narrow [OIII]$\\lambda$5007 emission line profile is constant in time; given a reference [OIII]$\\lambda$5007 line profile, nightly spectra are aligned by fitting for a wavelength shift, a flux rescaling factor, and a change in the spectroscopic resolution. We propose the following modifications to this procedure: 1) we stipulate a constant spectral resolution for the final calibrated spectra, 2) we employ a more flexible model for changes in the spectral resolution, and 3) we use a Bayesian modeling framework to assess uncertainties in the calibration. In a test case using data for MCG+08-11-011, these modifications result in a calibration precision of $\\sim\\! 1$ millimagnitude, which is approximately a factor of five improvement over the traditional technique. At this level, other systematic...

  6. Generating synthetic magnetic field intermittency using a Minimal Multiscale Lagrangian Mapping approach

    Energy Technology Data Exchange (ETDEWEB)

    Subedi, P.; Chhiber, R.; Tessein, J. A.; Wan, M.; Matthaeus, W. H. [Department of Physics and Astronomy, University of Delaware, Newark, DE 19716 (United States)

    2014-12-01

    The Minimal Multiscale Lagrangian Mapping procedure developed in the context of neutral fluid turbulence is a simple method for generating synthetic vector fields. Using a sequence of low-pass filtered fields, fluid particles are displaced at their rms speed for some scale-dependent time interval, and then interpolated back to a regular grid. Fields produced in this way are seen to possess certain properties of real turbulence. This paper extends the technique to plasmas by taking into account the coupling between the velocity and magnetic fields. We examine several possible applications to plasma systems. One use is as initial conditions for simulations, wherein these synthetic fields may efficiently produce a strongly intermittent cascade. The intermittency properties of the synthetic fields are also compared with those of the solar wind. Finally, studies of cosmic ray transport and modulation in the test particle approximation may benefit from improved realism in synthetic fields produced in this way.

  7. Generating Synthetic Magnetic Field Intermittency Using a Minimal Multiscale Lagrangian Mapping Approach

    Science.gov (United States)

    Subedi, P.; Chhiber, R.; Tessein, J. A.; Wan, M.; Matthaeus, W. H.

    2014-12-01

    The Minimal Multiscale Lagrangian Mapping procedure developed in the context of neutral fluid turbulence is a simple method for generating synthetic vector fields. Using a sequence of low-pass filtered fields, fluid particles are displaced at their rms speed for some scale-dependent time interval, and then interpolated back to a regular grid. Fields produced in this way are seen to possess certain properties of real turbulence. This paper extends the technique to plasmas by taking into account the coupling between the velocity and magnetic fields. We examine several possible applications to plasma systems. One use is as initial conditions for simulations, wherein these synthetic fields may efficiently produce a strongly intermittent cascade. The intermittency properties of the synthetic fields are also compared with those of the solar wind. Finally, studies of cosmic ray transport and modulation in the test particle approximation may benefit from improved realism in synthetic fields produced in this way.

  8. Lagrangian Mapping Approach to Generate Intermittency and its Application in Plasma Turbulence

    Science.gov (United States)

    Subedi, P.; Matthaeus, W. H.; Tessein, J.; Chhiber, R.; Wan, M.

    2014-12-01

    The Minimal Lagrangian Mapping procedure developed in the context of neutral fluid turbulence(Rosales and Meneveau 2006) is a simple method to generate synthetic vector fields. Using a sequenceof low pass filtered fields, fluid particles are displaced at their rms-speed for some scale-dependenttime interval, and then interpolated back to a regular grid. Fields produced in this way are seen topossess certain properties of real turbulence. We extend the technique to plasmas by takinginto account the coupling between the velocity and magnetic fields. We examine several possibleapplications to plasma systems. One use is as initial conditions for simulations, wherein these syntheticfields may efficiently produce a strongly intermittent cascade. The intermittency properties of thesynthetic fields are also compared with those of the solar wind. Finally, studies of cosmic ray transportand modulation in the test particle approximation may benefit from improved realism in syntheticfields produced in this way.

  9. Generating synthetic magnetic field intermittency using a Minimal Multiscale Lagrangian Mapping approach

    International Nuclear Information System (INIS)

    The Minimal Multiscale Lagrangian Mapping procedure developed in the context of neutral fluid turbulence is a simple method for generating synthetic vector fields. Using a sequence of low-pass filtered fields, fluid particles are displaced at their rms speed for some scale-dependent time interval, and then interpolated back to a regular grid. Fields produced in this way are seen to possess certain properties of real turbulence. This paper extends the technique to plasmas by taking into account the coupling between the velocity and magnetic fields. We examine several possible applications to plasma systems. One use is as initial conditions for simulations, wherein these synthetic fields may efficiently produce a strongly intermittent cascade. The intermittency properties of the synthetic fields are also compared with those of the solar wind. Finally, studies of cosmic ray transport and modulation in the test particle approximation may benefit from improved realism in synthetic fields produced in this way.

  10. A robotic approach to mapping post-eruptive volcanic fissure conduits

    Science.gov (United States)

    Parcheta, Carolyn E.; Pavlov, Catherine A.; Wiltsie, Nicholas; Carpenter, Kalind C.; Nash, Jeremy; Parness, Aaron; Mitchell, Karl L.

    2016-06-01

    VolcanoBot was developed to map volcanic vents and their underlying conduit systems, which are rarely preserved and generally inaccessible to human exploration. It uses a PrimeSense Carmine 1.09 sensor for mapping and carries an IR temperature sensor, analog distance sensor, and an inertial measurement unit (IMU) inside a protective shell. The first field test succeeded in collecting valuable scientific data but revealed several needed improvements, including more rugged cable connections and mechanical couplers, increased ground clearance, and higher-torque motors for uphill mobility. The second field test significantly improved on all of these aspects but it traded electrical ruggedness for reduced data collection speed. Data collected by the VolcanoBots, while intermittent, yield the first insights into the cm-scale geometry of volcanic fissures at depths of up to 25 m. VolcanoBot was deployed at the 1969 Mauna Ulu fissure system on Kīlauea volcano in Hawai'i. It collected first-of-its-kind data from inside the fissure system. We hypothesized that 1) fissure sinuosity should decrease with depth, 2) irregularity should be persistent with depth, 3) any blockages in the conduit should occur at the narrowest points, and 4) the fissure should narrow with depth until it is too narrow for VolcanoBot to pass or is plugged with solidified lava. Our field campaigns did not span enough lateral or vertical area to test sinuosity. The preliminary data indicate that 1) there were many irregularities along fissures at depth, 2) blockages occurred, but not at obviously narrow locations, and 3) the conduit width remained a consistent 0.4-0.5 m for most of the upper 10 m that we analyzed.

  11. Genomic tools in cowpea breeding programs: status and perspectives

    Directory of Open Access Journals (Sweden)

    Ousmane eBoukar

    2016-06-01

    Full Text Available Cowpea is one of the most important grain legumes in sub-Saharan Africa (SSA. It provides strong support to the livelihood of small-scale farmers through its contributions to their nutritional security, income generation and soil fertility enhancement. Worldwide about 6.5 million metric tons of cowpea are produced annually on about 14.5 million hectares. The low productivity of cowpea is attributable to numerous abiotic and biotic constraints. The abiotic stress factors comprise drought, low soil fertility, and heat while biotic constraints include insects, diseases, parasitic weeds and nematodes. Cowpea farmers also have limited access to quality seeds of improved varieties for planting. Some progress has been made through conventional breeding at international and national research institutions in the last three decades. Cowpea improvement could also benefit from modern breeding methods based on molecular genetic tools. A number of advances in cowpea genetic linkage maps, and quantitative trait loci associated with some desirable traits such as resistance to Striga, Macrophomina, Fusarium wilt, bacterial blight, root-knot nematodes, aphids and foliar thrips have been reported. An improved consensus genetic linkage map has been developed and used to identify QTLs of additional traits. In order to take advantage of these developments single nucleotide polymorphism (SNP genotyping is being streamlined to establish an efficient workflow supported by genotyping support service (GSS-client interactions. About 1100 SNPs mapped on the cowpea genome were converted by LGC Genomics to KASP assays. Several cowpea breeding programs have been exploiting these resources to implement molecular breeding, especially for MARS and MABC, to accelerate cowpea variety improvement. The combination of conventional breeding and molecular breeding strategies, with workflow managed through the CGIAR breeding management system (BMS, promises an increase in the number of

  12. Signatures of diversifying selection in European pig breeds.

    Directory of Open Access Journals (Sweden)

    Samantha Wilkinson

    2013-04-01

    Full Text Available Following domestication, livestock breeds have experienced intense selection pressures for the development of desirable traits. This has resulted in a large diversity of breeds that display variation in many phenotypic traits, such as coat colour, muscle composition, early maturity, growth rate, body size, reproduction, and behaviour. To better understand the relationship between genomic composition and phenotypic diversity arising from breed development, the genomes of 13 traditional and commercial European pig breeds were scanned for signatures of diversifying selection using the Porcine60K SNP chip, applying a between-population (differentiation approach. Signatures of diversifying selection between breeds were found in genomic regions associated with traits related to breed standard criteria, such as coat colour and ear morphology. Amino acid differences in the EDNRB gene appear to be associated with one of these signatures, and variation in the KITLG gene may be associated with another. Other selection signals were found in genomic regions including QTLs and genes associated with production traits such as reproduction, growth, and fat deposition. Some selection signatures were associated with regions showing evidence of introgression from Asian breeds. When the European breeds were compared with wild boar, genomic regions with high levels of differentiation harboured genes related to bone formation, growth, and fat deposition.

  13. Mapping carbon sequestration in forests at the regional scale - a climate biomonitoring approach by example of Germany

    Energy Technology Data Exchange (ETDEWEB)

    Schroeder, Winfried; Pesch, Roland [University of Vechta, Chair of Landscape Ecology, PO Box. 1553, Vechta (Germany)

    2011-12-15

    The United Nations Framework Convention on Climate Change recognizes carbon (C) fixation in forests as an important contribution for the reduction of atmospheric pollution in terms of greenhouse gases. Spatial differentiation of C sequestration in forests either at the national or at the regional scale is therefore needed for forest planning purposes. Hence, within the framework of the Forest Focus regulation, the aim of this investigation was to statistically analyse factors influencing the C fixation and to use the corresponding associations in terms of a predictive mapping approach at the regional scale by example of the German federal state North Rhine-Westphalia. The results of the methodical scheme outlined in this article should be compared with an already-published approach applied to the same data which were used in the investigation at hand. Site-specific data on C sequestration in humus, forest trees/dead wood and soil from two forest monitoring networks were intersected with available surface information on topography, soil, climate and forestal growing areas and districts. Next, the association between the C sequestration and the influence factors were examined and modelled by linear regression analyses. The resulting regression equations were applied on the surface data to predicatively map the C sequestration for the entire study area. The computations yielded an estimation of 146.7 mio t C sequestered in the forests of North Rhine-Westphalia corresponding to 168.6 t/ha. The calculated values correspond well to according specifications given by the literature. Furthermore, the results are almost identical to those of another pilot study where a different statistical methodology was applied on the same database. Nevertheless, the underlying regression models contribute only a low degree of explanation to the overall variance of the C fixation. This might mainly be due to data quality aspects and missing influence factors in the analyses. In another

  14. An automatic approach for rice mapping in temperate region using time series of MODIS imagery: first results for Mediterranean environment

    Science.gov (United States)

    Boschetti, M.; Nelson, A.; Manfrom, G.; Brivio, P. A.

    2012-04-01

    Timely and accurate information on crop typology and status are required to support suitable action to better manage agriculture production and reduce food insecurity. More specifically, regional crop masking and phenological information are important inputs for spatialized crop growth models for yield forecasting systems. Digital cartographic data available at global/regional scale, such as GLC2000, GLOBCOVER or MODIS land cover products (MOD12), are often not adequate for this crop modeling application. For this reason, there is a need to develop and test methods that can provide such information for specific cropsusing automated classification techniques.. In this framework we focused our analysis on the rice cultivation area detection due to the importance of this crop. Rice is a staple food for half of the world's population (FAO 2004). Over 90% of the world's rice is produced and consumed in Asia and the region is home to 70% of the world's poor, most of whom depend on rice for their livelihoods andor food security. Several initiatives are being promoted at the international level to provide maps of rice cultivated areas in South and South East Asia using different approaches available in literature for rice mapping in tropical regions. We contribute to these efforts by proposing an automatic method to detect rice cultivated areas in temperate regions exploiting MODIS 8-Day composite of Surface Reflectance at 500m spatial resolution (MOD09A1product). Temperate rice is cultivated worldwide in more than 20 countries covering around 16M ha for a total production of about 65M tons of paddy per year. The proposed method is based on a common approach available in literature that first identifies flood condition that can be related to rice agronomic practice and then checks for vegetation growth. The method presents innovative aspects related both to the flood detection, exploiting Short Wave Infrared spectral information, and to the crop grow monitoring analyzing

  15. THE CONTRIBUTION OF GIS IN FLOOD MAPPING: TWO APPROACHES USING OPEN SOURCE GRASS GIS SOFTWARE

    Directory of Open Access Journals (Sweden)

    R. Marzocchi

    2014-01-01

    In this work we present a comparison between the two models mentioned above. We analyse the possibility of integrating these two approaches. We intend to use the 1D model, GIS embedded if possible, to calculate the water surface profile along the river axis and the 2D numerical one to analyse inundation beside the river levees.

  16. A multi-sensor approach to retrieving high resolution daily evapotranspiration maps

    Science.gov (United States)

    The use of residual surface energy balance approaches to determine spatially distributed evapotranspiration (ET) over large areas has been considered an effective solution in the last years, especially due to the increasing availability of remotely-observed land-surface temperature (LST) data. Howev...

  17. Prunus transcription factors: breeding perspectives.

    Science.gov (United States)

    Bianchi, Valmor J; Rubio, Manuel; Trainotti, Livio; Verde, Ignazio; Bonghi, Claudio; Martínez-Gómez, Pedro

    2015-01-01

    Many plant processes depend on differential gene expression, which is generally controlled by complex proteins called transcription factors (TFs). In peach, 1533 TFs have been identified, accounting for about 5.5% of the 27,852 protein-coding genes. These TFs are the reference for the rest of the Prunus species. TF studies in Prunus have been performed on the gene expression analysis of different agronomic traits, including control of the flowering process, fruit quality, and biotic and abiotic stress resistance. These studies, using quantitative RT-PCR, have mainly been performed in peach, and to a lesser extent in other species, including almond, apricot, black cherry, Fuji cherry, Japanese apricot, plum, and sour and sweet cherry. Other tools have also been used in TF studies, including cDNA-AFLP, LC-ESI-MS, RNA, and DNA blotting or mapping. More recently, new tools assayed include microarray and high-throughput DNA sequencing (DNA-Seq) and RNA sequencing (RNA-Seq). New functional genomics opportunities include genome resequencing and the well-known synteny among Prunus genomes and transcriptomes. These new functional studies should be applied in breeding programs in the development of molecular markers. With the genome sequences available, some strategies that have been used in model systems (such as SNP genotyping assays and genotyping-by-sequencing) may be applicable in the functional analysis of Prunus TFs as well. In addition, the knowledge of the gene functions and position in the peach reference genome of the TFs represents an additional advantage. These facts could greatly facilitate the isolation of genes via QTL (quantitative trait loci) map-based cloning in the different Prunus species, following the association of these TFs with the identified QTLs using the peach reference genome. PMID:26124770

  18. Prunus transcription factors: Breeding perspectives

    Directory of Open Access Journals (Sweden)

    Valmor João Bianchi

    2015-06-01

    Full Text Available Many plant processes depend on differential gene expression, which is generally controlled by complex proteins called transcription factors (TFs. In peach, 1,533 TFs have been identified, accounting for about 5.5% of the 27,852 protein-coding genes. These TFs are the reference for the rest of the Prunus species. TF studies in Prunus have been performed on the gene expression analysis of different agronomic traits, including control of the flowering process, fruit quality, and biotic and abiotic stress resistance. These studies, using quantitative RT-PCR, have mainly been performed in peach, and to a lesser extent in other species, including almond, apricot, black cherry, Fuji cherry, Japanese apricot, plum, and sour and sweet cherry. Other tools have also been used in TF studies, including cDNA-AFLP, LC-ESI-MS, RNA and DNA blotting or mapping. More recently, new tools assayed include microarray and high-throughput DNA sequencing (DNA-Seq and RNA sequencing (RNA-Seq. New functional genomics opportunities include genome resequencing and the well-known synteny among Prunus genomes and transcriptomes. These new functional studies should be applied in breeding programs in the development of molecular markers. With the genome sequences available, some strategies that have been used in model systems (such as SNP genotyping assays and genotyping-by-sequencing may be applicable in the functional analysis of Prunus TFs as well. In addition, the knowledge of the gene functions and position in the peach reference genome of the TFs represents an additional advantage. These facts could greatly facilitate the isolation of genes via QTL (quantitative trait loci map-based cloning in the different Prunus species, following the association of these TFs with the identified QTLs using the peach reference genome.

  19. Assessing the relationship between environmental factors and malaria vector breeding sites in Swaziland using multi-scale remotely sensed data

    Directory of Open Access Journals (Sweden)

    Sabelo Nick Dlamini

    2015-06-01

    Full Text Available Many entomological studies have analyzed remotely sensed data to assess the relationship between malaria vector distribution and the associated environmental factors. However, the high cost of remotely sensed products with high spatial resolution has often resulted in analyses being conducted at coarse scales using open-source, archived remotely sensed data. In the present study, spatial prediction of potential breeding sites based on multi-scale remotely sensed information in conjunction with entomological data with special reference to presence or absence of larvae was realized. Selected water bodies were tested for mosquito larvae using the larva scooping method, and the results were compared with data on land cover, rainfall, land surface temperature (LST and altitude presented with high spatial resolution. To assess which environmental factors best predict larval presence or absence, Decision Tree methodology and logistic regression techniques were applied. Both approaches showed that some environmental predictors can reliably distinguish between the two alternatives (existence and non-existence of larvae. For example, the results suggest that larvae are mainly present in very small water pools related to human activities, such as subsistence farming that were also found to be the major determinant for vector breeding. Rainfall, LST and altitude, on the other hand, were less useful as a basis for mapping the distribution of breeding sites. In conclusion, we found that models linking presence of larvae with high-resolution land use have good predictive ability of identifying potential breeding sites.

  20. Breeding tropical forages

    Directory of Open Access Journals (Sweden)

    L Jank

    2011-01-01

    Full Text Available Brazil has the largest commercial beef cattle herd and is the main beef exporter in the world. Cultivated pastures arethe basis for the Brazilian beef production, and occupy an area of 101.4 million hectares. However, very few forage cultivars arecommercially available, and the majority of these are of apomictic reproduction, thus genetically homogeneous. Tropical foragebreeding is at its infancy, but much investment and efforts have been applied in the last three decades and some new cultivars havebeen released. In this paper, origin of different species, modes of reproduction, breeding programs and targets are discussed andthe resulting new cultivars released are presented.

  1. Materials for breeding blankets

    International Nuclear Information System (INIS)

    There are several candidate concepts for tritium breeding blankets that make use of a number of special materials. These materials can be classified as Primary Blanket Materials, which have the greatest influence in determining the overall design and performance, and Secondary Blanket Materials, which have key functions in the operation of the blanket but are less important in establishing the overall design and performance. The issues associated with the blanket materials are specified and several examples of materials performance are given. Critical data needs are identified

  2. A novel iterative approach for mapping local singularities from geochemical data

    Directory of Open Access Journals (Sweden)

    Zhijun Chen

    2007-06-01

    Full Text Available There are many phenomena in nature, such as earthquakes, landslides, floods, and large-scale mineralization that are characterized by singular functions exhibiting scale invariant properties. A local singularity analysis based on multifractal modeling was developed for detection of local anomalies for mineral exploration. An iterative approach is proposed in the current paper for improvement of parameter estimations involved in the local singularity analysis. The advantage of this new approach is demonstrated with de Wijs's zinc data from a sphalerite-quartz vein near Pulacayo in Bolivia. The semivariogram method was used to illustrate the differences between the raw data and the estimated data by the new algorithm. It has been shown that the outcome of the local singularity analysis consists of two components: singularity component characterized by local singularity index and the non-singular component by prefractal parameter.

  3. Empirical approach for estimating the ExB velocity from VTEC map

    Science.gov (United States)

    Ao, Xi

    For the development of wireless communication, the Earth's ionosphere is very critical. A Matlab program is designed to improve the techniques for monitoring and forecasting the conditions of the Earth's ionosphere. The work in this thesis aims to modeling of the dependency between the equatorial anomaly gap (EAP) in the Earth's ionosphere and the crucial driver, ExB velocity, of the Earth's ionosphere. In this thesis, we review the mathematics of the model in the eleventh generation of the International Geomagnetic Reference Field (IGRF) and an enhancement version of Global Assimilative Ionospheric Model (GAIM), GAIM++ Model. We then use the IGRF Model and a Vertical Total Electron Content (VTEC) map from GAIM++ Model to determine the EAP in the Earth's ionosphere. Then, by changing the main parameters, the 10.7cm solar radio flux (F10.7) and the planetary geomagnetic activity index (AP), we compare the different value of the EAP in the Earth's ionosphere and the ExB velocity of the Earth's ionosphere. At last, we demonstrate that the program can be effective in determining the dependency between the EAP in the Earth's ionosphere and the ExB velocity of the Earth's ionosphere.

  4. Hierarchical Bayesian approach for estimating physical properties in spiral galaxies: Age Maps for M74

    CERN Document Server

    Gil, M Carmen Sánchez; Alfaro, Emilio J; Pérez, Enrique; Sarro, Luis M

    2015-01-01

    One of the fundamental goals of modern Astronomy is to estimate the physical parameters of galaxies from images in different spectral bands. We present a hierarchical Bayesian model for obtaining age maps from images in the \\Ha\\ line (taken with Taurus Tunable Filter (TTF)), ultraviolet band (far UV or FUV, from GALEX) and infrared bands (24, 70 and 160 microns ($\\mu$m), from Spitzer). As shown in S\\'anchez-Gil et al. (2011), we present the burst ages for young stellar populations in the nearby and nearly face on galaxy M74. As it is shown in the previous work, the \\Ha\\ to FUV flux ratio gives a good relative indicator of very recent star formation history (SFH). As a nascent star-forming region evolves, the \\Ha\\ line emission declines earlier than the UV continuum, leading to a decrease in the \\Ha\\/FUV ratio. Through a specific star-forming galaxy model (Starburst 99, SB99), we can obtain the corresponding theoretical ratio \\Ha\\ / FUV to compare with our observed flux ratios, and thus to estimate the ages of...

  5. A hybrid model for mapping simplified seismic response via a GIS-metamodel approach

    Directory of Open Access Journals (Sweden)

    G. Grelle

    2014-02-01

    Full Text Available An hybrid model, consisting of GIS and metamodel (model of model procedures, was introduced with the aim of estimating the 1-D spatial seismic site response. Inputs and outputs are provided and processed by means of an appropriate GIS model, named GIS Cubic Model (GCM. This discretizes the seismic underground half-space in a pseudo-tridimensional way. GCM consists of a layered parametric structure aimed at resolving a predicted metamodel by means of pixel to pixel vertical computing. The metamodel leading to the determination of a bilinear-polynomial function is able to design the classic shape of the spectral acceleration response in relation to the main physical parameters that characterize the spectrum itself. The main physical parameters consist of (i the average shear wave velocity of the shallow layer, (ii the fundamental period and, (iii the period where the spatial spectral response is required. The metamodel is calibrated on theoretical spectral accelerations regarding the local likely Vs-profiles, which are obtained using the Monte Carlo simulation technique on the basis of the GCM information. Therefore, via the GCM structure and the metamodel, the hybrid model provides maps of normalized acceleration response spectra. The hybrid model was applied and tested on the built-up area of the San Giorgio del Sannio village, located in a high-risk seismic zone of Southern Italy.

  6. An approach to improve the spatial resolution of a force mapping sensing system

    Science.gov (United States)

    Negri, Lucas Hermann; Manfron Schiefer, Elberth; Sade Paterno, Aleksander; Muller, Marcia; Luís Fabris, José

    2016-02-01

    This paper proposes a smart sensor system capable of detecting sparse forces applied to different positions of a metal plate. The sensing is performed with strain transducers based on fiber Bragg gratings (FBG) distributed under the plate. Forces actuating in nine squared regions of the plate, resulting from up to three different loads applied simultaneously to the plate, were monitored with seven transducers. The system determines the magnitude of the force/pressure applied on each specific area, even in the absence of a dedicated transducer for that area. The set of strain transducers with coupled responses and a compressive sensing algorithm are employed to solve the underdetermined inverse problem which emerges from mapping the force. In this configuration, experimental results have shown that the system is capable of recovering the value of the load distributed on the plate with a signal-to-noise ratio better than 12 dB, when the plate is submitted to three simultaneous test loads. The proposed method is a practical illustration of compressive sensing algorithms for the reduction of the number of FBG-based transducers used in a quasi-distributed configuration.

  7. Integrating mapping-, assembly- and haplotype-based approaches for calling variants in clinical sequencing applications

    OpenAIRE

    Rimmer, Andy; Phan, Van Hang; Mathieson, Iain; Iqbal, Zamin; Twigg, Stephen R.F.; Wilkie, Andrew O. M.; McVean, Gil; Lunter, Gerton

    2014-01-01

    High-throughput DNA sequencing technology has transformed genetic research and is starting to make an impact on clinical practice. However, analyzing high-throughput sequencing data remains challenging, particularly in clinical settings where accuracy and turnaround times are critical. We present a new approach to this problem, implemented in a software package called Platypus. Platypus achieves high sensitivity and specificity for SNPs, indels and complex polymorphisms by using local de novo...

  8. Improving semi-automated glacier mapping with a multi-method approach: applications in central Asia

    OpenAIRE

    SMITH, T; Bookhagen, B.; Cannon, F

    2015-01-01

    Studies of glaciers generally require precise glacier outlines. Where these are not available, extensive manual digitization in a geographic information system (GIS) must be performed, as current algorithms struggle to delineate glacier areas with debris cover or other irregular spectral profiles. Although several approaches have improved upon spectral band ratio delineation of glacier areas, none have entered wide use due to complexity or computational intensity. In ...

  9. THE SME OWNERS’ PERCEPTION ON CORPORATE SOCIAL RESPONSIBILITY: AN APPROACH BASED ON COGNITIVE MAPPING

    OpenAIRE

    Delphine Aegerter

    2007-01-01

    The Corporate Social Responsibility (CSR) is now established as an integral part of corporate strategy and therefore as having an impact on the firm’s perennial life. In spite of the large diffusion of the CSR topic and the importance of SME in national markets, the main researches focus on large companies. SME deserves its own tools. With the more direct impact of the manager decision, SME constitutes a privileged field of research for a cognitive approach of the corporate responsibility tow...

  10. A hybrid semantic approach to building dynamic maps of research communities

    OpenAIRE

    Osborne, Francesco; Scavo, Giuseppe; Motta, Enrico

    2014-01-01

    In the last ten years, ontology-based recommender systems have been shown to be effective tools for predicting user preferences and suggesting items. There are however some issues associated with the ontologies adopted by these approaches, such as: 1) their crafting is not a cheap process, being time consuming and calling for specialist expertise; 2) they may not represent accurately the viewpoint of the targeted user community; 3) they tend to provide rather static models, which fail to keep...

  11. A Bibliometric Approach towards Mapping the Dynamics of Science and Technology

    OpenAIRE

    Gupta, B. M.; Sujit Bhattacharya

    2003-01-01

    This paper attempts to highlight the role of bibliometrics in studying the dynamics of science and technology. Tools and techniques available in bibliometrics to address and understand the complexities of scientific fields are explored. The paper concludes that for wider acceptance among academicians and policy makers, bibliometric approach should ingrain itself within sociology and philosophy of science in studying the different facets of science and technology. http://dx.doi.org/10.14429/db...

  12. Mapping The Best Practices of XP and Project Management: Well defined approach for Project Manager

    OpenAIRE

    Javed, Muhammad; Ahmad, Bashir; Hussain, Shahid; Ahmad, Shakeel

    2010-01-01

    Software engineering is one of the most recent additions in various disciplines of system engineering. It has emerged as a key obedience of system engineering in a quick succession of time. Various Software Engineering approaches are followed in order to produce comprehensive software solutions of affordable cost with reasonable delivery timeframe with less uncertainty. All these objectives are only satisfied when project's status is properly monitored and controlled; eXtreme Programming (XP)...

  13. Towards a Common Approach for Mapping Areas Susceptible to Landslides in Europe

    OpenAIRE

    HERVAS DE DIEGO FRANCISCO; Gunther, Andreas; Reichenbach, Paola; Guzzetti, Fausto; Chacon, Jose; Pasuto, Alessandro; TRIGILA, ALESSANDRO; Malet, Jean-Philippe; Tagliavini, Fabrizio

    2008-01-01

    In the framework of the European Soil Thematic Strategy, and the associated preparation of a directive on the protection and sustainable use of soil, landslides were recognized as a soil threat requiring specific strategies for risk assessment and management. The criteria for harmonized risk area delineation proposed by the Soil Information Working Group (SIWG) of the European Soil Bureau Network (ESBN) adopt a nested geographical approach based on ¿Tiers¿ and exploit thematic and environment...

  14. Growing Neural Gas approach for obtaining homogeneous maps by restricting the insertion of new nodes

    OpenAIRE

    Quintana Pacheco, Yuri; Ruiz Fernández, Daniel; Magrans Rico, Agustín

    2014-01-01

    The Growing Neural Gas model is used widely in artificial neural networks. However, its application is limited in some contexts by the proliferation of nodes in dense areas of the input space. In this study, we introduce some modifications to address this problem by imposing three restrictions on the insertion of new nodes. Each restriction aims to maintain the homogeneous values of selected criteria. One criterion is related to the square error of classification and an alternative approach i...

  15. 1999 Breeding Bird Survey Route Paths for the Lower 48 States - Direct Download

    Data.gov (United States)

    U.S. Geological Survey, Department of the Interior — This map layer portrays a 1999 snapshot of the approximate route paths of active Breeding Bird Survey routes in the lower 48 States. The paths are a visual...

  16. A tetrahedron-based endmember selection approach for urban impervious surface mapping.

    Directory of Open Access Journals (Sweden)

    Wei Wang

    Full Text Available The pixel purity index (PPI and two-dimensional (2-D scatter plots are two popular techniques for endmember extraction in remote sensing spectral mixture analysis, yet both suffer from one major drawback, that is, the selection of a final set of endmembers has to endure a cumbersome process of iterative visual inspection and human intervention, especially when a spectrally-complex urban scene is involved. Within the conceptual framework of a V-H-L-S (vegetation-high albedo-low albedo-soil model, which is expanded from the classic V-I-S (vegetation-impervious surface-soil model, a tetrahedron-based endmember selection approach combined with a multi-objective optimization genetic algorithm (MOGA was designed to identify urban endmembers from multispectral imagery. The tetrahedron defining the enclosing volume of MNF-transformed pixels in a three-dimensional (3-D space was algorithmically sought, so that the tetrahedral vertices can ideally match the four components of the adopted model. A case study with Landsat Enhanced Thematic Mapper Plus (ETM+ satellite imagery in Shanghai, China was conducted to verify the validity of the method. The method performance was compared with those of the traditional PPI and 2-D scatter plots approaches. The results indicated that the tetrahedron-based endmember selection approach performed better in both accuracy and ease of identification for urban surface endmembers owing to the 3-D visualization analysis and use of the MOGA.

  17. Resting state cortico-cerebellar functional connectivity networks: A comparison of anatomical and self-organizing map approaches

    Directory of Open Access Journals (Sweden)

    Jessica A Bernard

    2012-08-01

    Full Text Available The cerebellum plays a role in a wide variety of complex behaviors. In order to better understand the role of the cerebellum in human behavior, it is important to know how this structure interacts with cortical and other subcortical regions of the brain. To date, several studies have investigated the cerebellum using resting-state functional connectivity magnetic resonance imaging (fcMRI; Buckner et al., 2011; Krienen & Buckner, 2009; O’Reilly et al., 2009. However, none of this work has taken an anatomically-driven approach. Furthermore, though detailed maps of cerebral cortex and cerebellum networks have been proposed using different network solutions based on the cerebral cortex (Buckner et al., 2011, it remains unknown whether or not an anatomical lobular breakdown best encompasses the networks of the cerebellum. Here, we used fcMRI to create an anatomically-driven cerebellar connectivity atlas. Timecourses were extracted from the lobules of the right hemisphere and vermis. We found distinct networks for the individual lobules with a clear division into motor and non-motor regions. We also used a self-organizing map algorithm to parcellate the cerebellum. This allowed us to investigate redundancy and independence of the anatomically identified cerebellar networks. We found that while anatomical boundaries in the anterior cerebellum provide functional subdivisions of a larger motor grouping defined using our self-organizing map algorithm, in the posterior cerebellum, the lobules were made up of sub-regions associated with distinct functional networks. Together, our results indicate that the lobular boundaries of the human cerebellum are not indicative of functional boundaries, though anatomical divisions can be useful, as is the case of the anterior cerebellum. Additionally, driving the analyses from the cerebellum is key to determining the complete picture of functional connectivity within the structure.

  18. The scurs inheritance: new insights from the French Charolais breed

    Directory of Open Access Journals (Sweden)

    Gautier Mathieu

    2009-07-01

    Full Text Available Abstract Background Polled animals are valued in cattle industry because the absence of horns has a significant economic impact. However, some cattle are neither polled nor horned but have so-called scurs on their heads, which are corneous growths loosely attached to the skull. A better understanding of the genetic determinism of the scurs phenotype would help to fine map the polled locus. To date, only one study has attempted to map the scurs locus in cattle. Here, we have investigated the inheritance of the scurs phenotype in the French Charolais breed and examined whether the previously proposed localisation of the scurs locus on bovine chromosome 19 could be confirmed or not. Results Our results indicate that the inheritance pattern of the scurs phenotype in the French Charolais breed is autosomal recessive with complete penetrance in both sexes, which is different from what is reported for other breeds. The frequency of the scurs allele (Sc reaches 69.9% in the French Charolais population. Eleven microsatellite markers on bovine chromosome 19 were genotyped in 267 offspring (33 half-sib and full-sib families. Both non-parametric and parametric linkage analyses suggest that in the French Charolais population the scurs locus may not map to the previously identified region. A new analysis of an Angus-Hereford and Hereford-Hereford pedigree published in 1978 enabled us to calculate the frequency of the Sc allele in the Hereford breed (89.4% and to study the penetrance of this allele in males heterozygous for both polled and scurs loci (40%. This led us to revise the inheritance pattern of the scurs phenotype proposed for the Hereford breed and to suggest that allele Sc is not fully but partially dominant in double heterozygous males while it is always recessive in females. Crossbreeding involving the Charolais breed and other breeds gave results similar to those reported in the Hereford breed. Conclusion Our results suggest the existence of

  19. Strain mapping of LED devices by dark-field inline electron holography: Comparison between deterministic and iterative phase retrieval approaches

    Energy Technology Data Exchange (ETDEWEB)

    Song, Kyung; Shin, Ga-Young; Kim, Jong Kyu [Department of Materials Science and Engineering, Pohang University of Science and Technology (POSTECH), San 31 Hyoja-dong, Nam-gu, Pohang 790-784 (Korea, Republic of); Oh, Sang Ho, E-mail: shoh@postech.ac.kr [Department of Materials Science and Engineering, Pohang University of Science and Technology (POSTECH), San 31 Hyoja-dong, Nam-gu, Pohang 790-784 (Korea, Republic of); Koch, Christoph T. [Institute for Experimental Physics, Ulm University, Albert-Einstein-Allee 11, 89081 Ulm (Germany)

    2013-04-15

    Dark-field inline electron holography has recently been established as a convenient method to map strain in semiconductor devices, combining high precision, low noise, sub-nm spatial resolution and fields-of-view larger than 1 μm. Here we compare two approaches to reconstruct the geometric phase from a transmission electron microscopy dark-field focal series and their effects on the strain measurement: the transport-of-intensity-equation (TIE) and a flux-preserving iterative approach. For this task, we used a GaN-based light emitting diode with a highly complex heterostructure as a model system. While the TIE relies on 3 images only but requires the optimization of two free parameters (defocus step and low-limit cut-off frequency), the iterative reconstruction algorithm involves no adjustable parameters and uses images recorded at 9 different planes of focus with quadratically increasing defocus values. Optimum parameters for the TIE-reconstruction could be identified. However, the iterative phase retrieval approach yields the strain values that agree best with the expected strain levels and provides also higher spatial resolution.

  20. Strain mapping of LED devices by dark-field inline electron holography: comparison between deterministic and iterative phase retrieval approaches.

    Science.gov (United States)

    Song, Kyung; Shin, Ga-Young; Kim, Jong Kyu; Oh, Sang Ho; Koch, Christoph T

    2013-04-01

    Dark-field inline electron holography has recently been established as a convenient method to map strain in semiconductor devices, combining high precision, low noise, sub-nm spatial resolution and fields-of-view larger than 1 μm. Here we compare two approaches to reconstruct the geometric phase from a transmission electron microscopy dark-field focal series and their effects on the strain measurement: the transport-of-intensity-equation (TIE) and a flux-preserving iterative approach. For this task, we used a GaN-based light emitting diode with a highly complex heterostructure as a model system. While the TIE relies on 3 images only but requires the optimization of two free parameters (defocus step and low-limit cut-off frequency), the iterative reconstruction algorithm involves no adjustable parameters and uses images recorded at 9 different planes of focus with quadratically increasing defocus values. Optimum parameters for the TIE-reconstruction could be identified. However, the iterative phase retrieval approach yields the strain values that agree best with the expected strain levels and provides also higher spatial resolution. PMID:22910615

  1. Strain mapping of LED devices by dark-field inline electron holography: Comparison between deterministic and iterative phase retrieval approaches

    International Nuclear Information System (INIS)

    Dark-field inline electron holography has recently been established as a convenient method to map strain in semiconductor devices, combining high precision, low noise, sub-nm spatial resolution and fields-of-view larger than 1 μm. Here we compare two approaches to reconstruct the geometric phase from a transmission electron microscopy dark-field focal series and their effects on the strain measurement: the transport-of-intensity-equation (TIE) and a flux-preserving iterative approach. For this task, we used a GaN-based light emitting diode with a highly complex heterostructure as a model system. While the TIE relies on 3 images only but requires the optimization of two free parameters (defocus step and low-limit cut-off frequency), the iterative reconstruction algorithm involves no adjustable parameters and uses images recorded at 9 different planes of focus with quadratically increasing defocus values. Optimum parameters for the TIE-reconstruction could be identified. However, the iterative phase retrieval approach yields the strain values that agree best with the expected strain levels and provides also higher spatial resolution

  2. Independent component analysis (ICA) and self-organizing map (SOM) approach to multidetection system for network intruders

    Science.gov (United States)

    Abdi, Abdi M.; Szu, Harold H.

    2003-04-01

    With the growing rate of interconnection among computer systems, network security is becoming a real challenge. Intrusion Detection System (IDS) is designed to protect the availability, confidentiality and integrity of critical network information systems. Today"s approach to network intrusion detection involves the use of rule-based expert systems to identify an indication of known attack or anomalies. However, these techniques are less successful in identifying today"s attacks. Hackers are perpetually inventing new and previously unanticipated techniques to compromise information infrastructure. This paper proposes a dynamic way of detecting network intruders on time serious data. The proposed approach consists of a two-step process. Firstly, obtaining an efficient multi-user detection method, employing the recently introduced complexity minimization approach as a generalization of a standard ICA. Secondly, we identified unsupervised learning neural network architecture based on Kohonen"s Self-Organizing Map for potential functional clustering. These two steps working together adaptively will provide a pseudo-real time novelty detection attribute to supplement the current intrusion detection statistical methodology.

  3. Real-time temperature estimation and monitoring of HIFU ablation through a combined modeling and passive acoustic mapping approach

    Science.gov (United States)

    Jensen, C. R.; Cleveland, R. O.; Coussios, C. C.

    2013-09-01

    Passive acoustic mapping (PAM) has been recently demonstrated as a method of monitoring focused ultrasound therapy by reconstructing the emissions created by inertially cavitating bubbles (Jensen et al 2012 Radiology 262 252-61). The published method sums energy emitted by cavitation from the focal region within the tissue and uses a threshold to determine when sufficient energy has been delivered for ablation. The present work builds on this approach to provide a high-intensity focused ultrasound (HIFU) treatment monitoring software that displays both real-time temperature maps and a prediction of the ablated tissue region. This is achieved by determining heat deposition from two sources: (i) acoustic absorption of the primary HIFU beam which is calculated via a nonlinear model, and (ii) absorption of energy from bubble acoustic emissions which is estimated from measurements. The two sources of heat are used as inputs to the bioheat equation that gives an estimate of the temperature of the tissue as well as estimates of tissue ablation. The method has been applied to ex vivo ox liver samples and the estimated temperature is compared to the measured temperature and shows good agreement, capturing the effect of cavitation-enhanced heating on temperature evolution. In conclusion, it is demonstrated that by using PAM and predictions of heating it is possible to produce an evolving estimate of cell death during exposure in order to guide treatment for monitoring ablative HIFU therapy. Portions presented at the 13th International Symposium on Therapeutic Ultrasound, Heidelberg, Germany (2012).

  4. Real-time temperature estimation and monitoring of HIFU ablation through a combined modeling and passive acoustic mapping approach

    International Nuclear Information System (INIS)

    Passive acoustic mapping (PAM) has been recently demonstrated as a method of monitoring focused ultrasound therapy by reconstructing the emissions created by inertially cavitating bubbles (Jensen et al 2012 Radiology 262 252–61). The published method sums energy emitted by cavitation from the focal region within the tissue and uses a threshold to determine when sufficient energy has been delivered for ablation. The present work builds on this approach to provide a high-intensity focused ultrasound (HIFU) treatment monitoring software that displays both real-time temperature maps and a prediction of the ablated tissue region. This is achieved by determining heat deposition from two sources: (i) acoustic absorption of the primary HIFU beam which is calculated via a nonlinear model, and (ii) absorption of energy from bubble acoustic emissions which is estimated from measurements. The two sources of heat are used as inputs to the bioheat equation that gives an estimate of the temperature of the tissue as well as estimates of tissue ablation. The method has been applied to ex vivo ox liver samples and the estimated temperature is compared to the measured temperature and shows good agreement, capturing the effect of cavitation-enhanced heating on temperature evolution. In conclusion, it is demonstrated that by using PAM and predictions of heating it is possible to produce an evolving estimate of cell death during exposure in order to guide treatment for monitoring ablative HIFU therapy. (paper)

  5. Mutation breeding newsletter. No. 43

    International Nuclear Information System (INIS)

    This issue of the Newsletter includes articles dealing with radiation induced mutation based plant breeding research findings aimed at improving productivity, disease resistance and tolerance of stress conditions

  6. New biotechnology enhances the application of cisgenesis in plant breeding

    Directory of Open Access Journals (Sweden)

    Hongwei eHou

    2014-08-01

    Full Text Available Cisgenesis is genetic modification to transfer beneficial alleles from crossable species into a recipient plant. The donor genes transferred by cisgenesis are the same as those used in traditional breeding. It can avoid linkage drag, enhance the use of existing gene alleles. This approach combines traditional breeding techniques with modern biotechnology and dramatically speeds up the breeding process. This allows plant genomes to be modified while remaining plants within the gene pool. Therefore, cisgenic plants should not be assessed as transgenics for environmental impacts.

  7. A Robust Approach for a Filter-Based Monocular Simultaneous Localization and Mapping (SLAM System

    Directory of Open Access Journals (Sweden)

    Antoni Grau

    2013-07-01

    Full Text Available Simultaneous localization and mapping (SLAM is an important problem to solve in robotics theory in order to build truly autonomous mobile robots. This work presents a novel method for implementing a SLAM system based on a single camera sensor. The SLAM with a single camera, or monocular SLAM, is probably one of the most complex SLAM variants. In this case, a single camera, which is freely moving through its environment, represents the sole sensor input to the system. The sensors have a large impact on the algorithm used for SLAM. Cameras are used more frequently, because they provide a lot of information and are well adapted for embedded systems: they are light, cheap and power-saving. Nevertheless, and unlike range sensors, which provide range and angular information, a camera is a projective sensor providing only angular measurements of image features. Therefore, depth information (range cannot be obtained in a single step. In this case, special techniques for feature system-initialization are needed in order to enable the use of angular sensors (as cameras in SLAM systems. The main contribution of this work is to present a novel and robust scheme for incorporating and measuring visual features in filtering-based monocular SLAM systems. The proposed method is based in a two-step technique, which is intended to exploit all the information available in angular measurements. Unlike previous schemes, the values of parameters used by the initialization technique are derived directly from the sensor characteristics, thus simplifying the tuning of the system. The experimental results show that the proposed method surpasses the performance of previous schemes.

  8. A robust approach for a filter-based monocular simultaneous localization and mapping (SLAM) system.

    Science.gov (United States)

    Munguía, Rodrigo; Castillo-Toledo, Bernardino; Grau, Antoni

    2013-01-01

    Simultaneous localization and mapping (SLAM) is an important problem to solve in robotics theory in order to build truly autonomous mobile robots. This work presents a novel method for implementing a SLAM system based on a single camera sensor. The SLAM with a single camera, or monocular SLAM, is probably one of the most complex SLAM variants. In this case, a single camera, which is freely moving through its environment, represents the sole sensor input to the system. The sensors have a large impact on the algorithm used for SLAM. Cameras are used more frequently, because they provide a lot of information and are well adapted for embedded systems: they are light, cheap and power-saving. Nevertheless, and unlike range sensors, which provide range and angular information, a camera is a projective sensor providing only angular measurements of image features. Therefore, depth information (range) cannot be obtained in a single step. In this case, special techniques for feature system-initialization are needed in order to enable the use of angular sensors (as cameras) in SLAM systems. The main contribution of this work is to present a novel and robust scheme for incorporating and measuring visual features in filtering-based monocular SLAM systems. The proposed method is based in a two-step technique, which is intended to exploit all the information available in angular measurements. Unlike previous schemes, the values of parameters used by the initialization technique are derived directly from the sensor characteristics, thus simplifying the tuning of the system. The experimental results show that the proposed method surpasses the performance of previous schemes. PMID:23823972

  9. SBH and the integration of complementary approaches in the mapping, sequencing, and understanding of complex genomes

    International Nuclear Information System (INIS)

    A variant of sequencing by hybridization (SBH) is being developed with a potential to inexpensively determine up to 100 million base pairs per year. The method comprises (1) arraying short clones in 864-well plates; (2) growth of the M13 clones or PCR of the inserts; (3) automated spotting of DNAs by corresponding pin-arrays; (4) hybridization of dotted samples with 200-3000 32P- or 33P-labeled 6- to 8-mer probes; and (5) scoring hybridization signals using storage phosphor plates. Some 200 7- to 8-mers can provide an inventory of the genes if CDNA clones are hybridized, or can define the order of 2-kb genomic clones, creating physical and structural maps with 100-bp resolution; the distribution of G+C, LINEs, SINEs, and gene families would be revealed. cDNAs that represent new genes and genomic clones in regions of interest selected by SBH can be sequenced by a gel method. Uniformly distributed clones from the previous step will be hybridized with 2000--3000 6- to 8-mers. As a result, approximately 50--60% of the genomic regions containing members of large repetitive and gene families and those families represented in GenBank would be completely sequenced. In the less redundant regions, every base pair is expected to be read with 3-4 probes, but the complete sequence can not be reconstructed. Such partial sequences allow the inference of similarity and the recognition of coding, regulatory, and repetitive sequences, as well as study of the evolutionary processes all the way up to the species delineation

  10. Mapping Palm Swamp Wetland Ecosystems in the Peruvian Amazon: a Multi-Sensor Remote Sensing Approach

    Science.gov (United States)

    Podest, E.; McDonald, K. C.; Schroeder, R.; Pinto, N.; Zimmerman, R.; Horna, V.

    2012-12-01

    Wetland ecosystems are prevalent in the Amazon basin, especially in northern Peru. Of specific interest are palm swamp wetlands because they are characterized by constant surface inundation and moderate seasonal water level variation. This combination of constantly saturated soils and warm temperatures year-round can lead to considerable methane release to the atmosphere. Because of the widespread occurrence and expected sensitivity of these ecosystems to climate change, it is critical to develop methods to quantify their spatial extent and inundation state in order to assess their carbon dynamics. Spatio-temporal information on palm swamps is difficult to gather because of their remoteness and difficult accessibility. Spaceborne microwave remote sensing is an effective tool for characterizing these ecosystems since it is sensitive to surface water and vegetation structure and allows monitoring large inaccessible areas on a temporal basis regardless of atmospheric conditions or solar illumination. We developed a remote sensing methodology using multi-sensor remote sensing data from the Advanced Land Observing Satellite (ALOS) Phased Array L-Band Synthetic Aperture Radar (PALSAR), Shuttle Radar Topography Mission (SRTM) DEM, and Landsat to derive maps at 100 meter resolution of palm swamp extent and inundation based on ground data collections; and combined active and passive microwave data from AMSR-E and QuikSCAT to derive inundation extent at 25 kilometer resolution on a weekly basis. We then compared information content and accuracy of the coarse resolution products relative to the high-resolution datasets. The synergistic combination of high and low resolution datasets allowed for characterization of palm swamps and assessment of their flooding status. This work has been undertaken partly within the framework of the JAXA ALOS Kyoto & Carbon Initiative. PALSAR data have been provided by JAXA. Portions of this work were carried out at the Jet Propulsion Laboratory

  11. SBH and the integration of complementary approaches in the mapping, sequencing, and understanding of complex genomes

    Energy Technology Data Exchange (ETDEWEB)

    Drmanac, R.; Drmanac, S.; Labat, I.; Vicentic, A.; Gemmell, A.; Stavropoulos, N.; Jarvis, J.

    1992-12-01

    A variant of sequencing by hybridization (SBH) is being developed with a potential to inexpensively determine up to 100 million base pairs per year. The method comprises (1) arraying short clones in 864-well plates; (2) growth of the M13 clones or PCR of the inserts; (3) automated spotting of DNAs by corresponding pin-arrays; (4) hybridization of dotted samples with 200-3000 {sup 32}P- or {sup 33}P-labeled 6- to 8-mer probes; and (5) scoring hybridization signals using storage phosphor plates. Some 200 7- to 8-mers can provide an inventory of the genes if CDNA clones are hybridized, or can define the order of 2-kb genomic clones, creating physical and structural maps with 100-bp resolution; the distribution of G+C, LINEs, SINEs, and gene families would be revealed. cDNAs that represent new genes and genomic clones in regions of interest selected by SBH can be sequenced by a gel method. Uniformly distributed clones from the previous step will be hybridized with 2000--3000 6- to 8-mers. As a result, approximately 50--60% of the genomic regions containing members of large repetitive and gene families and those families represented in GenBank would be completely sequenced. In the less redundant regions, every base pair is expected to be read with 3-4 probes, but the complete sequence can not be reconstructed. Such partial sequences allow the inference of similarity and the recognition of coding, regulatory, and repetitive sequences, as well as study of the evolutionary processes all the way up to the species delineation.

  12. SBH and the integration of complementary approaches in the mapping, sequencing, and understanding of complex genomes

    Energy Technology Data Exchange (ETDEWEB)

    Drmanac, R.; Drmanac, S.; Labat, I.; Vicentic, A.; Gemmell, A.; Stavropoulos, N.; Jarvis, J.

    1992-01-01

    A variant of sequencing by hybridization (SBH) is being developed with a potential to inexpensively determine up to 100 million base pairs per year. The method comprises (1) arraying short clones in 864-well plates; (2) growth of the M13 clones or PCR of the inserts; (3) automated spotting of DNAs by corresponding pin-arrays; (4) hybridization of dotted samples with 200-3000 [sup 32]P- or [sup 33]P-labeled 6- to 8-mer probes; and (5) scoring hybridization signals using storage phosphor plates. Some 200 7- to 8-mers can provide an inventory of the genes if CDNA clones are hybridized, or can define the order of 2-kb genomic clones, creating physical and structural maps with 100-bp resolution; the distribution of G+C, LINEs, SINEs, and gene families would be revealed. cDNAs that represent new genes and genomic clones in regions of interest selected by SBH can be sequenced by a gel method. Uniformly distributed clones from the previous step will be hybridized with 2000--3000 6- to 8-mers. As a result, approximately 50--60% of the genomic regions containing members of large repetitive and gene families and those families represented in GenBank would be completely sequenced. In the less redundant regions, every base pair is expected to be read with 3-4 probes, but the complete sequence can not be reconstructed. Such partial sequences allow the inference of similarity and the recognition of coding, regulatory, and repetitive sequences, as well as study of the evolutionary processes all the way up to the species delineation.

  13. First level seismic microzonation map of Chennai city – a GIS approach

    Directory of Open Access Journals (Sweden)

    G. P. Ganapathy

    2011-02-01

    Full Text Available Chennai city is the fourth largest metropolis in India, is the focus of economic, social and cultural development and it is the capital of the State of Tamil Nadu. The city has a multi-dimensional growth in development of its infrastructures and population. The area of Chennai has experienced moderate earthquakes in the historical past. Also the Bureau of Indian Standard upgraded the seismic status of Chennai from Low Seismic Hazard (Zone II to Moderate Seismic Hazard (Zone III–(BIS: 1893 (2001. In this connection, a first level seismic microzonation map of Chennai city has been produced with a GIS platform using the themes, viz, Peak Ground Acceleration (PGA, Shear wave velocity at 3 m, Geology, Ground water fluctuation and bed rock depth. The near potential seismic sources were identified from the remote-sensing study and seismo-tectonic details from published literatures. The peak ground acceleration for these seismic sources were estimated based on the attenuation relationship and the maximum PGA for Chennai is 0.176 g. The groundwater fluctuation of the city varies from 0–4 m below ground level. The depth to bedrock configuration shows trough and ridges in the bedrock topography all over the city. The seismic microzonation analysis involved grid datasets (the discrete datasets from different themes were converted to grids to compute the final seismic hazard grid through integration and weightage analysis of the source themes. The Chennai city has been classified into three broad zones, viz, High, Moderate and Low Seismic Hazard. The High seismic Hazard concentrated in a few places in the western central part of the city. The moderate hazard areas are oriented in NW-SE direction in the Western part. The southern and eastern part will have low seismic hazard. The result of the study may be used as first-hand information in selecting the appropriate earthquake resistant features in designing the forthcoming new buildings against seismic

  14. Mutation Breeding in Sugarcane

    International Nuclear Information System (INIS)

    The present position of sugar industry particularly cane sugar production in the world has been discussed. The role of African Countries which can contribute more than the present 11% to world cane sugar production is presented. The breeding methods employed in cane growing court-tries indicate the biparental crossing and selection in F1 has been the major method used to develop varieties. Due to cytogenetical peculiarities, thousands of seedlings are grown to select the desirable genotype. Mutations or sports has been a source of variation for selection in nature. Induced mutations have only enhanced the mutation rate and has enabled the plant breeders to get better variation for selection. Though many mutagens have been used gamma rays have been most effective. Induced mutations for nonflowering, spineless leaf-sheath, higher sugar content, yield md resistance to diseases like smut and downy mildew have been reported. The methods of making mutated tissues express itself have been indicated. Mutation breeding holds out promise in sugarcane in that the basic variety or genotype can be kept intact and a few characters changed as desired by the plant breeder provided proper selection methods are employed. (author)

  15. Radiation mutation breeding

    Energy Technology Data Exchange (ETDEWEB)

    Song, Hi Sup; Kim, Jae Sung; Kim, Jin Kyu; Shin, In Chul; Lim, Young Taek

    1998-04-01

    In order to develop an advanced technical knowledge for the selection of better mutants, some of the crops were irradiated and the mutation rate, the survival rate and the method for selction of a mutant were studied. Furthermore, this study aimed to obtain basic data applicable to the development of genetic resources by evaluation and analysis the specific character for selection of the superior mutant and its plant breeding. 1. selection of the mutant with a superior resistance against environment in the principal crops 1) New varieties of mutant rices such as Wonpyeongbyeo, Wongwangbyeo, Winmibyeo, and heogseon chalbeyeo (sticky forma) were registered in the national variety list and made an application to crop variety protection right. They are under review now. 2) We also keep on studying on the number of a grain of 8 lines of excellent mutant rice for the purpose of improvement of breeding . 3) We selected 3 lines which have a resistance to pod and stem blight in large soybean, 31 lines with small grain size and higher yield, 112 lines of soybean of cooking, 7 lines of low lipoxygenase content, and 12 lines with decreased phytic acid content by 20 % compared to the previous level. 2. Selection of advanced Mugunwha (Rose of Sharon) mutant 1) Bagseul, a new variety of mutant, was developed and 30 plantlets of it are being proliferated. 2) Fifty-three lines of a mutant having a various morphologies were selected.

  16. Radiation mutation breeding

    International Nuclear Information System (INIS)

    In order to develop an advanced technical knowledge for the selection of better mutants, some of the crops were irradiated and the mutation rate, the survival rate and the method for selction of a mutant were studied. Furthermore, this study aimed to obtain basic data applicable to the development of genetic resources by evaluation and analysis the specific character for selection of the superior mutant and its plant breeding. 1. selection of the mutant with a superior resistance against environment in the principal crops 1) New varieties of mutant rices such as Wonpyeongbyeo, Wongwangbyeo, Winmibyeo, and heogseon chalbeyeo (sticky forma) were registered in the national variety list and made an application to crop variety protection right. They are under review now. 2) We also keep on studying on the number of a grain of 8 lines of excellent mutant rice for the purpose of improvement of breeding . 3) We selected 3 lines which have a resistance to pod and stem blight in large soybean, 31 lines with small grain size and higher yield, 112 lines of soybean of cooking, 7 lines of low lipoxygenase content, and 12 lines with decreased phytic acid content by 20 % compared to the previous level. 2. Selection of advanced Mugunwha (Rose of Sharon) mutant 1) Bagseul, a new variety of mutant, was developed and 30 plantlets of it are being proliferated. 2) Fifty-three lines of a mutant having a various morphologies were selected

  17. Diffusion-Based Density-Equalizing Maps: an Interdisciplinary Approach to Visualizing Homicide Rates and Other Georeferenced Statistical Data

    Science.gov (United States)

    Mazzitello, Karina I.; Candia, Julián

    2012-12-01

    In every country, public and private agencies allocate extensive funding to collect large-scale statistical data, which in turn are studied and analyzed in order to determine local, regional, national, and international policies regarding all aspects relevant to the welfare of society. One important aspect of that process is the visualization of statistical data with embedded geographical information, which most often relies on archaic methods such as maps colored according to graded scales. In this work, we apply nonstandard visualization techniques based on physical principles. We illustrate the method with recent statistics on homicide rates in Brazil and their correlation to other publicly available data. This physics-based approach provides a novel tool that can be used by interdisciplinary teams investigating statistics and model projections in a variety of fields such as economics and gross domestic product research, public health and epidemiology, sociodemographics, political science, business and marketing, and many others.

  18. Diffusion-Based Density-Equalizing Maps: an Interdisciplinary Approach to Visualizing Homicide Rates and Other Georeferenced Statistical Data

    CERN Document Server

    Mazzitello, Karina I

    2012-01-01

    In every country, public and private agencies allocate extensive funding to collect large-scale statistical data, which in turn are studied and analyzed in order to determine local, regional, national, and international policies regarding all aspects relevant to the welfare of society. One important aspect of that process is the visualization of statistical data with embedded geographical information, which most often relies on archaic methods such as maps colored according to graded scales. In this work, we apply non-standard visualization techniques based on physical principles. We illustrate the method with recent statistics on homicide rates in Brazil and their correlation to other publicly available data. This physics-based approach provides a novel tool that can be used by interdisciplinary teams investigating statistics and model projections in a variety of fields such as economics and gross domestic product research, public health and epidemiology, socio-demographics, political science, business and m...

  19. Variable Separation Solutions in (1+1)-Dimensional and (3+1)-Dimensional Systems via Entangled Mapping Approach

    Institute of Scientific and Technical Information of China (English)

    DAI Chao-Qing; YAN Cai-Jie; ZHANG Jie-Fang

    2006-01-01

    In this paper, the entangled mapping approach (EMA) is applied to obtain variable separation solutions of (1+1)-dimensional and (3+1)-dimensional systems. By analysis, we firstly find that there also exists a common formula to describe suitable physical fields or potentials for these (1+1)-dimensional models such as coupled integrable dispersionless (CID) and shallow water wave equations. Moreover, we find that the variable separation solution of the (3+1)-dimensional Burgers system satisfies the completely same form as the universal quantity U1 in (2+ 1 )-dimensional systems. The only difference is that the function q is a solution of a constraint equation and p is an arbitrary function of three independent variables.

  20. Ecological study and risk mapping of leishmaniasis in an endemic area of Brazil based on a geographical information systems approach

    Directory of Open Access Journals (Sweden)

    Alba Valéria Machado da Silva

    2011-11-01

    Full Text Available Visceral leishmaniasis is a vector-borne disease highly influenced by eco-epidemiological factors. Geographical information systems (GIS have proved to be a suitable approach for the analysis of environmental components that affect the spatial distribution of diseases. Exploiting this methodology, a model was developed for the mapping of the distribution and incidence of canine leishmaniasis in an endemic area of Brazil. Local variations were observed with respect to infection incidence and distribution of serological titers, i.e. high titers were noted close to areas with preserved vegetation, while low titers were more frequent in areas where people kept chickens. Based on these results, we conclude that the environment plays an important role in generating relatively protected areas within larger endemic regions, but that it can also contribute to the creation of hotspots with clusters of comparatively high serological titers indicating a high level of transmission compared with neighbouring areas.

  1. Evolutionary relationships of Red Jungle Fowl and chicken breeds

    Directory of Open Access Journals (Sweden)

    Sevastyanova Antonina A

    2003-07-01

    Full Text Available Abstract Published results were reassessed and original data are provided regarding the origin and relatedness of four postulated chicken breed lineages, egg-type, game, meat-type and Bantam, to each other and to the basic ancestral species of jungle fowls, Gallus gallus. A system approach was employed concerning the planning of the experiments. One element of the system approach is the choice of the breeds to be compared with G. gallus. These breeds were supposed to represent major evolutionary branches of chickens. Four experiments on genetic relationships were conducted using different estimation criteria including morphological discrete characters, body measurements, biochemical markers, and the activity of serum esterase-1. The greatest similarity was found between G. gallus and the egg-type breeds of Mediterranean roots and/or true Bantams. This fact might testify that the indicated chicken groups occupied earlier stages in the evolution from the wild progenitor to the present biodiversity of chickens in the world.

  2. Functional aspects of the EGF-induced MAP kinase cascade: a complex self-organizing system approach.

    Science.gov (United States)

    Kosmidis, Efstratios K; Moschou, Vasiliki; Ziogas, Georgios; Boukovinas, Ioannis; Albani, Maria; Laskaris, Nikolaos A

    2014-01-01

    The EGF-induced MAP kinase cascade is one of the most important and best characterized networks in intracellular signalling. It has a vital role in the development and maturation of living organisms. However, when deregulated, it is involved in the onset of a number of diseases. Based on a computational model describing a "surface" and an "internalized" parallel route, we use systems biology techniques to characterize aspects of the network's functional organization. We examine the re-organization of protein groups from low to high external stimulation, define functional groups of proteins within the network, determine the parameter best encoding for input intensity and predict the effect of protein removal to the system's output response. Extensive functional re-organization of proteins is observed in the lower end of stimulus concentrations. As we move to higher concentrations the variability is less pronounced. 6 functional groups have emerged from a consensus clustering approach, reflecting different dynamical aspects of the network. Mutual information investigation revealed that the maximum activation rate of the two output proteins best encodes for stimulus intensity. Removal of each protein of the network resulted in a range of graded effects, from complete silencing to intense activation. Our results provide a new "vista" of the EGF-induced MAP kinase cascade, from the perspective of complex self-organizing systems. Functional grouping of the proteins reveals an organizational scheme contrasting the current understanding of modular topology. The six identified groups may provide the means to experimentally follow the dynamics of this complex network. Also, the vulnerability analysis approach may be used for the development of novel therapeutic targets in the context of personalized medicine. PMID:25372488

  3. A scalable and accurate method for classifying protein-ligand binding geometries using a MapReduce approach.

    Science.gov (United States)

    Estrada, T; Zhang, B; Cicotti, P; Armen, R S; Taufer, M

    2012-07-01

    We present a scalable and accurate method for classifying protein-ligand binding geometries in molecular docking. Our method is a three-step process: the first step encodes the geometry of a three-dimensional (3D) ligand conformation into a single 3D point in the space; the second step builds an octree by assigning an octant identifier to every single point in the space under consideration; and the third step performs an octree-based clustering on the reduced conformation space and identifies the most dense octant. We adapt our method for MapReduce and implement it in Hadoop. The load-balancing, fault-tolerance, and scalability in MapReduce allow screening of very large conformation spaces not approachable with traditional clustering methods. We analyze results for docking trials for 23 protein-ligand complexes for HIV protease, 21 protein-ligand complexes for Trypsin, and 12 protein-ligand complexes for P38alpha kinase. We also analyze cross docking trials for 24 ligands, each docking into 24 protein conformations of the HIV protease, and receptor ensemble docking trials for 24 ligands, each docking in a pool of HIV protease receptors. Our method demonstrates significant improvement over energy-only scoring for the accurate identification of native ligand geometries in all these docking assessments. The advantages of our clustering approach make it attractive for complex applications in real-world drug design efforts. We demonstrate that our method is particularly useful for clustering docking results using a minimal ensemble of representative protein conformational states (receptor ensemble docking), which is now a common strategy to address protein flexibility in molecular docking. PMID:22658682

  4. Mixed Linear Model Approaches of Association Mapping for Complex Traits Based on Omics Variants.

    Science.gov (United States)

    Zhang, Fu-Tao; Zhu, Zhi-Hong; Tong, Xiao-Ran; Zhu, Zhi-Xiang; Qi, Ting; Zhu, Jun

    2015-01-01

    Precise prediction for genetic architecture of complex traits is impeded by the limited understanding on genetic effects of complex traits, especially on gene-by-gene (GxG) and gene-by-environment (GxE) interaction. In the past decades, an explosion of high throughput technologies enables omics studies at multiple levels (such as genomics, transcriptomics, proteomics, and metabolomics). The analyses of large omics data, especially two-loci interaction analysis, are very time intensive. Integrating the diverse omics data and environmental effects in the analyses also remain challenges. We proposed mixed linear model approaches using GPU (Graphic Processing Unit) computation to simultaneously dissect various genetic effects. Analyses can be performed for estimating genetic main effects, GxG epistasis effects, and GxE environment interaction effects on large-scale omics data for complex traits, and for estimating heritability of specific genetic effects. Both mouse data analyses and Monte Carlo simulations demonstrated that genetic effects and environment interaction effects could be unbiasedly estimated with high statistical power by using the proposed approaches. PMID:26223539

  5. Operational evapotranspiration mapping using remote sensing and weather datasets: a new parameterization for the SSEB approach

    Science.gov (United States)

    Senay, Gabriel B.; Bohms, Stefanie; Singh, Ramesh K.; Gowda, Prasanna H.; Velpuri, Naga Manohar; Alemu, Henok; Verdin, James P.

    2013-01-01

    The increasing availability of multi-scale remotely sensed data and global weather datasets is allowing the estimation of evapotranspiration (ET) at multiple scales. We present a simple but robust method that uses remotely sensed thermal data and model-assimilated weather fields to produce ET for the contiguous United States (CONUS) at monthly and seasonal time scales. The method is based on the Simplified Surface Energy Balance (SSEB) model, which is now parameterized for operational applications, renamed as SSEBop. The innovative aspect of the SSEBop is that it uses predefined boundary conditions that are unique to each pixel for the "hot" and "cold" reference conditions. The SSEBop model was used for computing ET for 12 years (2000-2011) using the MODIS and Global Data Assimilation System (GDAS) data streams. SSEBop ET results compared reasonably well with monthly eddy covariance ET data explaining 64% of the observed variability across diverse ecosystems in the CONUS during 2005. Twelve annual ET anomalies (2000-2011) depicted the spatial extent and severity of the commonly known drought years in the CONUS. More research is required to improve the representation of the predefined boundary conditions in complex terrain at small spatial scales. SSEBop model was found to be a promising approach to conduct water use studies in the CONUS, with a similar opportunity in other parts of the world. The approach can also be applied with other thermal sensors such as Landsat.

  6. Fixed target combined with spectral mapping: approaching 100% hit rates for serial crystallography.

    Science.gov (United States)

    Oghbaey, Saeed; Sarracini, Antoine; Ginn, Helen M; Pare-Labrosse, Olivier; Kuo, Anling; Marx, Alexander; Epp, Sascha W; Sherrell, Darren A; Eger, Bryan T; Zhong, Yinpeng; Loch, Rolf; Mariani, Valerio; Alonso-Mori, Roberto; Nelson, Silke; Lemke, Henrik T; Owen, Robin L; Pearson, Arwen R; Stuart, David I; Ernst, Oliver P; Mueller-Werkmeister, Henrike M; Miller, R J Dwayne

    2016-08-01

    The advent of ultrafast highly brilliant coherent X-ray free-electron laser sources has driven the development of novel structure-determination approaches for proteins, and promises visualization of protein dynamics on sub-picosecond timescales with full atomic resolution. Significant efforts are being applied to the development of sample-delivery systems that allow these unique sources to be most efficiently exploited for high-throughput serial femtosecond crystallography. Here, the next iteration of a fixed-target crystallography chip designed for rapid and reliable delivery of up to 11 259 protein crystals with high spatial precision is presented. An experimental scheme for predetermining the positions of crystals in the chip by means of in situ spectroscopy using a fiducial system for rapid, precise alignment and registration of the crystal positions is presented. This delivers unprecedented performance in serial crystallography experiments at room temperature under atmospheric pressure, giving a raw hit rate approaching 100% with an effective indexing rate of approximately 50%, increasing the efficiency of beam usage and allowing the method to be applied to systems where the number of crystals is limited. PMID:27487825

  7. Fast approach to evaluate MAP reconstruction for lesion detection and localization

    International Nuclear Information System (INIS)

    Lesion detection is an important task in emission tomography. Localization ROC (LROC) studies are often used to analyze the lesion detection and localization performance. Most researchers rely on Monte Carlo reconstruction samples to obtain LROC curves, which can be very time-consuming for iterative algorithms. In this paper we develop a fast approach to obtain LROC curves that does not require Monte Carlo reconstructions. We use a channelized Hotelling observer model to search for lesions, and the results can be easily extended to other numerical observers. We theoretically analyzed the mean and covariance of the observer output. Assuming the observer outputs are multivariate Gaussian random variables, an LROC curve can be directly generated by integrating the conditional probability density functions. The high-dimensional integrals are calculated using a Monte Carlo method. The proposed approach is very fast because no iterative reconstruction is involved. Computer simulations show that the results of the proposed method match well with those obtained using the tradition LROC analysis

  8. Mapping mantle-melting anomalies in Baja California: a combined helium-seismology approach

    Science.gov (United States)

    Negrete-Aranda, R.; Spelz, R. M.; Hilton, D. R.; Tellez, M.; González-Yahimovich, O.

    2015-12-01

    In active tectonic settings, the presence of helium in aqueous fluids with 3He/4He ratios greater than in-situ production values (~0.05 RA where RA = air He or 1.4 x 10-6) indicates the contribution of mantle-derived volatiles to the total volatile inventory. This is an indicative of the presence of mantle-derived melts, which act to transfer volatiles from the solid Earth towards the surface. Thus, He has the potential to map regions of the underlying mantle which are undergoing partial melting - a phenomenon which should also be evident in the seismic record. Reports of high 3He/4He in hot springs in Baja California (BC) has prompted us to initiate a survey of the region to assess relationship(s) between He isotopes and geophysical images of the underlying mantle. Previous studies report 3He/4He ratios of 0.54 RA for submarine hot springs (Punta Banda 108oC; Vidal, 1982) and 1.3 RA for spring waters (81oC) at Bahia Concepcion (Forrest et al.,2005). Our new survey of hot springs in northern BC has revealed that all 6 localities sampled to date, show the presence of mantle He with the highest ratio being 1.74RA (21% mantle-derived) at Puertecitos on the Gulf coast. He ratios are generally lower on the Pacific coast with the minimum mantle He contribution being 5% at Sierra Juárez (0.11RA). Thus, preliminary trends are of a west-to-east increase in the mantle He signal across the peninsula. He results presented in this study correlate well with high resolution Rayleigh wave tomography images by Forsythe et al. (2007). Shear velocity variations in the BC crust and upper mantle have been interpreted as low velocity anomalies associated with dynamic upwelling and active melt production. More extensive sampling throughout BC coupled with analysis of other geochemical indicators of mantle degassing (e.g. CO2) will allow more detailed characterization of the extent and distribution of mantle melts in the region, facilitating assessment of the region's geothermal

  9. Using dose-surface maps to predict radiation-induced rectal bleeding: a neural network approach

    International Nuclear Information System (INIS)

    The incidence of late-toxicities after radiotherapy can be modelled based on the dose delivered to the organ under consideration. Most predictive models reduce the dose distribution to a set of dose-volume parameters and do not take the spatial distribution of the dose into account. The aim of this study was to develop a classifier predicting radiation-induced rectal bleeding using all available information on the dose to the rectal wall. The dose was projected on a two-dimensional dose-surface map (DSM) by virtual rectum-unfolding. These DSMs were used as inputs for a classification method based on locally connected neural networks. In contrast to fully connected conventional neural nets, locally connected nets take the topology of the input into account. In order to train the nets, data from 329 patients from the RT01 trial (ISRCTN 47772397) were split into ten roughly equal parts. By using nine of these parts as a training set and the remaining part as an independent test set, a ten-fold cross-validation was performed. Ensemble learning was used and 250 nets were built from randomly selected patients from the training set. Out of these 250 nets, an ensemble of expert nets was chosen. The performances of the full ensemble and of the expert ensemble were quantified by using receiver-operator-characteristic (ROC) curves. In order to quantify the predictive power of the shape, ensembles of fully connected conventional neural nets based on dose-surface histograms (DSHs) were generated and their performances were quantified. The expert ensembles performed better than or equally as well as the full ensembles. The area under the ROC curve for the DSM-based expert ensemble was 0.64. The area under the ROC curve for the DSH-based expert ensemble equalled 0.59. This difference in performance indicates that not only volumetric, but also morphological aspects of the dose distribution are correlated to rectal bleeding after radiotherapy. Thus, the shape of the dose

  10. The Effects of Breeding Systems on Genetic Architecture

    OpenAIRE

    Dolgin, Elie

    2008-01-01

    Differences in reproductive strategies are a major factor influencing the patterns of genetic variability. Inbreeding and other non-recombining breeding systems can have profound effects on the efficacy of natural selection, which should be manifested in the patterns of genetic diversity within and between species. The impact of an organism’s breeding system can be investigated through a number of approaches. In this thesis, I use mathematical modelling, computer simulations, ...

  11. Integrating mapping-, assembly- and haplotype-based approaches for calling variants in clinical sequencing applications.

    Science.gov (United States)

    Rimmer, Andy; Phan, Hang; Mathieson, Iain; Iqbal, Zamin; Twigg, Stephen R F; Wilkie, Andrew O M; McVean, Gil; Lunter, Gerton

    2014-08-01

    High-throughput DNA sequencing technology has transformed genetic research and is starting to make an impact on clinical practice. However, analyzing high-throughput sequencing data remains challenging, particularly in clinical settings where accuracy and turnaround times are critical. We present a new approach to this problem, implemented in a software package called Platypus. Platypus achieves high sensitivity and specificity for SNPs, indels and complex polymorphisms by using local de novo assembly to generate candidate variants, followed by local realignment and probabilistic haplotype estimation. It is an order of magnitude faster than existing tools and generates calls from raw aligned read data without preprocessing. We demonstrate the performance of Platypus in clinically relevant experimental designs by comparing with SAMtools and GATK on whole-genome and exome-capture data, by identifying de novo variation in 15 parent-offspring trios with high sensitivity and specificity, and by estimating human leukocyte antigen genotypes directly from variant calls. PMID:25017105

  12. A new approach for annotation of transposable elements using small RNA mapping.

    Science.gov (United States)

    El Baidouri, Moaine; Kim, Kyung Do; Abernathy, Brian; Arikit, Siwaret; Maumus, Florian; Panaud, Olivier; Meyers, Blake C; Jackson, Scott A

    2015-07-27

    Transposable elements (TEs) are mobile genomic DNA sequences found in most organisms. They so densely populate the genomes of many eukaryotic species that they are often the major constituents. With the rapid generation of many plant genome sequencing projects over the past few decades, there is an urgent need for improved TE annotation as a prerequisite for genome-wide studies. Analogous to the use of RNA-seq for gene annotation, we propose a new method for de novo TE annotation that uses as a guide 24 nt-siRNAs that are a part of TE silencing pathways. We use this new approach, called TASR (for Transposon Annotation using Small RNAs), for de novo annotation of TEs in Arabidopsis, rice and soybean and demonstrate that this strategy can be successfully applied for de novo TE annotation in plants.Executable PERL is available for download from: http://tasr-pipeline.sourceforge.net/. PMID:25813049

  13. A Novel Approach for Identification of Hadoop Cloud Temporal Patterns Using Map Reduce

    Directory of Open Access Journals (Sweden)

    P.Srinivasa Rao

    2014-03-01

    Full Text Available Due to the latest developments in the area of science and Technology resulted in the developments of efficient data transfer, capability of handling huge data and the retrieval of data efficiently. Since the data that is stored is increasing voluminously, methods to retrieve relative information and security related concerns are to be addressed efficiently to secure this bulk data. Also with emerging concepts of big data, these security issues are a challenging task. This paper addresses the issue of secure data transfer using the concepts of data mining in cloud environment using hadoop mapreduce. Based on the experimentation done results are analyzed and represented with respect to time and space complexity when compared hadoop with non hadoop approach.

  14. Geovisualization Approaches for Spatio-temporal Crime Scene Analysis - Towards 4D Crime Mapping

    Science.gov (United States)

    Wolff, Markus; Asche, Hartmut

    This paper presents a set of methods and techniques for analysis and multidimensional visualisation of crime scenes in a German city. As a first step the approach implies spatio-temporal analysis of crime scenes. Against this background a GIS-based application is developed that facilitates discovering initial trends in spatio-temporal crime scene distributions even for a GIS untrained user. Based on these results further spatio-temporal analysis is conducted to detect variations of certain hotspots in space and time. In a next step these findings of crime scene analysis are integrated into a geovirtual environment. Behind this background the concept of the space-time cube is adopted to allow for visual analysis of repeat burglary victimisation. Since these procedures require incorporating temporal elements into virtual 3D environments, basic methods for 4D crime scene visualisation are outlined in this paper.

  15. A fast approach to generate large-scale topographic maps based on new Chinese vehicle-borne Lidar system

    International Nuclear Information System (INIS)

    Large -scale topographic maps are important basic information for city and regional planning and management. Traditional large- scale mapping methods are mostly based on artificial mapping and photogrammetry. The traditional mapping method is inefficient and limited by the environments. While the photogrammetry methods(such as low-altitude aerial mapping) is an economical and effective way to map wide and regulate range of large scale topographic map but doesn't work well in the small area due to the high cost of manpower and resources. Recent years, the vehicle-borne LIDAR technology has a rapid development, and its application in surveying and mapping is becoming a new topic. The main objective of this investigation is to explore the potential of vehicle-borne LIDAR technology to be used to fast mapping large scale topographic maps based on new Chinese vehicle-borne LIDAR system. It studied how to use the new Chinese vehicle-borne LIDAR system measurement technology to map large scale topographic maps. After the field data capture, it can be mapped in the office based on the LIDAR data (point cloud) by software which programmed by ourselves. In addition, the detailed process and accuracy analysis were proposed by an actual case. The result show that this new technology provides a new fast method to generate large scale topographic maps, which is high efficient and accuracy compared to traditional methods

  16. A Student-centred Approach: Assessing the Changes in Prospective Science Teachers' Conceptual Understanding by Concept Mapping in a General Chemistry Laboratory

    Science.gov (United States)

    Kaya, Osman Nafiz

    2008-01-01

    Although researchers in higher education propose alternatives to traditional approaches to assessment, traditional methods are commonly used in college or university science courses. The purpose of this study was to explore the feasibility and validity of Prospective Science Teachers’ (PSTs) concept maps as authentic assessment tools in a student-centred approach to describe the changes in the conceptual understanding of the PSTs in general chemistry laboratory investigations. After the PSTs ( n = 47) decided on important issues, such as who would assess their concept maps and what scoring strategy and criteria would be used, they practiced assessing their own and peers’ concept maps during the first five laboratory investigations. They subsequently constructed and assessed pre- and post-laboratory concept maps in a student-centred approach consisting of self, peer, and instructor assessments for the five remaining laboratory investigations. The results of the study showed using pre- and post-laboratory concept maps as authentic assessment tools in a student-centred approach was valid and reliable for describing the conceptual understanding of the PSTs in a university general chemistry laboratory course. The results of individual interviews indicated most PSTs had positive views of their assessment practices in the laboratory course. This study also provides pedagogical implications for the training of science teachers.

  17. Mutation breeding of ornamental plants

    Energy Technology Data Exchange (ETDEWEB)

    Yamaguchi, Takashi

    1988-03-01

    The outline of registered ornamental cultivars bred up by mutation breeding, the applied methods, and the radiosensitivity of air-dried seeds among ornamental plants are described. The mutation breeding of ornamental plants has not yet become a familiar means like cross breeding or line separation. But the number of the cultivars bred up by mutation breeding reached more than 270, and took a relatively large proportion of about 40 % of the agronomic cultivars bred up by mutation breeding in the world. The number of the species to which those improved cultivars belong is only 22. Considering the abundance of ornamental plant species and the successful results of mutation breeding in this field, mutation breeding techniques will be applied to many species which remain in the rudimentary stage or have never tried them. It is hoped that the information presented in this paper contributes to the promising future of ornamental plant breeding as the suggestion. Especially in ornamental plants, many spontaneously occurred novel mutants have been sought and treasured for a long time. Such mutants actually enriched the variety of flower colors, shapes and many other important characters required for being ornamentally valuable. (Kako, I.).

  18. Over-breeding

    International Nuclear Information System (INIS)

    The Greenhouse Effect has fuzzy parameters, as do the consequences of acid rain, accidental nuclear fallout, deforestation, even the depletion of oil and natural gas reserves, and other threatening calamities. But the consequences of human over-breeding do not fall within fuzzy parameters. Reliable demographic studies predict a world population by the year 2020 of twice the present four billion or so living human beings. Some of us will see that year. But the population will again have doubled by the year 2090: sixteen billion people. The author suggests in this paper some morally permissible steps that might be taken to circumvent what otherwise is most assuredly an impending world tragedy. We have an ethical obligation to future generations. They have the moral right to a qualitatively fulfilling life, not just on allotted number of years. Some of my suggestions will not be palatable to some readers. But I urge those readers seriously to consider and if possible, hopefully, to propose alternatives

  19. A multisource approach for coastline mapping and identification of shoreline changes

    Directory of Open Access Journals (Sweden)

    A. Zaccagnino

    2006-06-01

    Full Text Available Coastal dynamics are driven by phenomena of exogenous and endogenous nature. Characterizing factors that influence their equilibrium and continuous monitoring are fundamental for effective environmental planning and management of coastal areas. In order to monitor shoreline changes, we developed a methodology based on a multisource and multitemporal approach. A database, related to the Ionian coast of Basilicata region (about 50 km, was implemented by using cartographic data (IGMI data, satellite imagery (SPOT-PX/XS, Landsat-TM, Corona and aerial data covering the period form 1949 to 2001. In particular, airborne data (1 m spatial resolution were acquired during a specific campaign we performed in 2000 and 2001. To obtain the best performance from the available data, we applied a data fusion procedure on visible and thermal information. Different algorithms were tested, such as band ratios and clustering for extracting the coastline. The best results from multispectral data were obtained using a threshold algorithm we devised by exploiting the green, red and NIR bands, whereas for panchromatic data we selected clustering as the more suitable method. Moreover, a GPS survey was performed to evaluate the influence of tidal effects.

  20. Mapping the Similarities of Spectra: Global and Locally-biased Approaches to SDSS Galaxy Data

    CERN Document Server

    Lawlor, David; Mahoney, Michael W

    2016-01-01

    We apply a novel spectral graph technique, that of locally-biased semi-supervised eigenvectors, to study the diversity of galaxies. This technique permits us to characterize empirically the natural variations in observed spectra data, and we illustrate how this approach can be used in an exploratory manner to highlight both large-scale global as well as small-scale local structure in Sloan Digital Sky Survey (SDSS) data. We use this method in a way that simultaneously takes into account the measurements of spectral lines as well as the continuum shape. Unlike Principal Component Analysis, this method does not assume that the Euclidean distance between galaxy spectra is a good global measure of similarity between all spectra, but instead it only assumes that local difference information between similar spectra is reliable. Moreover, unlike other nonlinear dimensionality methods, this method can be used to characterize very finely both small-scale local as well as large-scale global properties of realistic nois...