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Sample records for model legume building

  1. The model legume genomes

    USDA-ARS?s Scientific Manuscript database

    The primary model legumes to-date have been Medicago truncatula and Lotus japonicus. Both species are tractable both genetically and in the greenhouse, and for both, a substantial sets of tools and resources for molecular genetic research have been assembled. As sequencing costs have declined, howev...

  2. LegumeIP: an integrative database for comparative genomics and transcriptomics of model legumes.

    PubMed

    Li, Jun; Dai, Xinbin; Liu, Tingsong; Zhao, Patrick Xuechun

    2012-01-01

    Legumes play a vital role in maintaining the nitrogen cycle of the biosphere. They conduct symbiotic nitrogen fixation through endosymbiotic relationships with bacteria in root nodules. However, this and other characteristics of legumes, including mycorrhization, compound leaf development and profuse secondary metabolism, are absent in the typical model plant Arabidopsis thaliana. We present LegumeIP (http://plantgrn.noble.org/LegumeIP/), an integrative database for comparative genomics and transcriptomics of model legumes, for studying gene function and genome evolution in legumes. LegumeIP compiles gene and gene family information, syntenic and phylogenetic context and tissue-specific transcriptomic profiles. The database holds the genomic sequences of three model legumes, Medicago truncatula, Glycine max and Lotus japonicus plus two reference plant species, A. thaliana and Populus trichocarpa, with annotations based on UniProt, InterProScan, Gene Ontology and the Kyoto Encyclopedia of Genes and Genomes databases. LegumeIP also contains large-scale microarray and RNA-Seq-based gene expression data. Our new database is capable of systematic synteny analysis across M. truncatula, G. max, L. japonicas and A. thaliana, as well as construction and phylogenetic analysis of gene families across the five hosted species. Finally, LegumeIP provides comprehensive search and visualization tools that enable flexible queries based on gene annotation, gene family, synteny and relative gene expression.

  3. Comparative metabolomics of drought acclimation in model and forage legumes.

    PubMed

    Sanchez, Diego H; Schwabe, Franziska; Erban, Alexander; Udvardi, Michael K; Kopka, Joachim

    2012-01-01

    Water limitation has become a major concern for agriculture. Such constraints reinforce the urgent need to understand mechanisms by which plants cope with water deprivation. We used a non-targeted metabolomic approach to explore plastic systems responses to non-lethal drought in model and forage legume species of the Lotus genus. In the model legume Lotus. japonicus, increased water stress caused gradual increases of most of the soluble small molecules profiled, reflecting a global and progressive reprogramming of metabolic pathways. The comparative metabolomic approach between Lotus species revealed conserved and unique metabolic responses to drought stress. Importantly, only few drought-responsive metabolites were conserved among all species. Thus we highlight a potential impediment to translational approaches that aim to engineer traits linked to the accumulation of compatible solutes. Finally, a broad comparison of the metabolic changes elicited by drought and salt acclimation revealed partial conservation of these metabolic stress responses within each of the Lotus species, but only few salt- and drought-responsive metabolites were shared between all. The implications of these results are discussed with regard to the current insights into legume water stress physiology.

  4. Small RNA pathways and diversity in model legumes: lessons from genomics

    PubMed Central

    Bustos-Sanmamed, Pilar; Bazin, Jérémie; Hartmann, Caroline; Crespi, Martin; Lelandais-Brière, Christine

    2013-01-01

    Small non-coding RNAs (smRNA) participate in the regulation of development, cell differentiation, adaptation to environmental constraints and defense responses in plants. They negatively regulate gene expression by degrading specific mRNA targets, repressing their translation or modifying chromatin conformation through homologous interaction with target loci. MicroRNAs (miRNA) and short-interfering RNAs (siRNA) are generated from long double stranded RNA (dsRNA) that are cleaved into 20–24-nucleotide dsRNAs by RNase III proteins called DICERs (DCL). One strand of the duplex is then loaded onto effective complexes containing different ARGONAUTE (AGO) proteins. In this review, we explored smRNA diversity in model legumes and compiled available data from miRBAse, the miRNA database, and from 22 reports of smRNA deep sequencing or miRNA identification genome-wide in three legumes: Medicago truncatula, soybean (Glycine max) and Lotus japonicus. In addition to conserved miRNAs present in other plant species, 229, 179, and 35 novel miRNA families were identified respectively in these 3 legumes, among which several seems legume-specific. New potential functions of several miRNAs in the legume-specific nodulation process are discussed. Furthermore, a new category of siRNA, the phased siRNAs, which seems to mainly regulate disease-resistance genes, was recently discovered in legumes. Despite that the genome sequence of model legumes are not yet fully completed, further analysis was performed by database mining of gene families and protein characteristics of DCLs and AGOs in these genomes. Although most components of the smRNA pathways are conserved, identifiable homologs of key smRNA players from non-legumes, like AGO10 or DCL4, could not yet be detected in M. truncatula available genomic and expressed sequence (EST) databases. In contrast to Arabidopsis, an important gene diversification was observed in the three legume models (for DCL2, AGO4, AGO2, and AGO10) or

  5. Genotype delimitation in the Nod-independent model legume Aeschynomene evenia.

    PubMed

    Arrighi, Jean-François; Cartieaux, Fabienne; Chaintreuil, Clémence; Brown, Spencer; Boursot, Marc; Giraud, Eric

    2013-01-01

    Research on the nitrogen-fixing symbiosis has been so far focused on two model legumes, Medicago truncatula and Lotus japonicus, which use a sophisticated infection process involving infection thread formation. However, in 25% of the legumes, the bacterial entry occurs more simply in an intercellular fashion. Among them, some semi-aquatic Aeschynomene species present the distinctive feature to form nitrogen-fixing nodules on both roots and stems following elicitation by photosynthetic bradyrhizobia that do not produce Nod factors. This interaction is believed to represent a living testimony of the ancestral state of the rhizobium-legume symbiosis. To decipher the molecular mechanisms of this unique Nod-independent nitrogen-fixing symbiosis, we previously identified A. evenia C. Wright as an appropriate model legume, because it displays all the requisites for molecular and genetic approaches. To advance the use of this new model legume species, here we characterized the intraspecific diversity found in A. evenia. For this, the accessions available in germplasm banks were collected and subjected to morphological investigations, genotyping with RAPD and SSR markers, molecular phylogenies using ITS and single nuclear gene sequences, and cross-compatibility tests. These combined analyses revealed an important intraspecific differentiation that led us to propose a new taxonomic classification for A. evenia comprising two subspecies and four varieties. The A. evenia ssp. evenia contains var. evenia and var. pauciciliata whereas A. evenia ssp. serrulata comprises var. serrulata and var. major. This study provides information to exploit efficiently the diversity encountered in A. evenia and proposes subsp. evenia as the most appropriate subspecies for future projects aimed at identifying plant determinants of the Nod-independent symbiotic process.

  6. Genotype Delimitation in the Nod-Independent Model Legume Aeschynomene evenia

    PubMed Central

    Arrighi, Jean-François; Cartieaux, Fabienne; Chaintreuil, Clémence; Brown, Spencer; Boursot, Marc; Giraud, Eric

    2013-01-01

    Research on the nitrogen-fixing symbiosis has been so far focused on two model legumes, Medicago truncatula and Lotus japonicus, which use a sophisticated infection process involving infection thread formation. However, in 25% of the legumes, the bacterial entry occurs more simply in an intercellular fashion. Among them, some semi-aquatic Aeschynomene species present the distinctive feature to form nitrogen-fixing nodules on both roots and stems following elicitation by photosynthetic bradyrhizobia that do not produce Nod factors. This interaction is believed to represent a living testimony of the ancestral state of the rhizobium-legume symbiosis. To decipher the molecular mechanisms of this unique Nod-independent nitrogen-fixing symbiosis, we previously identified A. evenia C. Wright as an appropriate model legume, because it displays all the requisites for molecular and genetic approaches. To advance the use of this new model legume species, here we characterized the intraspecific diversity found in A. evenia. For this, the accessions available in germplasm banks were collected and subjected to morphological investigations, genotyping with RAPD and SSR markers, molecular phylogenies using ITS and single nuclear gene sequences, and cross-compatibility tests. These combined analyses revealed an important intraspecific differentiation that led us to propose a new taxonomic classification for A. evenia comprising two subspecies and four varieties. The A. evenia ssp. evenia contains var. evenia and var. pauciciliata whereas A. evenia ssp. serrulata comprises var. serrulata and var. major. This study provides information to exploit efficiently the diversity encountered in A. evenia and proposes subsp. evenia as the most appropriate subspecies for future projects aimed at identifying plant determinants of the Nod-independent symbiotic process. PMID:23717496

  7. Genomic survey, gene expression analysis and structural modeling suggest diverse roles of DNA methyltransferases in legumes.

    PubMed

    Garg, Rohini; Kumari, Romika; Tiwari, Sneha; Goyal, Shweta

    2014-01-01

    DNA methylation plays a crucial role in development through inheritable gene silencing. Plants possess three types of DNA methyltransferases (MTases), namely Methyltransferase (MET), Chromomethylase (CMT) and Domains Rearranged Methyltransferase (DRM), which maintain methylation at CG, CHG and CHH sites. DNA MTases have not been studied in legumes so far. Here, we report the identification and analysis of putative DNA MTases in five legumes, including chickpea, soybean, pigeonpea, Medicago and Lotus. MTases in legumes could be classified in known MET, CMT, DRM and DNA nucleotide methyltransferases (DNMT2) subfamilies based on their domain organization. First three MTases represent DNA MTases, whereas DNMT2 represents a transfer RNA (tRNA) MTase. Structural comparison of all the MTases in plants with known MTases in mammalian and plant systems have been reported to assign structural features in context of biological functions of these proteins. The structure analysis clearly specified regions crucial for protein-protein interactions and regions important for nucleosome binding in various domains of CMT and MET proteins. In addition, structural model of DRM suggested that circular permutation of motifs does not have any effect on overall structure of DNA methyltransferase domain. These results provide valuable insights into role of various domains in molecular recognition and should facilitate mechanistic understanding of their function in mediating specific methylation patterns. Further, the comprehensive gene expression analyses of MTases in legumes provided evidence of their role in various developmental processes throughout the plant life cycle and response to various abiotic stresses. Overall, our study will be very helpful in establishing the specific functions of DNA MTases in legumes.

  8. Differences in Crenate Broomrape Parasitism Dynamics on Three Legume Crops Using a Thermal Time Model

    PubMed Central

    Pérez-de-Luque, Alejandro; Flores, Fernando; Rubiales, Diego

    2016-01-01

    Root parasitic weeds are a major limiting production factor in a number of crops, and control is difficult. Genetic resistance and chemical control lead the fight, but without unequivocal success. Models that help to describe and even predict the evolution of parasitism underground are a valuable tool for herbicide applications, and even could help in breeding programs. Legumes are heavily affected by Orobanche crenata (crenate broomrape) in the Mediterranean basin. This work presents a descriptive model based on thermal time and correlating growing degree days (GDD) with the different developmental stages of the parasite. The model was developed in three different legume crops (faba bean, grass pea and lentil) attacked by crenate broomrape. The developmental stages of the parasite strongly correlated with the GDD and differences were found depending on the host crop. PMID:28018421

  9. SUSY GUT Model Building

    SciTech Connect

    Raby, Stuart

    2008-11-23

    In this talk I discuss the evolution of SUSY GUT model building as I see it. Starting with 4 dimensional model building, I then consider orbifold GUTs in 5 dimensions and finally orbifold GUTs embedded into the E{sub 8}xE{sub 8} heterotic string.

  10. MtDB: a database for personalized data mining of the model legume Medicago truncatula transcriptome.

    PubMed

    Lamblin, Anne-Françoise J; Crow, John A; Johnson, James E; Silverstein, Kevin A T; Kunau, Timothy M; Kilian, Alan; Benz, Diane; Stromvik, Martina; Endré, Gabriella; VandenBosch, Kathryn A; Cook, Douglas R; Young, Nevin D; Retzel, Ernest F

    2003-01-01

    In order to identify the genes and gene functions that underlie key aspects of legume biology, researchers have selected the cool season legume Medicago truncatula (Mt) as a model system for legume research. A set of >170 000 Mt ESTs has been assembled based on in-depth sampling from various developmental stages and pathogen-challenged tissues. MtDB is a relational database that integrates Mt transcriptome data and provides a wide range of user-defined data mining options. The database is interrogated through a series of interfaces with 58 options grouped into two filters. In addition, the user can select and compare unigene sets generated by different assemblers: Phrap, Cap3 and Cap4. Sequence identifiers from all public Mt sites (e.g. IDs from GenBank, CCGB, TIGR, NCGR, INRA) are fully cross-referenced to facilitate comparisons between different sites, and hypertext links to the appropriate database records are provided for all queries' results. MtDB's goal is to provide researchers with the means to quickly and independently identify sequences that match specific research interests based on user-defined criteria. The underlying database and query software have been designed for ease of updates and portability to other model organisms. Public access to the database is at http://www.medicago.org/MtDB.

  11. The proteome of seed development in the model legume Lotus japonicus.

    PubMed

    Dam, Svend; Laursen, Brian S; Ornfelt, Jane H; Jochimsen, Bjarne; Staerfeldt, Hans Henrik; Friis, Carsten; Nielsen, Kasper; Goffard, Nicolas; Besenbacher, Søren; Krusell, Lene; Sato, Shusei; Tabata, Satoshi; Thøgersen, Ida B; Enghild, Jan J; Stougaard, Jens

    2009-03-01

    We have characterized the development of seeds in the model legume Lotus japonicus. Like soybean (Glycine max) and pea (Pisum sativum), Lotus develops straight seed pods and each pod contains approximately 20 seeds that reach maturity within 40 days. Histological sections show the characteristic three developmental phases of legume seeds and the presence of embryo, endosperm, and seed coat in desiccated seeds. Furthermore, protein, oil, starch, phytic acid, and ash contents were determined, and this indicates that the composition of mature Lotus seed is more similar to soybean than to pea. In a first attempt to determine the seed proteome, both a two-dimensional polyacrylamide gel electrophoresis approach and a gel-based liquid chromatography-mass spectrometry approach were used. Globulins were analyzed by two-dimensional polyacrylamide gel electrophoresis, and five legumins, LLP1 to LLP5, and two convicilins, LCP1 and LCP2, were identified by matrix-assisted laser desorption ionization quadrupole/time-of-flight mass spectrometry. For two distinct developmental phases, seed filling and desiccation, a gel-based liquid chromatography-mass spectrometry approach was used, and 665 and 181 unique proteins corresponding to gene accession numbers were identified for the two phases, respectively. All of the proteome data, including the experimental data and mass spectrometry spectra peaks, were collected in a database that is available to the scientific community via a Web interface (http://www.cbs.dtu.dk/cgi-bin/lotus/db.cgi). This database establishes the basis for relating physiology, biochemistry, and regulation of seed development in Lotus. Together with a new Web interface (http://bioinfoserver.rsbs.anu.edu.au/utils/PathExpress4legumes/) collecting all protein identifications for Lotus, Medicago, and soybean seed proteomes, this database is a valuable resource for comparative seed proteomics and pathway analysis within and beyond the legume family.

  12. Quantitative trait locus analysis of symbiotic nitrogen fixation activity in the model legume Lotus japonicus.

    PubMed

    Tominaga, Akiyoshi; Gondo, Takahiro; Akashi, Ryo; Zheng, Shao-Hui; Arima, Susumu; Suzuki, Akihiro

    2012-05-01

    Many legumes form nitrogen-fixing root nodules. An elevation of nitrogen fixation in such legumes would have significant implications for plant growth and biomass production in agriculture. To identify the genetic basis for the regulation of nitrogen fixation, quantitative trait locus (QTL) analysis was conducted with recombinant inbred lines derived from the cross Miyakojima MG-20 × Gifu B-129 in the model legume Lotus japonicus. This population was inoculated with Mesorhizobium loti MAFF303099 and grown for 14 days in pods containing vermiculite. Phenotypic data were collected for acetylene reduction activity (ARA) per plant (ARA/P), ARA per nodule weight (ARA/NW), ARA per nodule number (ARA/NN), NN per plant, NW per plant, stem length (SL), SL without inoculation (SLbac-), shoot dry weight without inoculation (SWbac-), root length without inoculation (RLbac-), and root dry weight (RWbac-), and finally 34 QTLs were identified. ARA/P, ARA/NN, NW, and SL showed strong correlations and QTL co-localization, suggesting that several plant characteristics important for symbiotic nitrogen fixation are controlled by the same locus. QTLs for ARA/P, ARA/NN, NW, and SL, co-localized around marker TM0832 on chromosome 4, were also co-localized with previously reported QTLs for seed mass. This is the first report of QTL analysis for symbiotic nitrogen fixation activity traits.

  13. Identification of nutrient and physical seed trait QTL in the model legume Lotus japonicus.

    PubMed

    Klein, Melinda A; Grusak, Michael A

    2009-08-01

    Legume seeds have the potential to provide a significant portion of essential micronutrients to the human diet. To identify the genetic basis for seed nutrient density, quantitative trait locus (QTL) analysis was conducted with the Miyakojima MG-20 x Gifu B-129 recombinant inbred population from the model legume Lotus japonicus. This population was grown to seed under greenhouse conditions in 2006 and 2007. Phenotypic data were collected for seed calcium (Ca), copper (Cu), iron (Fe), potassium (K), magnesium (Mg), manganese (Mn), phosphorus (P), sulfur (S), and zinc (Zn) concentrations and content. Data for physical seed traits (average seed mass and seed-pod allocation values) were also collected. Based on these phenotypic data, QTL analyses identified 103 QTL linked to 55 different molecular markers. Transgressive segregation, identified within this recombinant inbred population for both seed nutrient and physical traits, suggests new allelic combinations are available for agronomic trait improvement. QTL co-localization was also seen, suggesting that common transport processes might contribute to seed nutrient loading. Identification of loci involved in seed mineral density can be an important first step in identifying the genetic factors and, consequently, the physiological processes involved in mineral distribution to developing seeds. Longer term research efforts will focus on facilitating agronomic breeding efforts through ortholog identification in related crop legumes.

  14. A simple model for pollen-parent fecundity distributions in bee-pollinated forage legume polycrosses.

    PubMed

    Riday, Heathcliffe; Smith, Mark A; Peel, Michael D

    2015-09-01

    A simple Weibull distribution based empirical model that predicts pollen-parent fecundity distributions based on polycross size alone has been developed in outbred forage legume species for incorporation into quantitative genetic theory. Random mating or panmixis is a fundamental assumption in quantitative genetic theory. Random mating is sometimes thought to occur in actual fact, although a large body of empirical work shows that this is often not the case in nature. Models have been developed to explain many non-random mating phenomena. This paper measured pollen-parent fecundity distributions among outbred perennial forage legume species [autotetraploid alfalfa (Medicago sativa L.), autohexaploid kura clover (Trifolium ambiguum M. Bieb.), and diploid red clover (Trifolium pratense L.)] in ten polycrosses ranging in size (N) from 9 to 94 pollinated with bee pollinators [Bumble Bees (Bombus impatiens Cr.) and leafcutter bees (Megachile rotundata F.)]. A Weibull distribution best fit the observed pollen-parent fecundity distributions. After standardizing data among the 10 polycrosses, a single Weibull distribution-based model was obtained with an R (2) of 0.978. The model is able to predict pollen-parent fecundity distributions based on polycross size alone. The model predicts that the effective polycross size will be approximately 9 % smaller than under random mating (i.e., N e/N ~ 0.91). The model is simple and can easily be incorporated into other models or simulations requiring a pollen-parent fecundity distribution. Further work is needed to determine how widely applicable the model is.

  15. Identification of QTL affecting seed mineral concentrations and content in the model legume Medicago truncatula.

    PubMed

    Sankaran, Renuka P; Huguet, Thierry; Grusak, Michael A

    2009-07-01

    Increasing the amount of bioavailable micronutrients such as iron and zinc in plant foods for human consumption is an international goal, intended especially for developing countries where micronutrient deficiencies are an ongoing health risk. Legume seeds have the potential to provide the essential nutrients required by humans, but concentrations of several minerals are low when compared to other foods. In order to increase seed mineral concentrations, it is important to understand the genes and processes involved in mineral distribution within the plant. The main objectives of this study were to use a Medicago truncatula recombinant inbred population (Jemalong-6 x DZA 315.16) to determine loci governing seed mineral concentrations, seed mineral content, and average seed weight, and to use these loci to propose candidate genes whose expression might contribute to these traits. Ninety-three lines in 2004 and 169 lines in 2006 were grown for seed harvest and subsequent analysis of seed Ca, Cu, Fe, K, Mg, Mn, P, and Zn concentrations and content. Quantitative trait loci (QTL) cartographer was used to identify QTL using composite interval mapping (CIM). CIM identified 46 QTL for seed mineral concentration, 26 for seed mineral content, and 3 for average seed weight. At least one QTL was detected for each mineral trait, and colocation of QTL for several minerals was found in both years. Results comparing seed weight with seed mineral concentration and content QTL demonstrate that seed size can be an important determinant of seed mineral concentration. The identification, in this model legume, of transgressive segregation for nearly all the minerals suggests that allelic recombination of relevant mineral-related genes in agronomic legumes could be a successful strategy to increase seed mineral concentrations above current levels.

  16. Complex dynamics in a carbon-nitrogen model of a grass-legume pasture.

    PubMed

    Thornley, J H; Bergelson, J; Parsons, A J

    1995-01-01

    A physiologically based model of a grass-legume pasture is used to study the dynamics of these competing species. In our model, we consider carbon and nitrogen pools and fluxes, incorporating competition for light and soil mineral nitrogen, and including the processes of nitrogen fixation, nitrogen losses and dry matter allocation. First, the steadystate responses of each species to nitrogen deposition, to leaching rate, and to other nitrogen losses are examined. We then consider the dynamic behaviour of these species when there is no time delay for nitrogen cycled through the soil organic matter pool. Next, the effects of various time delays associated with the soil organic matter nitrogen pool on the system dynamics are examined: the behaviour becomes complex, non-linear and exhibits lightly or heavily damped oscillations at two frequencies. The high sensitivity of the system both to the initial value of the soil organic matter nitrogen pool, and to any photosynthetic competitive advantage, is investigated. The implications of these results in relation to observations and experiments on grass-legume pastures are discussed.

  17. Aeschynomene evenia, a model plant for studying the molecular genetics of the nod-independent rhizobium-legume symbiosis.

    PubMed

    Arrighi, Jean-François; Cartieaux, Fabienne; Brown, Spencer C; Rodier-Goud, Marguerite; Boursot, Marc; Fardoux, Joel; Patrel, Delphine; Gully, Djamel; Fabre, Sandrine; Chaintreuil, Clémence; Giraud, Eric

    2012-07-01

    Research on the nitrogen-fixing symbiosis has been focused, thus far, on two model legumes, Medicago truncatula and Lotus japonicus, which use a sophisticated infection process involving infection thread formation. However, in 25% of the legumes, the bacterial entry occurs more simply in an intercellular fashion. Among them, some Aeschynomene spp. are nodulated by photosynthetic Bradyrhizobium spp. that do not produce Nod factors. This interaction is believed to represent a living testimony of the ancestral state of the rhizobium-legume symbiosis. To decipher the mechanisms of this Nod-independent process, we propose Aeschynomene evenia as a model legume because it presents all the characteristics required for genetic and molecular analysis. It is a short-perennial and autogamous species, with a diploid and relatively small genome (2n=20; 460 Mb/1C). A. evenia 'IRFL6945' is nodulated by the well-characterized photosynthetic Bradyrhizobium sp. strain ORS278 and is efficiently transformed by Agrobacterium rhizogenes. Aeschynomene evenia is genetically homozygous but polymorphic accessions were found. A manual hybridization procedure has been set up, allowing directed crosses. Therefore, it should be relatively straightforward to unravel the molecular determinants of the Nod-independent process in A. evenia. This should shed new light on the evolution of rhizobium-legume symbiosis and could have important agronomic implications.

  18. From embryo sac to oil and protein bodies: embryo development in the model legume Medicago truncatula.

    PubMed

    Wang, Xin-Ding; Song, Youhong; Sheahan, Michael B; Garg, Manohar L; Rose, Ray J

    2012-01-01

    • The cell and developmental biology of zygotic embryogenesis in the model legume Medicago truncatula has received little attention. We studied M. truncatula embryogenesis from embryo sac until cotyledon maturation, including oil and protein body biogenesis. • We characterized embryo development using light and electron microscopy, measurement of protein and lipid fatty acid accumulation and by profiling the expression of key seed storage genes. • Embryo sac development in M. truncatula is of the Polygonum type. A distinctive multicellular hypophysis and suspensor develops before the globular stage and by the early cotyledon stage, the procambium connects the developing apical meristems. In the storage parenchyma of cotyledons, ovoid oil bodies surround protein bodies and the plasma membrane. Four major lipid fatty acids accumulate as cotyledons develop, paralleling the expression of OLEOSIN and the storage protein genes, VICILIN and LEGUMIN. • Zygotic embryogenesis in M. truncatula features the development of a distinctive multicellular hypophysis and an endopolyploid suspensor with basal transfer cell. A clear procambial connection between the apical meristems is evident and there is a characteristic arrangement of oil bodies in the cotyledons and radicle. Our data help link embryogenesis to the genetic regulation of oil and protein body biogenesis in legume seed.

  19. Hormonal regulation of reproductive growth under normal and heat-stress conditions in legume and other model crop species.

    PubMed

    Ozga, Jocelyn A; Kaur, Harleen; Savada, Raghavendra P; Reinecke, Dennis M

    2017-04-01

    Legume crops are grown throughout the world and provide an excellent food source of digestible protein and starch, as well as dietary fibre, vitamins, minerals, and flavonoids. Fruit and seeds from legumes are also an important source of vegetables for a well-balanced diet. A trend in elevated temperature as a result of climate change increases the risk of a heat stress-induced reduction in legume crop yield. High temperatures during the crop reproductive development phase are particularly detrimental to fruit/seed production because the growth and development of the reproductive tissues are sensitive to small changes in temperature. Hormones are signalling molecules that play important roles in a plant's ability to integrate different environmental inputs and modify their developmental processes to optimize growth, survival, and reproduction. This review focuses on the hormonal regulation of reproductive development and heat stress-induced alteration of this regulation during (i) pollination, (ii) early fruit set, and (iii) seed development that affects fruit/seed yield in legume and other model crops. Further understanding of hormone-regulated reproductive growth under non-stress and heat-stress conditions can aid in trait selection and the development of gene modification strategies and cultural practices to improve heat tolerance in legume crops contributing to improved food security. © The Author 2016. Published by Oxford University Press on behalf of the Society for Experimental Biology. All rights reserved. For permissions, please email: journals.permissions@oup.com.

  20. Legume Diversity Patterns in West Central Africa: Influence of Species Biology on Distribution Models

    PubMed Central

    de la Estrella, Manuel; Mateo, Rubén G.; Wieringa, Jan J.; Mackinder, Barbara; Muñoz, Jesús

    2012-01-01

    Objectives Species Distribution Models (SDMs) are used to produce predictions of potential Leguminosae diversity in West Central Africa. Those predictions are evaluated subsequently using expert opinion. The established methodology of combining all SDMs is refined to assess species diversity within five defined vegetation types. Potential species diversity is thus predicted for each vegetation type respectively. The primary aim of the new methodology is to define, in more detail, areas of species richness for conservation planning. Methodology Using Maxent, SDMs based on a suite of 14 environmental predictors were generated for 185 West Central African Leguminosae species, each categorised according to one of five vegetation types: Afromontane, coastal, non-flooded forest, open formations, or riverine forest. The relative contribution of each environmental variable was compared between different vegetation types using a nonparametric Kruskal-Wallis analysis followed by a post-hoc Kruskal-Wallis Paired Comparison contrast. Legume species diversity patterns were explored initially using the typical method of stacking all SDMs. Subsequently, five different ensemble models were generated by partitioning SDMs according to vegetation category. Ecological modelers worked with legume specialists to improve data integrity and integrate expert opinion in the interpretation of individual species models and potential species richness predictions for different vegetation types. Results/Conclusions Of the 14 environmental predictors used, five showed no difference in their relative contribution to the different vegetation models. Of the nine discriminating variables, the majority were related to temperature variation. The set of variables that played a major role in the Afromontane species diversity model differed significantly from the sets of variables of greatest relative important in other vegetation categories. The traditional approach of stacking all SDMs indicated overall

  1. Legume diversity patterns in West Central Africa: influence of species biology on distribution models.

    PubMed

    de la Estrella, Manuel; Mateo, Rubén G; Wieringa, Jan J; Mackinder, Barbara; Muñoz, Jesús

    2012-01-01

    Species Distribution Models (SDMs) are used to produce predictions of potential Leguminosae diversity in West Central Africa. Those predictions are evaluated subsequently using expert opinion. The established methodology of combining all SDMs is refined to assess species diversity within five defined vegetation types. Potential species diversity is thus predicted for each vegetation type respectively. The primary aim of the new methodology is to define, in more detail, areas of species richness for conservation planning. Using Maxent, SDMs based on a suite of 14 environmental predictors were generated for 185 West Central African Leguminosae species, each categorised according to one of five vegetation types: Afromontane, coastal, non-flooded forest, open formations, or riverine forest. The relative contribution of each environmental variable was compared between different vegetation types using a nonparametric Kruskal-Wallis analysis followed by a post-hoc Kruskal-Wallis Paired Comparison contrast. Legume species diversity patterns were explored initially using the typical method of stacking all SDMs. Subsequently, five different ensemble models were generated by partitioning SDMs according to vegetation category. Ecological modelers worked with legume specialists to improve data integrity and integrate expert opinion in the interpretation of individual species models and potential species richness predictions for different vegetation types. Of the 14 environmental predictors used, five showed no difference in their relative contribution to the different vegetation models. Of the nine discriminating variables, the majority were related to temperature variation. The set of variables that played a major role in the Afromontane species diversity model differed significantly from the sets of variables of greatest relative important in other vegetation categories. The traditional approach of stacking all SDMs indicated overall centers of diversity in the region but the

  2. An experimental and modelling exploration of the host-sanction hypothesis in legume-rhizobia mutualism.

    PubMed

    Marco, Diana E; Carbajal, Juan P; Cannas, Sergio; Pérez-Arnedo, Rebeca; Hidalgo-Perea, Angeles; Olivares, José; Ruiz-Sainz, José E; Sanjuán, Juan

    2009-08-07

    Despite the importance of mutualism as a key ecological process, its persistence in nature is difficult to explain since the existence of exploitative, "cheating" partners that could erode the interaction is common. By analogy with the proposed policing strategy stabilizing intraspecific cooperation, host sanctions against non-N(2) fixing, cheating symbionts have been proposed as a force stabilizing mutualism in legume-Rhizobium symbiosis. Following this proposal, penalizations would include decreased nodular rhizobial viability and/or early nodule senescence in nodules occupied by cheating rhizobia. In this work, we analyse the stability of Rhizobium-legume symbiosis when non-fixing, cheating strains are present, using an experimental and modelling approach. We used split-root experiments with soybean plants inoculated with two rhizobial strains, a cooperative, normal N(2) fixing strain and an isogenic non-fixing, "perfect" cheating mutant derivative that lacks nitrogenase activity but has the same nodulation abilities inoculated to split-root plants. We found no experimental evidence of functioning plant host sanctions to cheater rhizobia based on nodular rhizobia viability and nodule senescence and maturity molecular markers. Based on these experiments, we developed a population dynamic model with and without the inclusion of plant host sanctions. We show that plant populations persist in spite of the presence of cheating rhizobia without the need of incorporating any sanction against the cheater populations in the model, under the realistic assumption that plants can at least get some amount of fixed N(2) from the effectively mutualistic rhizobia occupying some nodules. Inclusion of plant sanctions leads to the unrealistic effect of ultimate extinction of cheater strains in soil. Our simulation results are in agreement with increasing experimental evidence and theoretical work showing that mutualisms can persist in presence of cheating partners.

  3. Characterization of zinc transport by divalent metal transporters of the ZIP family from the model legume medicago truncatula

    USDA-ARS?s Scientific Manuscript database

    To understand how plants from the Fabaceae family maintain zinc (Zn) homeostasis, we have characterized the kinetics of the Zn transporting proteins from the ZIP family of divalent metal transporters in the model legume Medicago truncatula. MtZIP1, MtZIP5, and MtZIP6 were the only members from this ...

  4. Tannin containing legumes as a model for nutraceuticals against digestive parasites in livestock.

    PubMed

    Hoste, H; Torres-Acosta, J F J; Sandoval-Castro, C A; Mueller-Harvey, I; Sotiraki, S; Louvandini, H; Thamsborg, S M; Terrill, T H

    2015-08-15

    Parasitic infections with gastrointestinal nematodes (GINs) still represent a worldwide major pathological threat associated with the outdoor production of various livestock species. Because of the widespread resistance to synthetic chemical anthelmintics, there is a strong impetus to explore novel approaches for a more integrated management of these infections. The use of nutraceuticals in the control of GINs is one of the alternatives which has been widely studied for 20 years. The objectives of this review are: (i) to define and illustrate the concept of 'nutraceutical' in the context of veterinary parasitology based on data obtained on the most studied models to control GINs in small ruminants, the tannin-containing legumes (Fabaceae); (ii) to illustrate how the 'nutraceutical concept' could be expanded to other plants, other livestock production systems and other GI parasitic diseases, and (iii) to explain how this concept is opening up new research fields for better understanding the interactions between the host, the digestive parasites and the environment.

  5. A method for the isolation of root hairs from the model legume Medicago truncatula.

    PubMed

    Ramos, Javier; Bisseling, Ton

    2003-10-01

    A new method for the isolation of root hairs from the model legume, Medicago truncatula, was developed. The procedure involves the propagation of detached roots on agar plates and the collection of root hairs by immersion in liquid nitrogen. Yields of up to 40 micro g of root hair protein were obtained from 50-100 root tips grown for 3 weeks on a single plate. The high purity of the root hair fraction was monitored by western blot analysis using an antibody to the pea epidermis specific protein PsRH2. Sequence analyses revealed that the protein homologous to PsRH2 in M. truncatula, MtRH2, is identical to the root protein MtPR10-1. The MtRH2 protein proved to be a useful endogenous marker to monitor root hair isolation since it is also specifically expressed in the root epidermis.

  6. Building Models with Bayes

    NASA Astrophysics Data System (ADS)

    Hart, Gus; Nelson, Lance J.; Reese, Shane

    2011-10-01

    The whole of modern Bayesian statistical methods is founded on the simple idea of Bayes rule, stated by the Reverend Thomas Bayes, and presented in 1763. Bayes rule is merely a simple statement of conditional probablility but can be used to make strong inferences. However, the application of Bayes rule to all but the simplest problems requires significant computation. As a result, Baysian-based approaches have been largely impractical until high-speed computing became inexpensive in the recent in the last 20 years or so. We discuss the general idea behind Bayes rule, how to use it to build physical models, and illustrate the approach for a simple case of lattice gas models.

  7. Legume Information System (LegumeInfo.org): a key component of a set of federated data resources for the legume family

    USDA-ARS?s Scientific Manuscript database

    The Legume Information System (LIS), at http://legumeinfo.org, is a genomic data portal (GDP) for the legume family. LIS provides access to genetic and genomic information for major crop and model legumes. With more than two-dozen domesticated legume species, there are numerous specialists working o...

  8. An improved genome release (version Mt4.0) for the model legume Medicago truncatula

    PubMed Central

    2014-01-01

    Background Medicago truncatula, a close relative of alfalfa, is a preeminent model for studying nitrogen fixation, symbiosis, and legume genomics. The Medicago sequencing project began in 2003 with the goal to decipher sequences originated from the euchromatic portion of the genome. The initial sequencing approach was based on a BAC tiling path, culminating in a BAC-based assembly (Mt3.5) as well as an in-depth analysis of the genome published in 2011. Results Here we describe a further improved and refined version of the M. truncatula genome (Mt4.0) based on de novo whole genome shotgun assembly of a majority of Illumina and 454 reads using ALLPATHS-LG. The ALLPATHS-LG scaffolds were anchored onto the pseudomolecules on the basis of alignments to both the optical map and the genotyping-by-sequencing (GBS) map. The Mt4.0 pseudomolecules encompass ~360 Mb of actual sequences spanning 390 Mb of which ~330 Mb align perfectly with the optical map, presenting a drastic improvement over the BAC-based Mt3.5 which only contained 70% sequences (~250 Mb) of the current version. Most of the sequences and genes that previously resided on the unanchored portion of Mt3.5 have now been incorporated into the Mt4.0 pseudomolecules, with the exception of ~28 Mb of unplaced sequences. With regard to gene annotation, the genome has been re-annotated through our gene prediction pipeline, which integrates EST, RNA-seq, protein and gene prediction evidences. A total of 50,894 genes (31,661 high confidence and 19,233 low confidence) are included in Mt4.0 which overlapped with ~82% of the gene loci annotated in Mt3.5. Of the remaining genes, 14% of the Mt3.5 genes have been deprecated to an “unsupported” status and 4% are absent from the Mt4.0 predictions. Conclusions Mt4.0 and its associated resources, such as genome browsers, BLAST-able datasets and gene information pages, can be found on the JCVI Medicago web site (http://www.jcvi.org/medicago). The assembly and annotation has

  9. Integrative functional genomics of salt acclimatization in the model legume Lotus japonicus.

    PubMed

    Sanchez, Diego H; Lippold, Felix; Redestig, Henning; Hannah, Matthew A; Erban, Alexander; Krämer, Ute; Kopka, Joachim; Udvardi, Michael K

    2008-03-01

    The model legume Lotus japonicus was subjected to non-lethal long-term salinity and profiled at the ionomic, transcriptomic and metabolomic levels. Two experimental designs with various stress doses were tested: a gradual step acclimatization and an initial acclimatization approach. Ionomic profiling by inductively coupled plasma/atomic emission spectrometry (ICP-AES) revealed salt stress-induced reductions in potassium, phosphorus, sulphur, zinc and molybdenum. Microarray profiling using the Lotus Genechip allowed the identification of 912 probesets that were differentially expressed under the acclimatization regimes. Gas chromatography/mass spectrometry-based metabolite profiling identified 147 differentially accumulated soluble metabolites, indicating a change in metabolic phenotype upon salt acclimatization. Metabolic changes were characterized by a general increase in the steady-state levels of many amino acids, sugars and polyols, with a concurrent decrease in most organic acids. Transcript and metabolite changes exhibited a stress dose-dependent response within the range of NaCl concentrations used, although threshold and plateau behaviours were also observed. The combined observations suggest a successive and increasingly global requirement for the reprogramming of gene expression and metabolic pathways to maintain ionic and osmotic homeostasis. A simple qualitative model is proposed to explain the systems behaviour of plants during salt acclimatization.

  10. Transcriptomic and metabolic changes associated with photorespiratory ammonium accumulation in the model legume Lotus japonicus.

    PubMed

    Pérez-Delgado, Carmen M; García-Calderón, Margarita; Sánchez, Diego H; Udvardi, Michael K; Kopka, Joachim; Márquez, Antonio J; Betti, Marco

    2013-08-01

    The transcriptomic and metabolic consequences of the lack of plastidic glutamine (Gln) synthetase in the model legume Lotus japonicus were investigated. Wild-type and mutant plants lacking the plastidic isoform of Gln synthetase were grown in conditions that suppress photorespiration and then transferred for different lengths of time to photorespiratory conditions. Transcript and metabolite levels were determined at the different time points considered. Under photorespiratory active conditions, the mutant accumulated high levels of ammonium, followed by its subsequent decline. A coordinate repression of the photorespiratory genes was observed in the mutant background. This was part of a greater modulation of the transcriptome, especially in the mutant, that was paralleled by changes in the levels of several key metabolites. The data obtained for the mutant represent the first direct experimental evidence for a coordinate regulation of photorespiratory genes over time. Metabolomic analysis demonstrated that mutant plants under active photorespiratory conditions accumulated high levels of several amino acids and organic acids, including intermediates of the Krebs cycle. An increase in Gln levels was also detected in the mutant, which was paralleled by an increase in cytosolic Gln synthetase1 gene transcription and enzyme activity levels. The global panoramic of the transcripts and metabolites that changed in L. japonicus plants during the transfer from photorespiration-suppressed to photorespiration-active conditions highlighted the link between photorespiration and several other cellular processes, including central carbon metabolism, amino acid metabolism, and secondary metabolism.

  11. Exploring root symbiotic programs in the model legume Medicago truncatula using EST analysis.

    PubMed

    Journet, Etienne-Pascal; van Tuinen, Diederik; Gouzy, Jérome; Crespeau, Hervé; Carreau, Véronique; Farmer, Mary-Jo; Niebel, Andreas; Schiex, Thomas; Jaillon, Olivier; Chatagnier, Odile; Godiard, Laurence; Micheli, Fabienne; Kahn, Daniel; Gianinazzi-Pearson, Vivienne; Gamas, Pascal

    2002-12-15

    We report on a large-scale expressed sequence tag (EST) sequencing and analysis program aimed at characterizing the sets of genes expressed in roots of the model legume Medicago truncatula during interactions with either of two microsymbionts, the nitrogen-fixing bacterium Sinorhizobium meliloti or the arbuscular mycorrhizal fungus Glomus intraradices. We have designed specific tools for in silico analysis of EST data, in relation to chimeric cDNA detection, EST clustering, encoded protein prediction, and detection of differential expression. Our 21 473 5'- and 3'-ESTs could be grouped into 6359 EST clusters, corresponding to distinct virtual genes, along with 52 498 other M.truncatula ESTs available in the dbEST (NCBI) database that were recruited in the process. These clusters were manually annotated, using a specifically developed annotation interface. Analysis of EST cluster distribution in various M.truncatula cDNA libraries, supported by a refined R test to evaluate statistical significance and by 'electronic northern' representation, enabled us to identify a large number of novel genes predicted to be up- or down-regulated during either symbiotic root interaction. These in silico analyses provide a first global view of the genetic programs for root symbioses in M.truncatula. A searchable database has been built and can be accessed through a public interface.

  12. Lotus Base: An integrated information portal for the model legume Lotus japonicus

    PubMed Central

    Mun, Terry; Bachmann, Asger; Gupta, Vikas; Stougaard, Jens; Andersen, Stig U.

    2016-01-01

    Lotus japonicus is a well-characterized model legume widely used in the study of plant-microbe interactions. However, datasets from various Lotus studies are poorly integrated and lack interoperability. We recognize the need for a comprehensive repository that allows comprehensive and dynamic exploration of Lotus genomic and transcriptomic data. Equally important are user-friendly in-browser tools designed for data visualization and interpretation. Here, we present Lotus Base, which opens to the research community a large, established LORE1 insertion mutant population containing an excess of 120,000 lines, and serves the end-user tightly integrated data from Lotus, such as the reference genome, annotated proteins, and expression profiling data. We report the integration of expression data from the L. japonicus gene expression atlas project, and the development of tools to cluster and export such data, allowing users to construct, visualize, and annotate co-expression gene networks. Lotus Base takes advantage of modern advances in browser technology to deliver powerful data interpretation for biologists. Its modular construction and publicly available application programming interface enable developers to tap into the wealth of integrated Lotus data. Lotus Base is freely accessible at: https://lotus.au.dk. PMID:28008948

  13. Exploring root symbiotic programs in the model legume Medicago truncatula using EST analysis

    PubMed Central

    Journet, Etienne-Pascal; van Tuinen, Diederik; Gouzy, Jérome; Crespeau, Hervé; Carreau, Véronique; Farmer, Mary-Jo; Niebel, Andreas; Schiex, Thomas; Jaillon, Olivier; Chatagnier, Odile; Godiard, Laurence; Micheli, Fabienne; Kahn, Daniel; Gianinazzi-Pearson, Vivienne; Gamas, Pascal

    2002-01-01

    We report on a large-scale expressed sequence tag (EST) sequencing and analysis program aimed at characterizing the sets of genes expressed in roots of the model legume Medicago truncatula during interactions with either of two microsymbionts, the nitrogen-fixing bacterium Sinorhizobium meliloti or the arbuscular mycorrhizal fungus Glomus intraradices. We have designed specific tools for in silico analysis of EST data, in relation to chimeric cDNA detection, EST clustering, encoded protein prediction, and detection of differential expression. Our 21 473 5′- and 3′-ESTs could be grouped into 6359 EST clusters, corresponding to distinct virtual genes, along with 52 498 other M.truncatula ESTs available in the dbEST (NCBI) database that were recruited in the process. These clusters were manually annotated, using a specifically developed annotation interface. Analysis of EST cluster distribution in various M.truncatula cDNA libraries, supported by a refined R test to evaluate statistical significance and by ‘electronic northern’ representation, enabled us to identify a large number of novel genes predicted to be up- or down-regulated during either symbiotic root interaction. These in silico analyses provide a first global view of the genetic programs for root symbioses in M.truncatula. A searchable database has been built and can be accessed through a public interface. PMID:12490726

  14. The molecular genetic linkage map of the model legume Medicago truncatula: an essential tool for comparative legume genomics and the isolation of agronomically important genes

    PubMed Central

    Thoquet, Philippe; Ghérardi, Michele; Journet, Etienne-Pascal; Kereszt, Attila; Ané, Jean-Michel; Prosperi, Jean-Marie; Huguet, Thierry

    2002-01-01

    Background The legume Medicago truncatula has emerged as a model plant for the molecular and genetic dissection of various plant processes involved in rhizobial, mycorrhizal and pathogenic plant-microbe interactions. Aiming to develop essential tools for such genetic approaches, we have established the first genetic map of this species. Two parental homozygous lines were selected from the cultivar Jemalong and from the Algerian natural population (DZA315) on the basis of their molecular and phenotypic polymorphism. Results An F2 segregating population of 124 individuals between these two lines was obtained using an efficient manual crossing technique established for M. truncatula and was used to construct a genetic map. This map spans 1225 cM (average 470 kb/cM) and comprises 289 markers including RAPD, AFLP, known genes and isoenzymes arranged in 8 linkage groups (2n = 16). Markers are uniformly distributed throughout the map and segregation distortion is limited to only 3 linkage groups. By mapping a number of common markers, the eight linkage groups are shown to be homologous to those of diploid alfalfa (M. sativa), implying a good level of macrosynteny between the two genomes. Using this M. truncatula map and the derived F3 populations, we were able to map the Mtsym6 symbiotic gene on linkage group 8 and the SPC gene, responsible for the direction of pod coiling, on linkage group 7. Conclusions These results demonstrate that Medicago truncatula is amenable to diploid genetic analysis and they open the way to map-based cloning of symbiotic or other agronomically-important genes using this model plant. PMID:11825338

  15. Building Fractal Models with Manipulatives.

    ERIC Educational Resources Information Center

    Coes, Loring

    1993-01-01

    Uses manipulative materials to build and examine geometric models that simulate the self-similarity properties of fractals. Examples are discussed in two dimensions, three dimensions, and the fractal dimension. Discusses how models can be misleading. (Contains 10 references.) (MDH)

  16. Building Fractal Models with Manipulatives.

    ERIC Educational Resources Information Center

    Coes, Loring

    1993-01-01

    Uses manipulative materials to build and examine geometric models that simulate the self-similarity properties of fractals. Examples are discussed in two dimensions, three dimensions, and the fractal dimension. Discusses how models can be misleading. (Contains 10 references.) (MDH)

  17. An Unusual Intrinsically Disordered Protein from the Model Legume Lotus japonicus Stabilizes Proteins in Vitro*

    PubMed Central

    Haaning, Svend; Radutoiu, Simona; Hoffmann, Søren V.; Dittmer, Jens; Giehm, Lise; Otzen, Daniel E.; Stougaard, Jens

    2008-01-01

    Intrinsic structural disorder is a prevalent feature of proteins with chaperone activity. Using a complementary set of techniques, we have structurally characterized LjIDP1 (intrinsically disordered protein 1) from the model legume Lotus japonicus, and our results provide the first structural characterization of a member of the Lea5 protein family (PF03242). Contrary to in silico predictions, we show that LjIDP1 is intrinsically disordered and probably exists as an ensemble of conformations with limited residual β-sheet, turn/loop, and polyproline II secondary structure. Furthermore, we show that LjIDP1 has an inherent propensity to undergo a large conformational shift, adopting a largely α-helical structure when it is dehydrated and in the presence of different detergents and alcohols. This is consistent with an overrepresentation of order-promoting residues in LjIDP1 compared with the average of intrinsically disordered proteins. In line with functioning as a chaperone, we show that LjIDP1 effectively prevents inactivation of two model enzymes under conditions that promote protein misfolding and aggregation. The LjIdp1 gene is expressed in all L. japonicus tissues tested. A higher expression level was found in the root tip proximal zone, in roots inoculated with compatible endosymbiotic M. loti, and in functional nitrogen-fixing root nodules. We suggest that the ability of LjIDP1 to prevent protein misfolding and aggregation may play a significant role in tissues, such as symbiotic root nodules, which are characterized by high metabolic activity. PMID:18779323

  18. Buildings Lean Maintenance Implementation Model

    NASA Astrophysics Data System (ADS)

    Abreu, Antonio; Calado, João; Requeijo, José

    2016-11-01

    Nowadays, companies in global markets have to achieve high levels of performance and competitiveness to stay "alive".Within this assumption, the building maintenance cannot be done in a casual and improvised way due to the costs related. Starting with some discussion about lean management and building maintenance, this paper introduces a model to support the Lean Building Maintenance (LBM) approach. Finally based on a real case study from a Portuguese company, the benefits, challenges and difficulties are presented and discussed.

  19. Identification of quantitative trait loci (QTL) affecting seed mineral content in the model legume Medicago truncatula

    USDA-ARS?s Scientific Manuscript database

    Increasing the amount of bioavailable micronutrients such as iron and zinc in plant foods for human consumption is a challenge especially in developing countries where plant foods comprise a significant portion of the diet. Legume seeds have the potential to provide the essential nutrients required...

  20. Identification of QTL affecting seed mineral concentrations and content in the model legume Medicago truncatula

    USDA-ARS?s Scientific Manuscript database

    Increasing the amount of bioavailable micronutrients such as iron and zinc in plant foods for human consumption is a challenge, especially in developing countries where plant foods comprise a significant portion of the diet. Legume seeds have the potential to provide the essential nutrients require...

  1. Identification of nutrient and physical seed trait QTLs in the model legume, Lotus japonicus

    USDA-ARS?s Scientific Manuscript database

    Legume seeds have the potential to provide a significant portion of essential micronutrients to the human diet. To identify the genetic basis for seed nutrient density, quantitative trait locus (QTL) analysis was conducted with the Gifu B-129 x Miyakojima MG-20 recombinant inbred population from th...

  2. Building Model Motorcars.

    ERIC Educational Resources Information Center

    Altshuler, Ken

    1995-01-01

    Describes a project where students build a motorized car that can perform well in two distinctly different competitions: traveling 20 meters in the shortest time and pulling a 500-gram mass the farthest distance in 20 seconds. Enables students to apply physics principles to a real problem and to discover the importance of teamwork on large…

  3. Building Model Motorcars.

    ERIC Educational Resources Information Center

    Altshuler, Ken

    1995-01-01

    Describes a project where students build a motorized car that can perform well in two distinctly different competitions: traveling 20 meters in the shortest time and pulling a 500-gram mass the farthest distance in 20 seconds. Enables students to apply physics principles to a real problem and to discover the importance of teamwork on large…

  4. Peroxiredoxins and NADPH-dependent thioredoxin systems in the model legume Lotus japonicus.

    PubMed

    Tovar-Méndez, Alejandro; Matamoros, Manuel A; Bustos-Sanmamed, Pilar; Dietz, Karl-Josef; Cejudo, Francisco Javier; Rouhier, Nicolas; Sato, Shusei; Tabata, Satoshi; Becana, Manuel

    2011-07-01

    Peroxiredoxins (Prxs), thioredoxins (Trxs), and NADPH-thioredoxin reductases (NTRs) constitute central elements of the thiol-disulfide redox regulatory network of plant cells. This study provides a comprehensive survey of this network in the model legume Lotus japonicus. The aims were to identify and characterize these gene families and to assess whether the NTR-Trx systems are operative in nodules. Quantitative reverse transcription-polymerase chain reaction and immunological and proteomic approaches were used for expression profiling. We identified seven Prx, 14 Trx, and three NTR functional genes. The PrxQ1 gene was found to be transcribed in two alternative spliced variants and to be expressed at high levels in leaves, stems, petals, pods, and seeds and at low levels in roots and nodules. The 1CPrx gene showed very high expression in the seed embryos and low expression in vegetative tissues and was induced by nitric oxide and cytokinins. In sharp contrast, cytokinins down-regulated all other Prx genes, except PrxQ1, in roots and nodules, but only 2CPrxA and PrxQ1 in leaves. Gene-specific changes in Prx expression were also observed in response to ethylene, abscisic acid, and auxins. Nodules contain significant mRNA and protein amounts of cytosolic PrxIIB, Trxh1, and NTRA and of plastidic NTRC. Likewise, they express cytosolic Trxh3, Trxh4, Trxh8, and Trxh9, mitochondrial PrxIIF and Trxo, and plastidic Trxm2, Trxm4, and ferredoxin-Trx reductase. These findings reveal a complex regulation of Prxs that is dependent on the isoform, tissue, and signaling molecule and support that redox NTR-Trx systems are functional in the cytosol, mitochondria, and plastids of nodules.

  5. Visual automated macromolecular model building.

    PubMed

    Langer, Gerrit G; Hazledine, Saul; Wiegels, Tim; Carolan, Ciaran; Lamzin, Victor S

    2013-04-01

    Automated model-building software aims at the objective interpretation of crystallographic diffraction data by means of the construction or completion of macromolecular models. Automated methods have rapidly gained in popularity as they are easy to use and generate reproducible and consistent results. However, the process of model building has become increasingly hidden and the user is often left to decide on how to proceed further with little feedback on what has preceded the output of the built model. Here, ArpNavigator, a molecular viewer tightly integrated into the ARP/wARP automated model-building package, is presented that directly controls model building and displays the evolving output in real time in order to make the procedure transparent to the user.

  6. Building Mental Models by Dissecting Physical Models

    ERIC Educational Resources Information Center

    Srivastava, Anveshna

    2016-01-01

    When students build physical models from prefabricated components to learn about model systems, there is an implicit trade-off between the physical degrees of freedom in building the model and the intensity of instructor supervision needed. Models that are too flexible, permitting multiple possible constructions require greater supervision to…

  7. Building Mental Models by Dissecting Physical Models

    ERIC Educational Resources Information Center

    Srivastava, Anveshna

    2016-01-01

    When students build physical models from prefabricated components to learn about model systems, there is an implicit trade-off between the physical degrees of freedom in building the model and the intensity of instructor supervision needed. Models that are too flexible, permitting multiple possible constructions require greater supervision to…

  8. Building a Computable Facility Model

    DTIC Science & Technology

    2002-10-01

    Building Composer; facility design; facility management; Fort Future; decision support tools; installation design; integrated software; simulation ... modeling 16. SECURITY CLASSIFICATION OF: 17. LIMITATION OF ABSTRACT Same as Report (SAR) 18. NUMBER OF PAGES 4 19. NAME OF RESPONSIBLE PERSON Wolfe

  9. Comparison of homoeolocus organisation in paired BAC clones from white clover (Trifolium repens L.) and microcolinearity with model legume species

    PubMed Central

    2010-01-01

    Background White clover (Trifolium repens L.) is an outbreeding allotetraploid species and an important forage legume in temperate grassland agriculture. Comparison of sub-genome architecture and study of nucleotide sequence diversity within allopolyploids provides insight into evolutionary divergence mechanisms, and is also necessary for the development of whole-genome sequencing strategies. This study aimed to evaluate the degree of divergence between the O and P' sub-genomes of white clover through sequencing of BAC clones containing paired homoeoloci. The microsyntenic relationships between the genomes of white clover and the model legumes Lotus japonicus and Medicago truncatula as well as Arabidopsis thaliana were also characterised. Results A total of four paired homoeologous BACs were selected and sequenced to generate 173 kb of overlapping sequence between the O and P' sub-genomes. Equivalent gene content was generally observed, apart from small-scale deletions, in contrast to conservation of intergenic sequences, which varied between the four selected regions. Measurement of the number of synonymous substitutions between homoeologous genes led to estimation of a 4.2 million year divergence time between the two sub-genomes. Microsynteny was observed between the genomes of white clover and L. japonicus for all four targeted regions, but corresponding M. truncatula genomic regions were only identified for two BAC pairs. Conclusions This study describes the first analysis of sub-genome structural conservation across selected genomic regions in white clover. Although the high levels of sequence conservation between the O and P' sub-genomes would complicate efforts for whole genome sequence assembly, the conserved microsynteny with model legume genomes, especially that of L. japonicus, will be highly valuable for the future of white clover genomics and molecular breeding. PMID:20492736

  10. Conditional statistical model building

    NASA Astrophysics Data System (ADS)

    Hansen, Mads Fogtmann; Hansen, Michael Sass; Larsen, Rasmus

    2008-03-01

    We present a new statistical deformation model suited for parameterized grids with different resolutions. Our method models the covariances between multiple grid levels explicitly, and allows for very efficient fitting of the model to data on multiple scales. The model is validated on a data set consisting of 62 annotated MR images of Corpus Callosum. One fifth of the data set was used as a training set, which was non-rigidly registered to each other without a shape prior. From the non-rigidly registered training set a shape prior was constructed by performing principal component analysis on each grid level and using the results to construct a conditional shape model, conditioning the finer parameters with the coarser grid levels. The remaining shapes were registered with the constructed shape prior. The dice measures for the registration without prior and the registration with a prior were 0.875 +/- 0.042 and 0.8615 +/- 0.051, respectively.

  11. Legume information system (LegumeInfo.org): a key component of a set of federated data resources for the legume family

    PubMed Central

    Dash, Sudhansu; Campbell, Jacqueline D.; Cannon, Ethalinda K.S.; Cleary, Alan M.; Huang, Wei; Kalberer, Scott R.; Karingula, Vijay; Rice, Alex G.; Singh, Jugpreet; Umale, Pooja E.; Weeks, Nathan T.; Wilkey, Andrew P.; Farmer, Andrew D.; Cannon, Steven B.

    2016-01-01

    Legume Information System (LIS), at http://legumeinfo.org, is a genomic data portal (GDP) for the legume family. LIS provides access to genetic and genomic information for major crop and model legumes. With more than two-dozen domesticated legume species, there are numerous specialists working on particular species, and also numerous GDPs for these species. LIS has been redesigned in the last three years both to better integrate data sets across the crop and model legumes, and to better accommodate specialized GDPs that serve particular legume species. To integrate data sets, LIS provides genome and map viewers, holds synteny mappings among all sequenced legume species and provides a set of gene families to allow traversal among orthologous and paralogous sequences across the legumes. To better accommodate other specialized GDPs, LIS uses open-source GMOD components where possible, and advocates use of common data templates, formats, schemas and interfaces so that data collected by one legume research community are accessible across all legume GDPs, through similar interfaces and using common APIs. This federated model for the legumes is managed as part of the ‘Legume Federation’ project (accessible via http://legumefederation.org), which can be thought of as an umbrella project encompassing LIS and other legume GDPs. PMID:26546515

  12. Explaining coexistence of nitrogen fixing and non-fixing rhizobia in legume-rhizobia mutualism using mathematical modeling.

    PubMed

    Moyano, G; Marco, D; Knopoff, D; Torres, G; Turner, C

    2017-10-01

    In the mutualism established between legumes and soil bacteria known as rhizobia, bacteria from soil infect plants roots and reproduce inside root nodules where they fix atmospheric N2 for plant nutrition, receiving carbohydrates in exchange. Host-plant sanctions against non N2 fixing, cheating bacterial symbionts have been proposed to act in the legume-Rhizobium symbiosis, to preserve the mutualistic relationship. Sanctions include decreased rhizobial survival in nodules occupied by cheating rhizobia. Previously, a simple population model experimentally based showed that the coexistence of fixing and cheating rhizobia strains commonly found in field conditions is possible, and that the inclusion of sanctions leads to the extinction of cheating strains in soil. Here, we extend the previous model to include other factors that could complicate the sanction scenario, like horizontal transmission of symbiotic plasmids, turning non-nodulating strains into nodulating rhizobia, and competition between fixing and cheating strains for nodulation. In agreement with previous results, we show that plant populations persist even in the presence of cheating rhizobia without incorporating any sanction against the cheater populations in the model, under the realistic assumption that plants can at least get some amount of fixed N2 from the effectively mutualistic rhizobia occupying some nodules. Inclusion of plant sanctions leads to the unrealistic extinction of cheater strains in soil. Our results agree with increasing experimental evidence and theoretical work showing that mutualisms can persist in presence of cheating partners. Copyright © 2017 Elsevier Inc. All rights reserved.

  13. The pgip family in soybean and three other legume species: evidence for a birth-and-death model of evolution

    PubMed Central

    2014-01-01

    Background Polygalacturonase-inhibiting proteins (PGIPs) are leucine-rich repeat (LRR) plant cell wall glycoproteins involved in plant immunity. They are typically encoded by gene families with a small number of gene copies whose evolutionary origin has been poorly investigated. Here we report the complete characterization of the full complement of the pgip family in soybean (Glycine max [L.] Merr.) and the characterization of the genomic region surrounding the pgip family in four legume species. Results BAC clone and genome sequence analyses showed that the soybean genome contains two pgip loci. Each locus is composed of three clustered genes that are induced following infection with the fungal pathogen Sclerotinia sclerotiorum (Lib.) de Bary, and remnant sequences of pgip genes. The analyzed homeologous soybean genomic regions (about 126 Kb) that include the pgip loci are strongly conserved and this conservation extends also to the genomes of the legume species Phaseolus vulgaris L., Medicago truncatula Gaertn. and Cicer arietinum L., each containing a single pgip locus. Maximum likelihood-based gene trees suggest that the genes within the pgip clusters have independently undergone tandem duplication in each species. Conclusions The paleopolyploid soybean genome contains two pgip loci comprised in large and highly conserved duplicated regions, which are also conserved in bean, M. truncatula and C. arietinum. The genomic features of these legume pgip families suggest that the forces driving the evolution of pgip genes follow the birth-and-death model, similar to that proposed for the evolution of resistance (R) genes of NBS-LRR-type. PMID:25034494

  14. Autotune E+ Building Energy Models

    SciTech Connect

    New, Joshua Ryan; Sanyal, Jibonananda; Bhandari, Mahabir S; Shrestha, Som S

    2012-01-01

    This paper introduces a novel Autotune methodology under development for calibrating building energy models (BEM). It is aimed at developing an automated BEM tuning methodology that enables models to reproduce measured data such as utility bills, sub-meter, and/or sensor data accurately and robustly by selecting best-match E+ input parameters in a systematic, automated, and repeatable fashion. The approach is applicable to a building retrofit scenario and aims to quantify the trade-offs between tuning accuracy and the minimal amount of ground truth data required to calibrate the model. Autotune will use a suite of machine-learning algorithms developed and run on supercomputers to generate calibration functions. Specifically, the project will begin with a de-tuned model and then perform Monte Carlo simulations on the model by perturbing the uncertain parameters within permitted ranges. Machine learning algorithms will then extract minimal perturbation combinations that result in modeled results that most closely track sensor data. A large database of parametric EnergyPlus (E+) simulations has been made publicly available. Autotune is currently being applied to a heavily instrumented residential building as well as three light commercial buildings in which a de-tuned model is autotuned using faux sensor data from the corresponding target E+ model.

  15. Darwinian Model Building

    NASA Astrophysics Data System (ADS)

    Kester, Do; Bontekoe, Romke

    2011-03-01

    We present a way to generate heuristic mathematical models based on the Darwinian principles of variation and selection in a pool of individuals over many generations. Each individual has a genotype (the hereditary properties) and a phenotype (the expression of these properties in the environment). Variation is achieved by cross-over and mutation operations on the genotype which consists in the present case of a single chromosome. The genotypes `live' in the environment of the data. Nested Sampling is used to optimize the free parameters of the models given the data, thus giving rise to the phenotypes. Selection is based on the phenotypes. The evidences which naturally follow from the Nested Sampling Algorithm are used in a second level of Nested Sampling to find increasingly better models. The data in this paper originate from the Leiden Cytology and Pathology Laboratory (LCPL), which screens pap smears for cervical cancer. We have data for 1750 women who on average underwent 5 tests each. The data on individual women are treated as a small time series. We will try to estimate the next value of the prime cancer indicator from previous tests of the same woman.

  16. Darwinian Model Building

    SciTech Connect

    Kester, Do; Bontekoe, Romke

    2011-03-14

    We present a way to generate heuristic mathematical models based on the Darwinian principles of variation and selection in a pool of individuals over many generations. Each individual has a genotype (the hereditary properties) and a phenotype (the expression of these properties in the environment). Variation is achieved by cross-over and mutation operations on the genotype which consists in the present case of a single chromosome. The genotypes 'live' in the environment of the data. Nested Sampling is used to optimize the free parameters of the models given the data, thus giving rise to the phenotypes. Selection is based on the phenotypes.The evidences which naturally follow from the Nested Sampling Algorithm are used in a second level of Nested Sampling to find increasingly better models.The data in this paper originate from the Leiden Cytology and Pathology Laboratory (LCPL), which screens pap smears for cervical cancer. We have data for 1750 women who on average underwent 5 tests each. The data on individual women are treated as a small time series. We will try to estimate the next value of the prime cancer indicator from previous tests of the same woman.

  17. Experimental Building Information Models

    DTIC Science & Technology

    2011-09-01

    link can later be removed. In some cases, it may also help to have a 2D drawing extracted from the 3D model, such as when laying out a large floor...plan. In such cases, a Revit plan view can be exported as a 2D Autocad DWG file using Revit’s export function. This 2D DWG file can then be...with government-furnished 2D Autocad DWG files. The 2D DWG files included architectural, mechanical, plumbing, and electrical layouts, and were

  18. Landmark Research in Legumes

    USDA-ARS?s Scientific Manuscript database

    Legumes are members of family Fabaceae or Leguminosae and include economically important grain legumes, oilseed crops, forage crops, shrubs and tropical or subtropical trees. Many legumes are rich source of quality protein for humans and animals and enrich the soil by producing their own nitrogen i...

  19. Digestion of isolated legume cells in a stomach-duodenum model: three mechanisms limit starch and protein hydrolysis.

    PubMed

    Bhattarai, Rewati R; Dhital, Sushil; Wu, Peng; Chen, Xiao Dong; Gidley, Michael J

    2017-07-19

    Retention of intact plant cells to the end of the small intestine leads to transport of entrapped macronutrients such as starch and protein for colonic microbial fermentation, and is a promising mechanism to increase the content of resistant starch in diets. However, the effect of gastro-intestinal bio-mechanical processing on the intactness of plant cells and the subsequent resistance to enzymatic digestion of intracellular starch and protein are not well understood. In this study, intact cells isolated from legume cotyledons are digested in a laboratory model which mimics the mechanical and biochemical conditions of the rat stomach and duodenum. The resulting digesta are characterised in terms of cell (wall) integrity as well as intracellular starch and protein hydrolysis. The cells remained essentially intact in the model with negligible (ca. 2-3%) starch or protein digestion; however when the cells were mechanically broken and digested in the model, the hydrolysis was increased to 45-50% suggesting that intact cellular structures could survive the mixing regimes in the model stomach and duodenum sufficiently to prevent digestive enzyme access. Apart from intact cell walls providing effective barrier properties, they also limit digestibility by restricting starch gelatinisation during cooking, and significant non-specific binding of α-amylase is observed to both intact and broken cell wall components, providing a third mechanism hindering starch hydrolysis. The study suggests that the preservation of intactness of plant cells, such as from legumes, could be a viable approach to achieve the targeted delivery of resistant starch to the colon.

  20. Building mental models by dissecting physical models.

    PubMed

    Srivastava, Anveshna

    2016-01-01

    When students build physical models from prefabricated components to learn about model systems, there is an implicit trade-off between the physical degrees of freedom in building the model and the intensity of instructor supervision needed. Models that are too flexible, permitting multiple possible constructions require greater supervision to ensure focused learning; models that are too constrained require less supervision, but can be constructed mechanically, with little to no conceptual engagement. We propose "model-dissection" as an alternative to "model-building," whereby instructors could make efficient use of supervisory resources, while simultaneously promoting focused learning. We report empirical results from a study conducted with biology undergraduate students, where we demonstrate that asking them to "dissect" out specific conceptual structures from an already built 3D physical model leads to a significant improvement in performance than asking them to build the 3D model from simpler components. Using questionnaires to measure understanding both before and after model-based interventions for two cohorts of students, we find that both the "builders" and the "dissectors" improve in the post-test, but it is the latter group who show statistically significant improvement. These results, in addition to the intrinsic time-efficiency of "model dissection," suggest that it could be a valuable pedagogical tool. © 2015 The International Union of Biochemistry and Molecular Biology.

  1. Virtual building environments (VBE) - Applying information modeling to buildings

    SciTech Connect

    Bazjanac, Vladimir

    2004-06-21

    A Virtual Building Environment (VBE) is a ''place'' where building industry project staffs can get help in creating Building Information Models (BIM) and in the use of virtual buildings. It consists of a group of industry software that is operated by industry experts who are also experts in the use of that software. The purpose of a VBE is to facilitate expert use of appropriate software applications in conjunction with each other to efficiently support multidisciplinary work. This paper defines BIM and virtual buildings, and describes VBE objectives, set-up and characteristics of operation. It informs about the VBE Initiative and the benefits from a couple of early VBE projects.

  2. The Use of a Principal Axis Model to Examine Individual Plant Harvest Index in Four Grain Legumes

    PubMed Central

    AYAZ, S.; MOOT, D. J.; MCKENZIE, B. A.; HILL, G. D.; MCNEIL, D. L.

    2004-01-01

    • Background and Aims A principal axis model (PAM) has been proposed to enable the selection of crop ideotypes. The PAM enables plant-to-plant variability within crops to be quantified and compared. The aim of this paper is to validate the PAM for four grain legumes. • Methods Four grain legumes (Cicer arietinum, Lens culinaris, Lupinus angustifolius, Pisum sativum) were used to quantify the influence of plant-to-plant variability on crop yields. To create variability, populations of 10, 100 and 400 plants m−2 were established ‘on-the-square’ with sowing depths of 2, 5 and 10 cm. Further, a central plant was treated with nitrogen and the impact of this on its four neighbouring plants was examined. Seeds were sown and plants harvested individually by hand. • Key Results Mean individual plant seed weight (SWT) and plant weight (PWT) decreased as plant population increased but there was a consistent and strong (R2 > 0·90) linear relationship between SWT and PWT, with a negative SWT-axis intercept in all species. These components form the basis of the principal axis model (PAM). The PAM was used to summarize the performance of individual plants within a crop and quantify the variability caused by N treatment and the lowest and highest yielding individual plants. A negative SWT-axis intercept indicated that a minimum plant weight (MPW) was required for seed production and therefore the relationship between plant harvest index (PHI) and PWT was asymptotic. The heaviest MPW was calculated for plants grown at the lowest plant population and it was species-dependent, being higher in the larger seeded species. • Conclusions Agronomic or physiological characteristics that lead to variability in PWT within a population will decrease PHI, and crop yield. The PAM may be useful in breeding programmes to identify plant phenotypes that minimize this plant-to-plant variability. PMID:15292041

  3. Unique and conserved features of floral evocation in legumes.

    PubMed

    Liew, Lim Chee; Singh, Mohan B; Bhalla, Prem L

    2014-08-01

    Legumes, with their unique ability to fix atmospheric nitrogen, play a vital role in ensuring future food security and mitigating the effects of climate change because they use less fossil energy and produce less greenhouse gases compared with N-fertilized systems. Grain legumes are second only to cereal crops as a source of human and animal food, and they contribute approximately one third of the protein consumed by the human population. The productivity of seed crops, such as grain legumes, is dependent on flowering. Despite the genetic variation and importance of flowering in legume production, studies of the molecular pathways that control flowering in legumes are limited. Recent advances in genomics have revealed that legume flowering pathways are divergent from those of such model species as Arabidopsis thaliana. Here, we discuss the current understanding of flowering time regulation in legumes and highlight the unique and conserved features of floral evocation in legumes.

  4. Modelling the impact of climatic conditions and plant species on the nitrogen release from mulch of legumes at the soil surface

    NASA Astrophysics Data System (ADS)

    Gaudinat, Germain; Lorin, Mathieu; Valantin-morison, Muriel; Garnier, Patricia

    2015-04-01

    Cover crops provide multiple services to the agro ecosystem. Among them, the use of legumes as cover crop is one of the solutions for limiting the use of herbicides, mineral fertilizers, and insecticides. However, the dynamic of mineralization is difficult to understand because of the difficulty of measuring nitrogen release from mulch in field. Indeed, residues are degraded at the soil surface as mulch, while the nitrogen uptake by the main crop occurred simultaneously in the soil. This work aims to study the dynamics of nitrogen mineralization from legume residues through i) the use of a model able to describe the physical and biological dynamic of mulch and ii) a data set from a field experiment of intercropping systems "oilseed rape-legumes" from different species (grass pea, lentil, Berseem clover, field pea, vetch). The objective of the simulations is to identify the variations of expected quantities of nitrogen from different legumes. The soil-plant model of mulch decomposition PASTIS-Mulch was used to determine the nitrogen supply from mulch available for rapeseed. These simulation results were compared to the data collected in the experimental field of Grignon (France). We performed analyzes of biochemical and physical characteristics of legume residues and monitored the evolution of mulches (moisture, density, cover surface, biomass) in fields. PASTIS simulations of soil temperature, soil moisture, mulch humidity and mulch decomposition were close to the experimental results. The PASTIS model was suitable to simulate the dynamic of legume mulches in the case of "rape - legume" associations. The model simulated nitrogen restitution of aerial and root parts. We found a more rapid nitrogen release by grass pea than other species. Vetch released less nitrogen than the other species. The scenarios for climate conditions were : i) a freezing in December that causes the destruction of plants, or a destruction by herbicide in March, ii) a strong or a weak rainy

  5. Natural diversity in the model legume Medicago truncatula allows identifying distinct genetic mechanisms conferring partial resistance to Verticillium wilt.

    PubMed

    Ben, Cécile; Toueni, Maoulida; Montanari, Sara; Tardin, Marie-Claire; Fervel, Magalie; Negahi, Azam; Saint-Pierre, Laure; Mathieu, Guillaume; Gras, Marie-Christine; Noël, Dominique; Prospéri, Jean-Marie; Pilet-Nayel, Marie-Laure; Baranger, Alain; Huguet, Thierry; Julier, Bernadette; Rickauer, Martina; Gentzbittel, Laurent

    2013-01-01

    Verticillium wilt is a major threat to alfalfa (Medicago sativa) and many other crops. The model legume Medicago truncatula was used as a host for studying resistance and susceptibility to Verticillium albo-atrum. In addition to presenting well-established genetic resources, this wild plant species enables to investigate biodiversity of the response to the pathogen and putative crosstalk between disease and symbiosis. Symptom scoring after root inoculation and modelling of disease curves allowed assessing susceptibility levels in recombinant lines of three crosses between susceptible and resistant lines, in a core collection of 32 lines, and in mutants affected in symbiosis with rhizobia. A GFP-expressing V. albo-atrum strain was used to study colonization of susceptible plants. Symptoms and colonization pattern in infected M. truncatula plants were typical of Verticillium wilt. Three distinct major quantitative trait loci were identified using a multicross, multisite design, suggesting that simple genetic mechanisms appear to control Verticillium wilt resistance in M. truncatula lines A17 and DZA45.5. The disease functional parameters varied largely in lines of the core collection. This biodiversity with regard to disease response encourages the development of association genetics and ecological approaches. Several mutants of the resistant line, impaired in different steps of rhizobial symbiosis, were affected in their response to V. albo-atrum, which suggests that mechanisms involved in the establishment of symbiosis or disease might have some common regulatory control points.

  6. Natural diversity in the model legume Medicago truncatula allows identifying distinct genetic mechanisms conferring partial resistance to Verticillium wilt

    PubMed Central

    Gentzbittel, Laurent

    2013-01-01

    Verticillium wilt is a major threat to alfalfa (Medicago sativa) and many other crops. The model legume Medicago truncatula was used as a host for studying resistance and susceptibility to Verticillium albo-atrum. In addition to presenting well-established genetic resources, this wild plant species enables to investigate biodiversity of the response to the pathogen and putative crosstalk between disease and symbiosis. Symptom scoring after root inoculation and modelling of disease curves allowed assessing susceptibility levels in recombinant lines of three crosses between susceptible and resistant lines, in a core collection of 32 lines, and in mutants affected in symbiosis with rhizobia. A GFP-expressing V. albo-atrum strain was used to study colonization of susceptible plants. Symptoms and colonization pattern in infected M. truncatula plants were typical of Verticillium wilt. Three distinct major quantitative trait loci were identified using a multicross, multisite design, suggesting that simple genetic mechanisms appear to control Verticillium wilt resistance in M. truncatula lines A17 and DZA45.5. The disease functional parameters varied largely in lines of the core collection. This biodiversity with regard to disease response encourages the development of association genetics and ecological approaches. Several mutants of the resistant line, impaired in different steps of rhizobial symbiosis, were affected in their response to V. albo-atrum, which suggests that mechanisms involved in the establishment of symbiosis or disease might have some common regulatory control points. PMID:23213135

  7. Forage legumes - untrapped resource

    SciTech Connect

    Barnes, R.F.

    1985-02-01

    Legumes are important in nutrition, nitrogen fixation and in reducing dependence on nitrogen fertilizers. At a meeting between scientists from Australia, New Zealand and the United States the role of legumes was assessed and coordinated research programs set up to deal with problems such as disease, soil, climate and selective breeding.

  8. Common Bean: A Legume Model on the Rise for Unraveling Responses and Adaptations to Iron, Zinc, and Phosphate Deficiencies

    PubMed Central

    Castro-Guerrero, Norma A.; Isidra-Arellano, Mariel C.; Mendoza-Cozatl, David G.; Valdés-López, Oswaldo

    2016-01-01

    Common bean (Phaseolus vulgaris) was domesticated ∼8000 years ago in the Americas and today is a staple food worldwide. Besides caloric intake, common bean is also an important source of protein and micronutrients and it is widely appreciated in developing countries for their affordability (compared to animal protein) and its long storage life. As a legume, common bean also has the economic and environmental benefit of associating with nitrogen-fixing bacteria, thus reducing the use of synthetic fertilizers, which is key for sustainable agriculture. Despite significant advances in the plant nutrition field, the mechanisms underlying the adaptation of common bean to low nutrient input remains largely unknown. The recent release of the common bean genome offers, for the first time, the possibility of applying techniques and approaches that have been exclusive to model plants to study the adaptive responses of common bean to challenging environments. In this review, we discuss the hallmarks of common bean domestication and subsequent distribution around the globe. We also discuss recent advances in phosphate, iron, and zinc homeostasis, as these nutrients often limit plant growth, development, and yield. In addition, iron and zinc are major targets of crop biofortification to improve human nutrition. Developing common bean varieties able to thrive under nutrient limiting conditions will have a major impact on human nutrition, particularly in countries where dry beans are the main source of carbohydrates, protein and minerals. PMID:27200068

  9. A genetic linkage map of the model legume Lotus japonicus and strategies for fast mapping of new loci.

    PubMed Central

    Sandal, Niels; Krusell, Lene; Radutoiu, Simona; Olbryt, Magdalena; Pedrosa, Andrea; Stracke, Silke; Sato, Shusei; Kato, Tomohiko; Tabata, Satoshi; Parniske, Martin; Bachmair, Andreas; Ketelsen, Tina; Stougaard, Jens

    2002-01-01

    A genetic map for the model legume Lotus japonicus has been developed. The F(2) mapping population was established from an interspecific cross between L. japonicus and L. filicaulis. A high level of DNA polymorphism between these parents was the source of markers for linkage analysis and the map is based on a framework of amplified fragment length polymorphism (AFLP) markers. Additional markers were generated by restriction fragment length polymorphism (RFLP) and sequence-specific PCR. A total of 524 AFLP markers, 3 RAPD markers, 39 gene-specific markers, 33 microsatellite markers, and six recessive symbiotic mutant loci were mapped. This genetic map consists of six linkage groups corresponding to the six chromosomes in L. japonicus. Fluorescent in situ hybridization (FISH) with selected markers aligned the linkage groups to chromosomes as described in the accompanying article by Pedrosa et al. 2002(this issue). The length of the linkage map is 367 cM and the average marker distance is 0.6 cM. Distorted segregation of markers was found in certain sections of the map and linkage group I could be assembled only by combining colormapping and cytogenetics (FISH). A fast method to position genetic loci employing three AFLP primer combinations yielding 89 markers was developed and evaluated by mapping three symbiotic loci, Ljsym1, Ljsym5, and Ljhar1-3. PMID:12196410

  10. Common Bean: A Legume Model on the Rise for Unraveling Responses and Adaptations to Iron, Zinc, and Phosphate Deficiencies.

    PubMed

    Castro-Guerrero, Norma A; Isidra-Arellano, Mariel C; Mendoza-Cozatl, David G; Valdés-López, Oswaldo

    2016-01-01

    Common bean (Phaseolus vulgaris) was domesticated ∼8000 years ago in the Americas and today is a staple food worldwide. Besides caloric intake, common bean is also an important source of protein and micronutrients and it is widely appreciated in developing countries for their affordability (compared to animal protein) and its long storage life. As a legume, common bean also has the economic and environmental benefit of associating with nitrogen-fixing bacteria, thus reducing the use of synthetic fertilizers, which is key for sustainable agriculture. Despite significant advances in the plant nutrition field, the mechanisms underlying the adaptation of common bean to low nutrient input remains largely unknown. The recent release of the common bean genome offers, for the first time, the possibility of applying techniques and approaches that have been exclusive to model plants to study the adaptive responses of common bean to challenging environments. In this review, we discuss the hallmarks of common bean domestication and subsequent distribution around the globe. We also discuss recent advances in phosphate, iron, and zinc homeostasis, as these nutrients often limit plant growth, development, and yield. In addition, iron and zinc are major targets of crop biofortification to improve human nutrition. Developing common bean varieties able to thrive under nutrient limiting conditions will have a major impact on human nutrition, particularly in countries where dry beans are the main source of carbohydrates, protein and minerals.

  11. Variation in rDNA locus number and position among legume species and detection of 2 linked rDNA loci in the model Medicago truncatula by FISH.

    PubMed

    Abirached-Darmency, Mona; Prado-Vivant, Emilce; Chelysheva, Liudmila; Pouthier, Thomas

    2005-06-01

    Within Fabaceae, legume species have a variable genome size, chromosome number, and ploidy level. The genome distribution of ribosomal genes, easily detectable by fluorescent in situ hybridization (FISH), is a good tool for anchoring physical and genetic comparative maps. The organisation of 45S rDNA and 5S loci was analysed by FISH in the 4 closely related species: Pisum sativum, Medicago truncatula, Medicago sativa (2 diploid taxa), and Lathyrus sativus. The 2 types of rDNA arrays displayed interspecific variation in locus number and location, but little intraspecific variation was detected. In the model legume, M. truncatula, the presence of 2 adjacent 45S rDNA loci was demonstrated, and the location of the rDNA loci was independent of the general evolution of the genome DNA. The different parameters relative to clustering of the rDNA loci in specific chromosome regions and the possible basis of rDNA instability are discussed.

  12. Automatic Building Information Model Query Generation

    SciTech Connect

    Jiang, Yufei; Yu, Nan; Ming, Jiang; Lee, Sanghoon; DeGraw, Jason; Yen, John; Messner, John I.; Wu, Dinghao

    2015-12-01

    Energy efficient building design and construction calls for extensive collaboration between different subfields of the Architecture, Engineering and Construction (AEC) community. Performing building design and construction engineering raises challenges on data integration and software interoperability. Using Building Information Modeling (BIM) data hub to host and integrate building models is a promising solution to address those challenges, which can ease building design information management. However, the partial model query mechanism of current BIM data hub collaboration model has several limitations, which prevents designers and engineers to take advantage of BIM. To address this problem, we propose a general and effective approach to generate query code based on a Model View Definition (MVD). This approach is demonstrated through a software prototype called QueryGenerator. By demonstrating a case study using multi-zone air flow analysis, we show how our approach and tool can help domain experts to use BIM to drive building design with less labour and lower overhead cost.

  13. Automatic building information model query generation

    SciTech Connect

    Jiang, Yufei; Yu, Nan; Ming, Jiang; Lee, Sanghoon; DeGraw, Jason; Yen, John; Messner, John I.; Wu, Dinghao

    2015-12-01

    Energy efficient building design and construction calls for extensive collaboration between different subfields of the Architecture, Engineering and Construction (AEC) community. Performing building design and construction engineering raises challenges on data integration and software interoperability. Using Building Information Modeling (BIM) data hub to host and integrate building models is a promising solution to address those challenges, which can ease building design information management. However, the partial model query mechanism of current BIM data hub collaboration model has several limitations, which prevents designers and engineers to take advantage of BIM. To address this problem, we propose a general and effective approach to generate query code based on a Model View Definition (MVD). This approach is demonstrated through a software prototype called QueryGenerator. In conclusion, by demonstrating a case study using multi-zone air flow analysis, we show how our approach and tool can help domain experts to use BIM to drive building design with less labour and lower overhead cost.

  14. Autotune Calibrates Models to Building Use Data

    ScienceCinema

    None

    2016-09-02

    Models of existing buildings are currently unreliable unless calibrated manually by a skilled professional. Autotune, as the name implies, automates this process by calibrating the model of an existing building to measured data, and is now available as open source software. This enables private businesses to incorporate Autotune into their products so that their customers can more effectively estimate cost savings of reduced energy consumption measures in existing buildings.

  15. Autotune Calibrates Models to Building Use Data

    SciTech Connect

    2016-08-26

    Models of existing buildings are currently unreliable unless calibrated manually by a skilled professional. Autotune, as the name implies, automates this process by calibrating the model of an existing building to measured data, and is now available as open source software. This enables private businesses to incorporate Autotune into their products so that their customers can more effectively estimate cost savings of reduced energy consumption measures in existing buildings.

  16. Lentils: the Forgotten Legumes

    MedlinePlus

    ... page: https://medlineplus.gov/news/fullstory_166192.html Lentils: The Forgotten Legumes Beans' little cousins pack in ... 2, 2017 FRIDAY, June 2, 2017 (HealthDay News) -- Lentils may be the least well known members of ...

  17. A simple model for pollen-parent fecundity distributions in bee-pollinated forage legume polycrosses

    USDA-ARS?s Scientific Manuscript database

    Random mating or panmixis is a fundamental assumption in quantitative genetic theory. Random mating is sometimes thought to occur in actual fact although a large body of empirical work shows that this is often not the case in nature. Models have been developed to model many non-random mating phenome...

  18. The efficiency of nitrogen fixation of the model legume Medicago truncatula (Jemalong A17) is low compared to Medicago sativa.

    PubMed

    Sulieman, Saad; Schulze, Joachim

    2010-06-15

    Medicago truncatula (Gaertn.) (barrel medic) serves as a model legume in plant biology. Numerous studies have addressed molecular aspects of the biology of M. truncatula, while comparatively little is known about the efficiency of N(2) fixation at the whole plant level. The objective of the present study was to compare the efficiency of N(2) fixation of M. truncatula to the genetically closely related Medicago sativa (L.) (alfalfa). The relative growth of both species relying exclusively on N(2) fixation versus nitrate nutrition, H(2) evolution, nitrogen assimilation, the concentration of amino acids and organic acids in nodules, and (15)N(2) uptake and distribution were studied. M. truncatula showed much lower efficiency of N(2) fixation. Nodule-specific activity was several-fold lower when compared to M. sativa, partially as a result of a lower electron allocation to N(2) versus H(+). M. truncatula or M. sativa plants grown solely on N(2) fixation as a nitrogen source reached about 30% or 80% of growth, respectively, when compared to plants supplied with sufficient nitrate. Moreover, M. truncatula had low %N in shoots and a lower allocation of (15)N to shoots during 1h (15)N(2) labeling period. Amino acid concentration was about 20% higher in M. sativa nodules, largely as a result of more asparagine, while the organic acid concentration was about double in M. sativa, coinciding with a six-fold higher concentration of malate. Total soluble protein in nodules was about three times lower in M. truncatula and the pattern of enzyme activity in that fraction was strongly different. Sucrose cleaving enzymes displayed higher activity in M. truncatula nodules, while the activity of phosphoenolpyruvate carboxylase (PEPC) was much lower. It is concluded that the low efficiency of the M. truncatula symbiotic system is related to a low capacity of organic acid formation and limited nitrogen export from nodules.

  19. Peroxiredoxins and NADPH-Dependent Thioredoxin Systems in the Model Legume Lotus japonicus1[W][OA

    PubMed Central

    Tovar-Méndez, Alejandro; Matamoros, Manuel A.; Bustos-Sanmamed, Pilar; Dietz, Karl-Josef; Cejudo, Francisco Javier; Rouhier, Nicolas; Sato, Shusei; Tabata, Satoshi; Becana, Manuel

    2011-01-01

    Peroxiredoxins (Prxs), thioredoxins (Trxs), and NADPH-thioredoxin reductases (NTRs) constitute central elements of the thiol-disulfide redox regulatory network of plant cells. This study provides a comprehensive survey of this network in the model legume Lotus japonicus. The aims were to identify and characterize these gene families and to assess whether the NTR-Trx systems are operative in nodules. Quantitative reverse transcription-polymerase chain reaction and immunological and proteomic approaches were used for expression profiling. We identified seven Prx, 14 Trx, and three NTR functional genes. The PrxQ1 gene was found to be transcribed in two alternative spliced variants and to be expressed at high levels in leaves, stems, petals, pods, and seeds and at low levels in roots and nodules. The 1CPrx gene showed very high expression in the seed embryos and low expression in vegetative tissues and was induced by nitric oxide and cytokinins. In sharp contrast, cytokinins down-regulated all other Prx genes, except PrxQ1, in roots and nodules, but only 2CPrxA and PrxQ1 in leaves. Gene-specific changes in Prx expression were also observed in response to ethylene, abscisic acid, and auxins. Nodules contain significant mRNA and protein amounts of cytosolic PrxIIB, Trxh1, and NTRA and of plastidic NTRC. Likewise, they express cytosolic Trxh3, Trxh4, Trxh8, and Trxh9, mitochondrial PrxIIF and Trxo, and plastidic Trxm2, Trxm4, and ferredoxin-Trx reductase. These findings reveal a complex regulation of Prxs that is dependent on the isoform, tissue, and signaling molecule and support that redox NTR-Trx systems are functional in the cytosol, mitochondria, and plastids of nodules. PMID:21562331

  20. Water-tolerant legume nodulation.

    PubMed

    Capoen, Ward; Goormachtig, Sofie; Holsters, Marcelle

    2010-03-01

    Water-tolerant nodulation is an adaptation of legumes that grow in wet or temporarily flooded habitats. This nodulation mode takes place at lateral root bases via intercellular bacterial invasion in cortical infection pockets. The tropical legume Sesbania rostrata has become a model for the study of the molecular basis of crack entry nodulation compared with root hair curl nodulation. For intercellular invasion, Nodulation Factor (NF) signalling recruits an ethylene-dependent, common Sym gene-independent pathway, leading to local cell death. The NF structure requirements are less stringent than for intracellular invasion in root hairs, which is correlated with a very specific NF-induced calcium spiking signature, presumably necessary for correct gene expression to assemble a functional entry complex in the epidermis.

  1. A Seminar in Mathematical Model-Building.

    ERIC Educational Resources Information Center

    Smith, David A.

    1979-01-01

    A course in mathematical model-building is described. Suggested modeling projects include: urban problems, biology and ecology, economics, psychology, games and gaming, cosmology, medicine, history, computer science, energy, and music. (MK)

  2. A Seminar in Mathematical Model-Building.

    ERIC Educational Resources Information Center

    Smith, David A.

    1979-01-01

    A course in mathematical model-building is described. Suggested modeling projects include: urban problems, biology and ecology, economics, psychology, games and gaming, cosmology, medicine, history, computer science, energy, and music. (MK)

  3. DOE Commercial Building Benchmark Models: Preprint

    SciTech Connect

    Torcelini, P.; Deru, M.; Griffith, B.; Benne, K.; Halverson, M.; Winiarski, D.; Crawley, D. B.

    2008-07-01

    To provide a consistent baseline of comparison and save time conducting such simulations, the U.S. Department of Energy (DOE) has developed a set of standard benchmark building models. This paper will provide an executive summary overview of these benchmark buildings, and how they can save building analysts valuable time. Fully documented and implemented to use with the EnergyPlus energy simulation program, the benchmark models are publicly available and new versions will be created to maintain compatibility with new releases of EnergyPlus. The benchmark buildings will form the basis for research on specific building technologies, energy code development, appliance standards, and measurement of progress toward DOE energy goals. Having a common starting point allows us to better share and compare research results and move forward to make more energy efficient buildings.

  4. Translating building information modeling to building energy modeling using model view definition.

    PubMed

    Jeong, WoonSeong; Kim, Jong Bum; Clayton, Mark J; Haberl, Jeff S; Yan, Wei

    2014-01-01

    This paper presents a new approach to translate between Building Information Modeling (BIM) and Building Energy Modeling (BEM) that uses Modelica, an object-oriented declarative, equation-based simulation environment. The approach (BIM2BEM) has been developed using a data modeling method to enable seamless model translations of building geometry, materials, and topology. Using data modeling, we created a Model View Definition (MVD) consisting of a process model and a class diagram. The process model demonstrates object-mapping between BIM and Modelica-based BEM (ModelicaBEM) and facilitates the definition of required information during model translations. The class diagram represents the information and object relationships to produce a class package intermediate between the BIM and BEM. The implementation of the intermediate class package enables system interface (Revit2Modelica) development for automatic BIM data translation into ModelicaBEM. In order to demonstrate and validate our approach, simulation result comparisons have been conducted via three test cases using (1) the BIM-based Modelica models generated from Revit2Modelica and (2) BEM models manually created using LBNL Modelica Buildings library. Our implementation shows that BIM2BEM (1) enables BIM models to be translated into ModelicaBEM models, (2) enables system interface development based on the MVD for thermal simulation, and (3) facilitates the reuse of original BIM data into building energy simulation without an import/export process.

  5. Translating Building Information Modeling to Building Energy Modeling Using Model View Definition

    PubMed Central

    Kim, Jong Bum; Clayton, Mark J.; Haberl, Jeff S.

    2014-01-01

    This paper presents a new approach to translate between Building Information Modeling (BIM) and Building Energy Modeling (BEM) that uses Modelica, an object-oriented declarative, equation-based simulation environment. The approach (BIM2BEM) has been developed using a data modeling method to enable seamless model translations of building geometry, materials, and topology. Using data modeling, we created a Model View Definition (MVD) consisting of a process model and a class diagram. The process model demonstrates object-mapping between BIM and Modelica-based BEM (ModelicaBEM) and facilitates the definition of required information during model translations. The class diagram represents the information and object relationships to produce a class package intermediate between the BIM and BEM. The implementation of the intermediate class package enables system interface (Revit2Modelica) development for automatic BIM data translation into ModelicaBEM. In order to demonstrate and validate our approach, simulation result comparisons have been conducted via three test cases using (1) the BIM-based Modelica models generated from Revit2Modelica and (2) BEM models manually created using LBNL Modelica Buildings library. Our implementation shows that BIM2BEM (1) enables BIM models to be translated into ModelicaBEM models, (2) enables system interface development based on the MVD for thermal simulation, and (3) facilitates the reuse of original BIM data into building energy simulation without an import/export process. PMID:25309954

  6. From model to crop: functional analysis of a STAY-GREEN gene in the model legume Medicago truncatula and effective use of the gene for alfalfa improvement.

    PubMed

    Zhou, Chuanen; Han, Lu; Pislariu, Catalina; Nakashima, Jin; Fu, Chunxiang; Jiang, Qingzhen; Quan, Li; Blancaflor, Elison B; Tang, Yuhong; Bouton, Joseph H; Udvardi, Michael; Xia, Guangmin; Wang, Zeng-Yu

    2011-11-01

    Medicago truncatula has been developed into a model legume. Its close relative alfalfa (Medicago sativa) is the most widely grown forage legume crop in the United States. By screening a large population of M. truncatula mutants tagged with the transposable element of tobacco (Nicotiana tabacum) cell type1 (Tnt1), we identified a mutant line (NF2089) that maintained green leaves and showed green anthers, central carpels, mature pods, and seeds during senescence. Genetic and molecular analyses revealed that the mutation was caused by Tnt1 insertion in a STAY-GREEN (MtSGR) gene. Transcript profiling analysis of the mutant showed that loss of the MtSGR function affected the expression of a large number of genes involved in different biological processes. Further analyses revealed that SGR is implicated in nodule development and senescence. MtSGR expression was detected across all nodule developmental zones and was higher in the senescence zone. The number of young nodules on the mutant roots was higher than in the wild type. Expression levels of several nodule senescence markers were reduced in the sgr mutant. Based on the MtSGR sequence, an alfalfa SGR gene (MsSGR) was cloned, and transgenic alfalfa lines were produced by RNA interference. Silencing of MsSGR led to the production of stay-green transgenic alfalfa. This beneficial trait offers the opportunity to produce premium alfalfa hay with a more greenish appearance. In addition, most of the transgenic alfalfa lines retained more than 50% of chlorophylls during senescence and had increased crude protein content. This study illustrates the effective use of knowledge gained from a model system for the genetic improvement of an important commercial crop.

  7. Modelling protection behaviour towards micronutrient deficiencies: Case of iodine biofortified vegetable legumes as health intervention for school-going children

    PubMed Central

    De Steur, Hans; Gellynck, Xavier; Makokha, Anselimo

    2016-01-01

    BACKGROUND/OBJECTIVES Despite successes recorded in combating iodine deficiency, more than 2 billion people are still at risk of iodine deficiency disorders. Rural landlocked and mountainous areas of developing countries are the hardest hit, hence the need to explore and advance novel strategies such as biofortification. SUBJECTS/METHODS We evaluated adoption, purchase, and consumption of iodine biofortified vegetable legumes (IBVL) using the theory of protection motivations (PMT) integrated with an economic valuation technique. A total of 1,200 participants from three land-locked locations in East Africa were recruited via multi-stage cluster sampling, and data were collected using two, slightly distinct, questionnaires incorporating PMT constructs. The survey also elicited preferences for iodine biofortified foods when offered at a premium or discount. Determinants of protection motivations and preferences for iodine biofortified foods were assessed using path analysis modelling and two-limit Tobit regression, respectively. RESULTS Knowledge of iodine, iodine-health link, salt iodization, and biofortification was very low, albeit lower at the household level. Iodine and biofortification were not recognized as nutrient and novel approaches, respectively. On the other hand, severity, fear, occupation, knowledge, iodine status, household composition, and self-efficacy predicted the intention to consume biofortified foods at the household level; only vulnerability, self-efficacy, and location were the most crucial elements at the school level. In addition, results demonstrated a positive willingness-to-pay a premium or acceptance of a lesser discount for biofortification. Furthermore, preference towards iodine biofortified foods was a function of protection motivations, severity, vulnerability, fear, response efficacy, response cost, knowledge, iodine status, gender, age. and household head. CONCLUSIONS Results lend support for prevention of iodine deficiency in

  8. Structured building model reduction toward parallel simulation

    SciTech Connect

    Dobbs, Justin R.; Hencey, Brondon M.

    2013-08-26

    Building energy model reduction exchanges accuracy for improved simulation speed by reducing the number of dynamical equations. Parallel computing aims to improve simulation times without loss of accuracy but is poorly utilized by contemporary simulators and is inherently limited by inter-processor communication. This paper bridges these disparate techniques to implement efficient parallel building thermal simulation. We begin with a survey of three structured reduction approaches that compares their performance to a leading unstructured method. We then use structured model reduction to find thermal clusters in the building energy model and allocate processing resources. Experimental results demonstrate faster simulation and low error without any interprocessor communication.

  9. Comparison of Building Energy Modeling Programs: Building Loads

    SciTech Connect

    Zhu, Dandan; Hong, Tianzhen; Yan, Da; Wang, Chuang

    2012-06-01

    This technical report presented the methodologies, processes, and results of comparing three Building Energy Modeling Programs (BEMPs) for load calculations: EnergyPlus, DeST and DOE-2.1E. This joint effort, between Lawrence Berkeley National Laboratory, USA and Tsinghua University, China, was part of research projects under the US-China Clean Energy Research Center on Building Energy Efficiency (CERC-BEE). Energy Foundation, an industrial partner of CERC-BEE, was the co-sponsor of this study work. It is widely known that large discrepancies in simulation results can exist between different BEMPs. The result is a lack of confidence in building simulation amongst many users and stakeholders. In the fields of building energy code development and energy labeling programs where building simulation plays a key role, there are also confusing and misleading claims that some BEMPs are better than others. In order to address these problems, it is essential to identify and understand differences between widely-used BEMPs, and the impact of these differences on load simulation results, by detailed comparisons of these BEMPs from source code to results. The primary goal of this work was to research methods and processes that would allow a thorough scientific comparison of the BEMPs. The secondary goal was to provide a list of strengths and weaknesses for each BEMP, based on in-depth understandings of their modeling capabilities, mathematical algorithms, advantages and limitations. This is to guide the use of BEMPs in the design and retrofit of buildings, especially to support China’s building energy standard development and energy labeling program. The research findings could also serve as a good reference to improve the modeling capabilities and applications of the three BEMPs. The methodologies, processes, and analyses employed in the comparison work could also be used to compare other programs. The load calculation method of each program was analyzed and compared to

  10. Genetic transformation of western clover (Trifolium occidentale D. E. Coombe.) as a model for functional genomics and transgene introgression in clonal pasture legume species

    PubMed Central

    2013-01-01

    Background Western clover (Trifolium occidentale) is a perennial herb with characteristics compatible for its development as an attractive model species for genomics studies relating to the forage legume, white clover (Trifolium repens). Its characteristics such as a small diploid genome, self-fertility and ancestral contribution of one of the genomes of T. repens, facilitates its use as a model for genetic analysis of plants transformed with legume or novel genes. Results In this study, a reproducible transformation protocol was established following screening of T. occidentale accessions originating from England, Ireland, France, Spain and Portugal. The protocol is based upon infection of cotyledonary explants dissected from mature seed with the Agrobacterium tumefaciens strain GV3101 carrying vectors which contain the bar selection marker gene. Transformation frequencies of up to 7.5% were achieved in 9 of the 17 accessions tested. Transformed plants were verified by PCR and expression of the gusA reporter gene, while integration of the T-DNA was confirmed by Southern blot hybridisation and segregation of progeny in the T1 generation. Conclusions Development of this protocol provides a valuable contribution toward establishing T. occidentale as a model species for white clover. This presents opportunities for further improvement in white clover through the application of biotechnology. PMID:23841995

  11. Integrating Building Information Modeling and Green Building Certification: The BIM-LEED Application Model Development

    ERIC Educational Resources Information Center

    Wu, Wei

    2010-01-01

    Building information modeling (BIM) and green building are currently two major trends in the architecture, engineering and construction (AEC) industry. This research recognizes the market demand for better solutions to achieve green building certification such as LEED in the United States. It proposes a new strategy based on the integration of BIM…

  12. Integrating Building Information Modeling and Green Building Certification: The BIM-LEED Application Model Development

    ERIC Educational Resources Information Center

    Wu, Wei

    2010-01-01

    Building information modeling (BIM) and green building are currently two major trends in the architecture, engineering and construction (AEC) industry. This research recognizes the market demand for better solutions to achieve green building certification such as LEED in the United States. It proposes a new strategy based on the integration of BIM…

  13. RCrane: semi-automated RNA model building.

    PubMed

    Keating, Kevin S; Pyle, Anna Marie

    2012-08-01

    RNA crystals typically diffract to much lower resolutions than protein crystals. This low-resolution diffraction results in unclear density maps, which cause considerable difficulties during the model-building process. These difficulties are exacerbated by the lack of computational tools for RNA modeling. Here, RCrane, a tool for the partially automated building of RNA into electron-density maps of low or intermediate resolution, is presented. This tool works within Coot, a common program for macromolecular model building. RCrane helps crystallographers to place phosphates and bases into electron density and then automatically predicts and builds the detailed all-atom structure of the traced nucleotides. RCrane then allows the crystallographer to review the newly built structure and select alternative backbone conformations where desired. This tool can also be used to automatically correct the backbone structure of previously built nucleotides. These automated corrections can fix incorrect sugar puckers, steric clashes and other structural problems.

  14. Genetic control of inflorescence architecture in legumes

    PubMed Central

    Benlloch, Reyes; Berbel, Ana; Ali, Latifeh; Gohari, Gholamreza; Millán, Teresa; Madueño, Francisco

    2015-01-01

    The architecture of the inflorescence, the shoot system that bears the flowers, is a main component of the huge diversity of forms found in flowering plants. Inflorescence architecture has also a strong impact on the production of fruits and seeds, and on crop management, two highly relevant agronomical traits. Elucidating the genetic networks that control inflorescence development, and how they vary between different species, is essential to understanding the evolution of plant form and to being able to breed key architectural traits in crop species. Inflorescence architecture depends on the identity and activity of the meristems in the inflorescence apex, which determines when flowers are formed, how many are produced and their relative position in the inflorescence axis. Arabidopsis thaliana, where the genetic control of inflorescence development is best known, has a simple inflorescence, where the primary inflorescence meristem directly produces the flowers, which are thus borne in the main inflorescence axis. In contrast, legumes represent a more complex inflorescence type, the compound inflorescence, where flowers are not directly borne in the main inflorescence axis but, instead, they are formed by secondary or higher order inflorescence meristems. Studies in model legumes such as pea (Pisum sativum) or Medicago truncatula have led to a rather good knowledge of the genetic control of the development of the legume compound inflorescence. In addition, the increasing availability of genetic and genomic tools for legumes is allowing to rapidly extending this knowledge to other grain legume crops. This review aims to describe the current knowledge of the genetic network controlling inflorescence development in legumes. It also discusses how the combination of this knowledge with the use of emerging genomic tools and resources may allow rapid advances in the breeding of grain legume crops. PMID:26257753

  15. Automatic building information model query generation

    DOE PAGES

    Jiang, Yufei; Yu, Nan; Ming, Jiang; ...

    2015-12-01

    Energy efficient building design and construction calls for extensive collaboration between different subfields of the Architecture, Engineering and Construction (AEC) community. Performing building design and construction engineering raises challenges on data integration and software interoperability. Using Building Information Modeling (BIM) data hub to host and integrate building models is a promising solution to address those challenges, which can ease building design information management. However, the partial model query mechanism of current BIM data hub collaboration model has several limitations, which prevents designers and engineers to take advantage of BIM. To address this problem, we propose a general and effective approachmore » to generate query code based on a Model View Definition (MVD). This approach is demonstrated through a software prototype called QueryGenerator. In conclusion, by demonstrating a case study using multi-zone air flow analysis, we show how our approach and tool can help domain experts to use BIM to drive building design with less labour and lower overhead cost.« less

  16. Building a generalized distributed system model

    NASA Technical Reports Server (NTRS)

    Mukkamala, Ravi

    1991-01-01

    A number of topics related to building a generalized distributed system model are discussed. The effects of distributed database modeling on evaluation of transaction rollbacks, the measurement of effects of distributed database models on transaction availability measures, and a performance analysis of static locking in replicated distributed database systems are covered.

  17. RCrane: semi-automated RNA model building

    SciTech Connect

    Keating, Kevin S.; Pyle, Anna Marie

    2012-08-01

    RCrane is a new tool for the partially automated building of RNA crystallographic models into electron-density maps of low or intermediate resolution. This tool helps crystallographers to place phosphates and bases into electron density and then automatically predicts and builds the detailed all-atom structure of the traced nucleotides. RNA crystals typically diffract to much lower resolutions than protein crystals. This low-resolution diffraction results in unclear density maps, which cause considerable difficulties during the model-building process. These difficulties are exacerbated by the lack of computational tools for RNA modeling. Here, RCrane, a tool for the partially automated building of RNA into electron-density maps of low or intermediate resolution, is presented. This tool works within Coot, a common program for macromolecular model building. RCrane helps crystallographers to place phosphates and bases into electron density and then automatically predicts and builds the detailed all-atom structure of the traced nucleotides. RCrane then allows the crystallographer to review the newly built structure and select alternative backbone conformations where desired. This tool can also be used to automatically correct the backbone structure of previously built nucleotides. These automated corrections can fix incorrect sugar puckers, steric clashes and other structural problems.

  18. Edible grain legumes

    USDA-ARS?s Scientific Manuscript database

    Edible grain legumes including dry bean, dry pea, chickpeas, and lentils, have served as important sources of protein for human diets for thousands of years. In the US, these crops are predominately produced for export markets. The objective of this study was to examine yield gains in these crops ov...

  19. Extrusion cooking: Legume pulses

    USDA-ARS?s Scientific Manuscript database

    Extrusion is used commercially to produce high value breakfast and snack foods based on cereals such as wheat or corn. However, this processing method is not being commercially used for legume pulses seeds due to the perception that they do not expand well in extrusion. Extrusion cooking of pulses (...

  20. Building vulnerability assessment based on cloud model

    NASA Astrophysics Data System (ADS)

    Sun, Xixia; Cai, Chao

    2013-10-01

    This study aims at building a general framework for estimating building vulnerability to blast-fragmentation warhead of a missile. Considering the fuzziness and randomness existing in the damage criterion rules, cloud models are applied to represent the qualitative concepts. On the basis of building geometric description, element criticality analysis, blast wave and fragment movement description, and meeting analysis of fragments and target, kill probabilities of the components are estimated by the shot line method. The damage state of the whole building given the threat is obtained by cloud model based uncertainty reasoning and the proposed similarity measure, enabling both randomness of probability reasoning and the fuzziness of the traditional fuzzy logic to be considered. Experimental results demonstrate that the proposed method can provide useful reference for optimizing warhead design and mission efficiency evaluation.

  1. Model building techniques for analysis.

    SciTech Connect

    Walther, Howard P.; McDaniel, Karen Lynn; Keener, Donald; Cordova, Theresa Elena; Henry, Ronald C.; Brooks, Sean; Martin, Wilbur D.

    2009-09-01

    The practice of mechanical engineering for product development has evolved into a complex activity that requires a team of specialists for success. Sandia National Laboratories (SNL) has product engineers, mechanical designers, design engineers, manufacturing engineers, mechanical analysts and experimentalists, qualification engineers, and others that contribute through product realization teams to develop new mechanical hardware. The goal of SNL's Design Group is to change product development by enabling design teams to collaborate within a virtual model-based environment whereby analysis is used to guide design decisions. Computer-aided design (CAD) models using PTC's Pro/ENGINEER software tools are heavily relied upon in the product definition stage of parts and assemblies at SNL. The three-dimensional CAD solid model acts as the design solid model that is filled with all of the detailed design definition needed to manufacture the parts. Analysis is an important part of the product development process. The CAD design solid model (DSM) is the foundation for the creation of the analysis solid model (ASM). Creating an ASM from the DSM currently is a time-consuming effort; the turnaround time for results of a design needs to be decreased to have an impact on the overall product development. This effort can be decreased immensely through simple Pro/ENGINEER modeling techniques that summarize to the method features are created in a part model. This document contains recommended modeling techniques that increase the efficiency of the creation of the ASM from the DSM.

  2. Mass Spectrometric-Based Selected Reaction Monitoring of Protein Phosphorylation during Symbiotic Signaling in the Model Legume, Medicago truncatula

    PubMed Central

    Maeda, Junko; Barrett-Wilt, Gregory A.; Sussman, Michael R.

    2016-01-01

    Unlike the major cereal crops corn, rice, and wheat, leguminous plants such as soybean and alfalfa can meet their nitrogen requirement via endosymbiotic associations with soil bacteria. The establishment of this symbiosis is a complex process playing out over several weeks and is facilitated by the exchange of chemical signals between these partners from different kingdoms. Several plant components that are involved in this signaling pathway have been identified, but there is still a great deal of uncertainty regarding the early events in symbiotic signaling, i.e., within the first minutes and hours after the rhizobial signals (Nod factors) are perceived at the plant plasma membrane. The presence of several protein kinases in this pathway suggests a mechanism of signal transduction via posttranslational modification of proteins in which phosphate is added to the hydroxyl groups of serine, threonine and tyrosine amino acid side chains. To monitor the phosphorylation dynamics and complement our previous untargeted 'discovery' approach, we report here the results of experiments using a targeted mass spectrometric technique, Selected Reaction Monitoring (SRM) that enables the quantification of phosphorylation targets with great sensitivity and precision. Using this approach, we confirm a rapid change in the level of phosphorylation in 4 phosphosites of at least 4 plant phosphoproteins that have not been previously characterized. This detailed analysis reveals aspects of the symbiotic signaling mechanism in legumes that, in the long term, will inform efforts to engineer this nitrogen-fixing symbiosis in important non-legume crops such as rice, wheat and corn. PMID:27203723

  3. Modeling UHF Radio Propagation in Buildings.

    NASA Astrophysics Data System (ADS)

    Honcharenko, Walter

    The potential implementation of wireless Radio Local Area Networks and Personal Communication Services inside buildings requires a thorough understanding of signal propagation within buildings. This work describes a study leading to a theoretical understanding of wave propagation phenomenon inside buildings. Covered first is propagation in the clear space between the floor and ceiling, which is modeled using Kirchoff -Huygens diffraction theory. This along with ray tracing techniques are used to develop a model to predict signal coverage inside buildings. Simulations were conducted on a hotel building, two office buildings, and a university building to which measurements of CW signals were compared, with good agreement. Propagation to other floors was studied to determine the signal strength as a function of the number of floors separating transmitter and receiver. Diffraction paths and through the floor paths which carry significant power to the receivers were examined. Comparisons were made to measurements in a hotel building and an office building, in which agreements were excellent. As originally developed for Cellular Mobile Radio (CMR) systems, the sector average is obtained from the spatial average of the received signal as the mobile traverses a path of 20 or so wavelengths. This approach has also been applied indoors with the assumption that a unique average could be obtained by moving either end of the radio link. However, unlike in the CMR environment, inside buildings both ends of the radio link are in a rich multipath environment. It is shown both theoretically and experimentally that moving both ends of the link is required to achieve a unique average. Accurate modeling of the short pulse response of a signal within a building will provide insight for determining the hardware necessary for high speed data transmission and recovery, and a model for determining the impulse response is developed in detail. Lastly, the propagation characteristics of

  4. Model Building for Conceptual Change

    ERIC Educational Resources Information Center

    Jonassen, David; Strobel, Johannes; Gottdenker, Joshua

    2005-01-01

    Conceptual change is a popular, contemporary conception of meaningful learning. Conceptual change describes changes in conceptual frameworks (mental models or personal theories) that learners construct to comprehend phenomena. Different theories of conceptual change describe the reorganization of conceptual frameworks that results from different…

  5. Budget Formulas and Model Building.

    ERIC Educational Resources Information Center

    Cope, Robert G.

    Selected budget formulas currently in use for university operations are described as a background for examining a budgetary model that would provide for the integration of separate formulas. Data on the formulas were collected from states with system-wide coordinating boards that are responsible for budgetary reviews. The most common formula…

  6. Impacts of Model Building Energy Codes

    SciTech Connect

    Athalye, Rahul A.; Sivaraman, Deepak; Elliott, Douglas B.; Liu, Bing; Bartlett, Rosemarie

    2016-10-31

    The U.S. Department of Energy (DOE) Building Energy Codes Program (BECP) periodically evaluates national and state-level impacts associated with energy codes in residential and commercial buildings. Pacific Northwest National Laboratory (PNNL), funded by DOE, conducted an assessment of the prospective impacts of national model building energy codes from 2010 through 2040. A previous PNNL study evaluated the impact of the Building Energy Codes Program; this study looked more broadly at overall code impacts. This report describes the methodology used for the assessment and presents the impacts in terms of energy savings, consumer cost savings, and reduced CO2 emissions at the state level and at aggregated levels. This analysis does not represent all potential savings from energy codes in the U.S. because it excludes several states which have codes which are fundamentally different from the national model energy codes or which do not have state-wide codes. Energy codes follow a three-phase cycle that starts with the development of a new model code, proceeds with the adoption of the new code by states and local jurisdictions, and finishes when buildings comply with the code. The development of new model code editions creates the potential for increased energy savings. After a new model code is adopted, potential savings are realized in the field when new buildings (or additions and alterations) are constructed to comply with the new code. Delayed adoption of a model code and incomplete compliance with the code’s requirements erode potential savings. The contributions of all three phases are crucial to the overall impact of codes, and are considered in this assessment.

  7. LegumeIP 2.0--a platform for the study of gene function and genome evolution in legumes.

    PubMed

    Li, Jun; Dai, Xinbin; Zhuang, Zhaohong; Zhao, Patrick X

    2016-01-04

    The LegumeIP 2.0 database hosts large-scale genomics and transcriptomics data and provides integrative bioinformatics tools for the study of gene function and evolution in legumes. Our recent updates in LegumeIP 2.0 include gene and protein sequences, gene models and annotations, syntenic regions, protein families and phylogenetic trees for six legume species: Medicago truncatula, Glycine max (soybean), Lotus japonicus, Phaseolus vulgaris (common bean), Cicer arietinum (chickpea) and Cajanus cajan (pigeon pea) and two outgroup reference species: Arabidopsis thaliana and Poplar trichocarpa. Moreover, the LegumeIP 2.0 features the following new data resources and bioinformatics tools: (i) an integrative gene expression atlas for four model legumes that include 550 array hybridizations from M. truncatula, 962 gene expression profiles of G. max, 276 array hybridizations from L. japonicas and 56 RNA-Seq-based gene expression profiles for C. arietinum. These datasets were manually curated and hierarchically organized based on Experimental Ontology and Plant Ontology so that users can browse, search, and retrieve data for their selected experiments. (ii) New functions/analytical tools to query, mine and visualize large-scale gene sequences, annotations and transcriptome profiles. Users may select a subset of expression experiments and visualize and compare expression profiles for multiple genes. The LegumeIP 2.0 database is freely available to the public at http://plantgrn.noble.org/LegumeIP/.

  8. U.S. Department of Energy Commercial Reference Building Models of the National Building Stock

    SciTech Connect

    Deru, M.; Field, K.; Studer, D.; Benne, K.; Griffith, B.; Torcellini, P.; Liu, B.; Halverson, M.; Winiarski, D.; Rosenberg, M.; Yazdanian, M.; Huang, J.; Crawley, D.

    2011-02-01

    The U.S. Department of Energy (DOE) Building Technologies Program has set the aggressive goal of producing marketable net-zero energy buildings by 2025. This goal will require collaboration between the DOE laboratories and the building industry. We developed standard or reference energy models for the most common commercial buildings to serve as starting points for energy efficiency research. These models represent fairly realistic buildings and typical construction practices. Fifteen commercial building types and one multifamily residential building were determined by consensus between DOE, the National Renewable Energy Laboratory, Pacific Northwest National Laboratory, and Lawrence Berkeley National Laboratory, and represent approximately two-thirds of the commercial building stock.

  9. Legume-rhizobia signal exchange: promiscuity and environmental effects

    PubMed Central

    Lira, Mario A.; Nascimento, Luciana R. S.; Fracetto, Giselle G. M.

    2015-01-01

    Although signal exchange between legumes and their rhizobia is among the best-known examples of this biological process, most of the more characterized data comes from just a few legume species and environmental stresses. Although a relative wealth of information is available for some model legumes and some of the major pulses such as soybean, little is known about tropical legumes. This relative disparity in current knowledge is also apparent in the research on the effects of environmental stress on signal exchange; cool-climate stresses, such as low-soil temperature, comprise a relatively large body of research, whereas high-temperature stresses and drought are not nearly as well understood. Both tropical legumes and their environmental stress-induced effects are increasingly important due to global population growth (the demand for protein), climate change (increasing temperatures and more extreme climate behavior), and urbanization (and thus heavy metals). This knowledge gap for both legumes and their environmental stresses is compounded because whereas most temperate legume-rhizobia symbioses are relatively specific and cultivated under relatively stable environments, the converse is true for tropical legumes, which tend to be promiscuous, and grow in highly variable conditions. This review will clarify some of this missing information and highlight fields in which further research would benefit our current knowledge. PMID:26441880

  10. Legume-rhizobia signal exchange: promiscuity and environmental effects.

    PubMed

    Lira, Mario A; Nascimento, Luciana R S; Fracetto, Giselle G M

    2015-01-01

    Although signal exchange between legumes and their rhizobia is among the best-known examples of this biological process, most of the more characterized data comes from just a few legume species and environmental stresses. Although a relative wealth of information is available for some model legumes and some of the major pulses such as soybean, little is known about tropical legumes. This relative disparity in current knowledge is also apparent in the research on the effects of environmental stress on signal exchange; cool-climate stresses, such as low-soil temperature, comprise a relatively large body of research, whereas high-temperature stresses and drought are not nearly as well understood. Both tropical legumes and their environmental stress-induced effects are increasingly important due to global population growth (the demand for protein), climate change (increasing temperatures and more extreme climate behavior), and urbanization (and thus heavy metals). This knowledge gap for both legumes and their environmental stresses is compounded because whereas most temperate legume-rhizobia symbioses are relatively specific and cultivated under relatively stable environments, the converse is true for tropical legumes, which tend to be promiscuous, and grow in highly variable conditions. This review will clarify some of this missing information and highlight fields in which further research would benefit our current knowledge.

  11. Mobile Modelling for Crowdsourcing Building Interior Data

    NASA Astrophysics Data System (ADS)

    Rosser, J.; Morley, J.; Jackson, M.

    2012-06-01

    Indoor spatial data forms an important foundation to many ubiquitous computing applications. It gives context to users operating location-based applications, provides an important source of documentation of buildings and can be of value to computer systems where an understanding of environment is required. Unlike external geographic spaces, no centralised body or agency is charged with collecting or maintaining such information. Widespread deployment of mobile devices provides a potential tool that would allow rapid model capture and update by a building's users. Here we introduce some of the issues involved in volunteering building interior data and outline a simple mobile tool for capture of indoor models. The nature of indoor data is inherently private; however in-depth analysis of this issue and legal considerations are not discussed in detail here.

  12. 97. ORIGINAL ARCHITECT'S MODEL OF BUILDING AS FIRST DESIGNED, NORTH ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    97. ORIGINAL ARCHITECT'S MODEL OF BUILDING AS FIRST DESIGNED, NORTH FRONT - Smithsonian Institution Building, 1000 Jefferson Drive, between Ninth & Twelfth Streets, Southwest, Washington, District of Columbia, DC

  13. Promoting Mental Model Building in Astronomy Education

    ERIC Educational Resources Information Center

    Taylor, Ian; Barker, Miles; Jones, Alister

    2003-01-01

    While astronomy has recently re-emerged in many science curricula, there remain unresolved teaching and learning difficulties peculiar to astronomy education. This paper argues that mental model building, the core process in astronomy itself, should be reflected in astronomy education. Also, this crucial skill may promote a better understanding of…

  14. Promoting Mental Model Building in Astronomy Education

    ERIC Educational Resources Information Center

    Taylor, Ian; Barker, Miles; Jones, Alister

    2003-01-01

    While astronomy has recently re-emerged in many science curricula, there remain unresolved teaching and learning difficulties peculiar to astronomy education. This paper argues that mental model building, the core process in astronomy itself, should be reflected in astronomy education. Also, this crucial skill may promote a better understanding of…

  15. Scripted Building Energy Modeling and Analysis (Presentation)

    SciTech Connect

    Macumber, D.

    2012-10-01

    Building energy analysis is often time-intensive, error-prone, and non-reproducible. Entire energy analyses can be scripted end-to-end using the OpenStudio Ruby API. Common tasks within an analysis can be automated using OpenStudio Measures. Graphical user interfaces (GUI's) and component libraries reduce time, decrease errors, and improve repeatability in energy modeling.

  16. Indoor Air Quality Building Education and Assessment Model

    EPA Pesticide Factsheets

    The Indoor Air Quality Building Education and Assessment Model (I-BEAM), released in 2002, is a guidance tool designed for use by building professionals and others interested in indoor air quality in commercial buildings.

  17. Indoor Air Quality Building Education and Assessment Model Forms

    EPA Pesticide Factsheets

    The Indoor Air Quality Building Education and Assessment Model (I-BEAM) is a guidance tool designed for use by building professionals and others interested in indoor air quality in commercial buildings.

  18. Building the RHIC tracking lattice model

    SciTech Connect

    Luo, Y.; Fischer, W.; Tepikian, S.

    2010-01-27

    In this note we outline the procedure to build a realistic lattice model for the RHIC beam-beam tracking simulation. We will install multipole field errors in the arc main dipoles, arc main quadrupols and interaction region magnets (DX, D0, and triplets) and introduce a residual closed orbit, tune ripples, and physical apertures in the tracking lattice model. Nonlinearities such as local IR multipoles, second order chromaticies and third order resonance driving terms are also corrected before tracking.

  19. Effects of salt stress on the expression of antioxidant genes and proteins in the model legume Lotus japonicus.

    PubMed

    Rubio, Maria C; Bustos-Sanmamed, Pilar; Clemente, Maria R; Becana, Manuel

    2009-03-01

    Salt stress negatively affects many physiological processes in plants. Some of these effects may involve the oxidative damage of cellular components, which can be promoted by reactive oxygen species and prevented by antioxidants. The protective role of antioxidants was investigated in Lotus japonicus exposed to two salinization protocols: S1 (150 mM NaCl for 7 d) and S2 (50, 100 and 150 mM NaCl, each concentration for 6 d). Several markers of salt stress were measured and the expression of antioxidant genes was analyzed using quantitative reverse transcription–polymerase chain reaction and, in some cases, immunoblots and enzyme activity assays. Leaves of S1 plants suffered from mild osmotic stress, accumulated proline but noNa+, and showed induction of many superoxide dismutase and glutathione peroxidase genes. Leaves of S2 plants showed increases in Na+ and Ca2+, decreases in K+, and accumulation of proline and malondialdehyde. In leaves and roots of S1 and S2 plants, the mRNA, protein and activity levels of the ascorbate-glutathione enzymes remained constant, with a few exceptions. Notably, there was consistent up-regulation of the gene encoding cytosolic dehydroascorbate reductase, and this was possibly related to its role in ascorbate recycling in the apoplast. The overall results indicate that L. japonicus is more tolerant to salt stress than other legumes, which can be attributed to the capacity of the plant to prevent Na+reaching the shoot and to activate antioxidant defenses.

  20. Genome sequence of Ensifer meliloti strain WSM1022; a highly effective microsymbiont of the model legume Medicago truncatula A17

    PubMed Central

    Terpolilli, Jason; Hill, Yvette; Tian, Rui; Howieson, John; Bräu, Lambert; Goodwin, Lynne; Han, James; Liolios, Konstantinos; Huntemann, Marcel; Pati, Amrita; Woyke, Tanja; Mavromatis, Konstantinos; Markowitz, Victor; Ivanova, Natalia; Kyrpides, Nikos; Reeve, Wayne

    2013-01-01

    Ensifer meliloti WSM1022 is an aerobic, motile, Gram-negative, non-spore-forming rod that can exist as a soil saprophyte or as a legume microsymbiont of Medicago. WSM1022 was isolated in 1987 from a nodule recovered from the roots of the annual Medicago orbicularis growing on the Cyclades Island of Naxos in Greece. WSM1022 is highly effective at fixing nitrogen with M. truncatula and other annual species such as M. tornata and M. littoralis and is also highly effective with the perennial M. sativa (alfalfa or lucerne). In common with other characterized E. meliloti strains, WSM1022 will nodulate but fixes poorly with M. polymorpha and M. sphaerocarpos and does not nodulate M. murex. Here we describe the features of E. meliloti WSM1022, together with genome sequence information and its annotation. The 6,649,661 bp high-quality-draft genome is arranged into 121 scaffolds of 125 contigs containing 6,323 protein-coding genes and 75 RNA-only encoding genes, and is one of 100 rhizobial genomes sequenced as part of the DOE Joint Genome Institute 2010 Genomic Encyclopedia for Bacteria and Archaea-Root Nodule Bacteria (GEBA-RNB) project. PMID:24976888

  1. Genome sequence of Ensifer meliloti strain WSM1022; a highly effective microsymbiont of the model legume Medicago truncatula A17.

    PubMed

    Terpolilli, Jason; Hill, Yvette; Tian, Rui; Howieson, John; Bräu, Lambert; Goodwin, Lynne; Han, James; Liolios, Konstantinos; Huntemann, Marcel; Pati, Amrita; Woyke, Tanja; Mavromatis, Konstantinos; Markowitz, Victor; Ivanova, Natalia; Kyrpides, Nikos; Reeve, Wayne

    2013-12-20

    Ensifer meliloti WSM1022 is an aerobic, motile, Gram-negative, non-spore-forming rod that can exist as a soil saprophyte or as a legume microsymbiont of Medicago. WSM1022 was isolated in 1987 from a nodule recovered from the roots of the annual Medicago orbicularis growing on the Cyclades Island of Naxos in Greece. WSM1022 is highly effective at fixing nitrogen with M. truncatula and other annual species such as M. tornata and M. littoralis and is also highly effective with the perennial M. sativa (alfalfa or lucerne). In common with other characterized E. meliloti strains, WSM1022 will nodulate but fixes poorly with M. polymorpha and M. sphaerocarpos and does not nodulate M. murex. Here we describe the features of E. meliloti WSM1022, together with genome sequence information and its annotation. The 6,649,661 bp high-quality-draft genome is arranged into 121 scaffolds of 125 contigs containing 6,323 protein-coding genes and 75 RNA-only encoding genes, and is one of 100 rhizobial genomes sequenced as part of the DOE Joint Genome Institute 2010 Genomic Encyclopedia for Bacteria and Archaea-Root Nodule Bacteria (GEBA-RNB) project.

  2. Scripted Building Energy Modeling and Analysis: Preprint

    SciTech Connect

    Hale, E.; Macumber, D.; Benne, K.; Goldwasser, D.

    2012-08-01

    Building energy modeling and analysis is currently a time-intensive, error-prone, and nonreproducible process. This paper describes the scripting platform of the OpenStudio tool suite (http://openstudio.nrel.gov) and demonstrates its use in several contexts. Two classes of scripts are described and demonstrated: measures and free-form scripts. Measures are small, single-purpose scripts that conform to a predefined interface. Because measures are fairly simple, they can be written or modified by inexperienced programmers.

  3. Building shape models from lousy data.

    PubMed

    Lüthi, Marcel; Albrecht, Thomas; Vetter, Thomas

    2009-01-01

    Statistical shape models have gained widespread use in medical image analysis. In order for such models to be statistically meaningful, a large number of data sets have to be included. The number of available data sets is usually limited and often the data is corrupted by imaging artifacts or missing information. We propose a method for building a statistical shape model from such "lousy" data sets. The method works by identifying the corrupted parts of a shape as statistical outliers and excluding these parts from the model. Only the parts of a shape that were identified as outliers are discarded, while all the intact parts are included in the model. The model building is then performed using the EM algorithm for probabilistic principal component analysis, which allows for a principled way to handle missing data. Our experiments on 2D synthetic and real 3D medical data sets confirm the feasibility of the approach. We show that it yields superior models compared to approaches using robust statistics, which only downweight the influence of outliers.

  4. How legumes recognize rhizobia.

    PubMed

    Via, Virginia Dalla; Zanetti, María Eugenia; Blanco, Flavio

    2016-01-01

    Legume plants have developed the capacity to establish symbiotic interactions with soil bacteria (known as rhizobia) that can convert N2 to molecular forms that are incorporated into the plant metabolism. The first step of this relationship is the recognition of bacteria by the plant, which allows to distinguish potentially harmful species from symbiotic partners. The main molecular determinant of this symbiotic interaction is the Nod Factor, a diffusible lipochitooligosaccharide molecule produced by rhizobia and perceived by LysM receptor kinases; however, other important molecules involved in the specific recognition have emerged over the years. Secreted exopolysaccharides and the lipopolysaccharides present in the bacterial cell wall have been proposed to act as signaling molecules, triggering the expression of specific genes related to the symbiotic process. In this review we will briefly discuss how transcriptomic analysis are helping to understand how multiple signaling pathways, triggered by the perception of different molecules produced by rhizobia, control the genetic programs of root nodule organogenesis and bacterial infection. This knowledge can help to understand how legumes have evolved to recognize and establish complex ecological relationships with particular species and strains of rhizobia, adjusting gene expression in response to identity determinants of bacteria.

  5. Building information models for astronomy projects

    NASA Astrophysics Data System (ADS)

    Ariño, Javier; Murga, Gaizka; Campo, Ramón; Eletxigerra, Iñigo; Ampuero, Pedro

    2012-09-01

    A Building Information Model is a digital representation of physical and functional characteristics of a building. BIMs represent the geometrical characteristics of the Building, but also properties like bills of quantities, definition of COTS components, status of material in the different stages of the project, project economic data, etc. The BIM methodology, which is well established in the Architecture Engineering and Construction (AEC) domain for conventional buildings, has been brought one step forward in its application for Astronomical/Scientific facilities. In these facilities steel/concrete structures have high dynamic and seismic requirements, M&E installations are complex and there is a large amount of special equipment and mechanisms involved as a fundamental part of the facility. The detail design definition is typically implemented by different design teams in specialized design software packages. In order to allow the coordinated work of different engineering teams, the overall model, and its associated engineering database, is progressively integrated using a coordination and roaming software which can be used before starting construction phase for checking interferences, planning the construction sequence, studying maintenance operation, reporting to the project office, etc. This integrated design & construction approach will allow to efficiently plan construction sequence (4D). This is a powerful tool to study and analyze in detail alternative construction sequences and ideally coordinate the work of different construction teams. In addition engineering, construction and operational database can be linked to the virtual model (6D), what gives to the end users a invaluable tool for the lifecycle management, as all the facility information can be easily accessed, added or replaced. This paper presents the BIM methodology as implemented by IDOM with the E-ELT and ATST Enclosures as application examples.

  6. Boxes of Model Building and Visualization.

    PubMed

    Turk, Dušan

    2017-01-01

    Macromolecular crystallography and electron microscopy (single-particle and in situ tomography) are merging into a single approach used by the two coalescing scientific communities. The merger is a consequence of technical developments that enabled determination of atomic structures of macromolecules by electron microscopy. Technological progress in experimental methods of macromolecular structure determination, computer hardware, and software changed and continues to change the nature of model building and visualization of molecular structures. However, the increase in automation and availability of structure validation are reducing interactive manual model building to fiddling with details. On the other hand, interactive modeling tools increasingly rely on search and complex energy calculation procedures, which make manually driven changes in geometry increasingly powerful and at the same time less demanding. Thus, the need for accurate manual positioning of a model is decreasing. The user's push only needs to be sufficient to bring the model within the increasing convergence radius of the computing tools. It seems that we can now better than ever determine an average single structure. The tools work better, requirements for engagement of human brain are lowered, and the frontier of intellectual and scientific challenges has moved on. The quest for resolution of new challenges requires out-of-the-box thinking. A few issues such as model bias and correctness of structure, ongoing developments in parameters defining geometric restraints, limitations of the ideal average single structure, and limitations of Bragg spot data are discussed here, together with the challenges that lie ahead.

  7. Building Chaotic Model From Incomplete Time Series

    NASA Astrophysics Data System (ADS)

    Siek, Michael; Solomatine, Dimitri

    2010-05-01

    This paper presents a number of novel techniques for building a predictive chaotic model from incomplete time series. A predictive chaotic model is built by reconstructing the time-delayed phase space from observed time series and the prediction is made by a global model or adaptive local models based on the dynamical neighbors found in the reconstructed phase space. In general, the building of any data-driven models depends on the completeness and quality of the data itself. However, the completeness of the data availability can not always be guaranteed since the measurement or data transmission is intermittently not working properly due to some reasons. We propose two main solutions dealing with incomplete time series: using imputing and non-imputing methods. For imputing methods, we utilized the interpolation methods (weighted sum of linear interpolations, Bayesian principle component analysis and cubic spline interpolation) and predictive models (neural network, kernel machine, chaotic model) for estimating the missing values. After imputing the missing values, the phase space reconstruction and chaotic model prediction are executed as a standard procedure. For non-imputing methods, we reconstructed the time-delayed phase space from observed time series with missing values. This reconstruction results in non-continuous trajectories. However, the local model prediction can still be made from the other dynamical neighbors reconstructed from non-missing values. We implemented and tested these methods to construct a chaotic model for predicting storm surges at Hoek van Holland as the entrance of Rotterdam Port. The hourly surge time series is available for duration of 1990-1996. For measuring the performance of the proposed methods, a synthetic time series with missing values generated by a particular random variable to the original (complete) time series is utilized. There exist two main performance measures used in this work: (1) error measures between the actual

  8. Simplified Models for Dark Matter Model Building

    NASA Astrophysics Data System (ADS)

    DiFranzo, Anthony Paul

    The largest mass component of the universe is a longstanding mystery to the physics community. As a glaring source of new physics beyond the Standard Model, there is a large effort to uncover the quantum nature of dark matter. Many probes have been formed to search for this elusive matter; cultivating a rich environment for a phenomenologist. In addition to the primary probes---colliders, direct detection, and indirect detection---each with their own complexities, there is a plethora of prospects to illuminate our unanswered questions. In this work, phenomenological techniques for studying dark matter and other possible hints of new physics will be discussed. This work primarily focuses on the use of Simplified Models, which are intended to be a compromise between generality and validity of the theoretical description. They are often used to parameterize a particular search, develop a well-defined sense of complementarity between searches, or motivate new search strategies. Explicit examples of such models and how they may be used will be the highlight of each chapter.

  9. Building character: a model for reflective practice.

    PubMed

    Bryan, Charles S; Babelay, Allison M

    2009-09-01

    In 1950, Harrison and colleagues proposed that the physician's ultimate and sufficient destiny should be to "build an enduring edifice of character." Recent work in philosophy underscores the importance of character ethics (virtue ethics) as a complement to ethical systems based on duty (deontology) or results (consequentialism). Recent work in psychology suggests that virtues and character strengths can, to at least some extent, be analyzed and taught. Building character might be enhanced by promoting among students, residents, and faculty a four-step method of reflective practice that includes (1) the details of a situation, (2) the relevant virtues, (3) the relevant principles, values, and ethical frameworks, and (4) the range of acceptable courses of action. Exercises using such a model bring together the major goals of ethics education in U.S. medical schools--teaching the set of skills needed for resolving ethical dilemmas and promoting virtue and professionalism among physicians.

  10. Model building in nonproportional hazard regression.

    PubMed

    Rodríguez-Girondo, Mar; Kneib, Thomas; Cadarso-Suárez, Carmen; Abu-Assi, Emad

    2013-12-30

    Recent developments of statistical methods allow for a very flexible modeling of covariates affecting survival times via the hazard rate, including also the inspection of possible time-dependent associations. Despite their immediate appeal in terms of flexibility, these models typically introduce additional difficulties when a subset of covariates and the corresponding modeling alternatives have to be chosen, that is, for building the most suitable model for given data. This is particularly true when potentially time-varying associations are given. We propose to conduct a piecewise exponential representation of the original survival data to link hazard regression with estimation schemes based on of the Poisson likelihood to make recent advances for model building in exponential family regression accessible also in the nonproportional hazard regression context. A two-stage stepwise selection approach, an approach based on doubly penalized likelihood, and a componentwise functional gradient descent approach are adapted to the piecewise exponential regression problem. These three techniques were compared via an intensive simulation study. An application to prognosis after discharge for patients who suffered a myocardial infarction supplements the simulation to demonstrate the pros and cons of the approaches in real data analyses.

  11. Building models of animals from video.

    PubMed

    Ramanan, Deva; Forsyth, David A; Barnard, Kobus

    2006-08-01

    This paper argues that tracking, object detection, and model building are all similar activities. We describe a fully automatic system that builds 2D articulated models known as pictorial structures from videos of animals. The learned model can be used to detect the animal in the original video--in this sense, the system can be viewed as a generalized tracker (one that is capable of modeling objects while tracking them). The learned model can be matched to a visual library; here, the system can be viewed as a video recognition algorithm. The learned model can also be used to detect the animal in novel images--in this case, the system can be seen as a method for learning models for object recognition. We find that we can significantly improve the pictorial structures by augmenting them with a discriminative texture model learned from a texture library. We develop a novel texture descriptor that outperforms the state-of-the-art for animal textures. We demonstrate the entire system on real video sequences of three different animals. We show that we can automatically track and identify the given animal. We use the learned models to recognize animals from two data sets; images taken by professional photographers from the Corel collection, and assorted images from the Web returned by Google. We demonstrate quite good performance on both data sets. Comparing our results with simple baselines, we show that, for the Google set, we can detect, localize, and recover part articulations from a collection demonstrably hard for object recognition.

  12. Methodology for Modeling Building Energy Performance across the Commercial Sector

    SciTech Connect

    Griffith, B.; Long, N.; Torcellini, P.; Judkoff, R.; Crawley, D.; Ryan, J.

    2008-03-01

    This report uses EnergyPlus simulations of each building in the 2003 Commercial Buildings Energy Consumption Survey (CBECS) to document and demonstrate bottom-up methods of modeling the entire U.S. commercial buildings sector (EIA 2006). The ability to use a whole-building simulation tool to model the entire sector is of interest because the energy models enable us to answer subsequent 'what-if' questions that involve technologies and practices related to energy. This report documents how the whole-building models were generated from the building characteristics in 2003 CBECS and compares the simulation results to the survey data for energy use.

  13. Modeling pollutant penetration across building envelopes

    SciTech Connect

    Liu, De-Ling; Nazaroff, William W.

    2001-04-01

    As air infiltrates through unintentional openings in building envelopes, pollutants may interact with adjacent surfaces. Such interactions can alter human exposure to air pollutants of outdoor origin. We present modeling explorations of the proportion of particles and reactive gases (e.g., ozone) that penetrate building envelopes as air enters through cracks and wall cavities. Calculations were performed for idealized rectangular cracks, assuming regular geometry, smooth inner crack surface and steady airflow. Particles of 0.1-1.0 {micro}m diameter are predicted to have the highest penetration efficiency, nearly unity for crack heights of 0.25 mm or larger, assuming a pressure difference of 4 Pa or greater and a flow path length of 3 cm or less. Supermicron and ultrafine particles are significantly removed by means of gravitational settling and Brownian diffusion, respectively. In addition to crack geometry, ozone penetration depends on its reactivity with crack surfaces, as parameterized by the reaction probability. For reaction probabilities less than {approx}10{sup -5}, penetration is complete for cracks heights greater than 1 mm. However, penetration through mm scale cracks is small if the reaction probability is {approx}10{sup -4} or greater. For wall cavities, fiberglass insulation is an efficient particle filter, but particles would penetrate efficiently through uninsulated wall cavities or through insulated cavities with significant airflow bypass. The ozone reaction probability on fiberglass fibers was measured to be 10{sup -7} for fibers previously exposed to high ozone levels and 6 x 10{sup -6} for unexposed fibers. Over this range, ozone penetration through fiberglass insulation would vary from >90% to {approx}10-40%. Thus, under many conditions penetration is high; however, there are realistic circumstances in which building envelopes can provide substantial pollutant removal. Not enough is yet known about the detailed nature of pollutant penetration

  14. Iterative build OMIT maps: Map improvement by iterative model-building and refinement without model bias

    SciTech Connect

    Los Alamos National Laboratory, Mailstop M888, Los Alamos, NM 87545, USA; Lawrence Berkeley National Laboratory, One Cyclotron Road, Building 64R0121, Berkeley, CA 94720, USA; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, England; Terwilliger, Thomas; Terwilliger, T.C.; Grosse-Kunstleve, Ralf Wilhelm; Afonine, P.V.; Moriarty, N.W.; Zwart, P.H.; Hung, L.-W.; Read, R.J.; Adams, P.D.

    2008-02-12

    A procedure for carrying out iterative model-building, density modification and refinement is presented in which the density in an OMIT region is essentially unbiased by an atomic model. Density from a set of overlapping OMIT regions can be combined to create a composite 'Iterative-Build' OMIT map that is everywhere unbiased by an atomic model but also everywhere benefiting from the model-based information present elsewhere in the unit cell. The procedure may have applications in the validation of specific features in atomic models as well as in overall model validation. The procedure is demonstrated with a molecular replacement structure and with an experimentally-phased structure, and a variation on the method is demonstrated by removing model bias from a structure from the Protein Data Bank.

  15. Directions for model building from asymptotic safety

    NASA Astrophysics Data System (ADS)

    Bond, Andrew D.; Hiller, Gudrun; Kowalska, Kamila; Litim, Daniel F.

    2017-08-01

    Building on recent advances in the understanding of gauge-Yukawa theories we explore possibilities to UV-complete the Standard Model in an asymptotically safe manner. Minimal extensions are based on a large flavor sector of additional fermions coupled to a scalar singlet matrix field. We find that asymptotic safety requires fermions in higher representations of SU(3) C × SU(2) L . Possible signatures at colliders are worked out and include R-hadron searches, diboson signatures and the evolution of the strong and weak coupling constants.

  16. A focus on building information modelling.

    PubMed

    Ryan, Alison

    2014-03-01

    With the Government Construction Strategy requiring a strengthening of the public sector's capability to implement Building Information Modelling (BIM) protocols, the goal being that all central government departments will be adopting, as a minimum, collaborative Level 2 BIM by 2016, Alison Ryan, of consulting engineers, DSSR, explains the principles behind BIM, its history and evolution, and some of the considerable benefits it can offer. These include lowering capital project costs through enhanced co-ordination, cutting carbon emissions, and the ability to manage facilities more efficiently.

  17. A consolidated analysis of the physiologic and molecular responses induced under acid stress in the legume-symbiont model-soil bacterium Sinorhizobium meliloti

    PubMed Central

    Draghi, W. O.; Del Papa, M. F.; Hellweg, C.; Watt, S. A.; Watt, T. F.; Barsch, A.; Lozano, M. J.; Lagares, A.; Salas, M. E.; López, J. L.; Albicoro, F. J.; Nilsson, J. F.; Torres Tejerizo, G. A.; Luna, M. F.; Pistorio, M.; Boiardi, J. L.; Pühler, A.; Weidner, S.; Niehaus, K.; Lagares, A.

    2016-01-01

    Abiotic stresses in general and extracellular acidity in particular disturb and limit nitrogen-fixing symbioses between rhizobia and their host legumes. Except for valuable molecular-biological studies on different rhizobia, no consolidated models have been formulated to describe the central physiologic changes that occur in acid-stressed bacteria. We present here an integrated analysis entailing the main cultural, metabolic, and molecular responses of the model bacterium Sinorhizobium meliloti growing under controlled acid stress in a chemostat. A stepwise extracellular acidification of the culture medium had indicated that S. meliloti stopped growing at ca. pH 6.0–6.1. Under such stress the rhizobia increased the O2 consumption per cell by more than 5-fold. This phenotype, together with an increase in the transcripts for several membrane cytochromes, entails a higher aerobic-respiration rate in the acid-stressed rhizobia. Multivariate analysis of global metabolome data served to unequivocally correlate specific-metabolite profiles with the extracellular pH, showing that at low pH the pentose-phosphate pathway exhibited increases in several transcripts, enzymes, and metabolites. Further analyses should be focused on the time course of the observed changes, its associated intracellular signaling, and on the comparison with the changes that operate during the sub lethal acid-adaptive response (ATR) in rhizobia. PMID:27404346

  18. A consolidated analysis of the physiologic and molecular responses induced under acid stress in the legume-symbiont model-soil bacterium Sinorhizobium meliloti.

    PubMed

    Draghi, W O; Del Papa, M F; Hellweg, C; Watt, S A; Watt, T F; Barsch, A; Lozano, M J; Lagares, A; Salas, M E; López, J L; Albicoro, F J; Nilsson, J F; Torres Tejerizo, G A; Luna, M F; Pistorio, M; Boiardi, J L; Pühler, A; Weidner, S; Niehaus, K; Lagares, A

    2016-07-11

    Abiotic stresses in general and extracellular acidity in particular disturb and limit nitrogen-fixing symbioses between rhizobia and their host legumes. Except for valuable molecular-biological studies on different rhizobia, no consolidated models have been formulated to describe the central physiologic changes that occur in acid-stressed bacteria. We present here an integrated analysis entailing the main cultural, metabolic, and molecular responses of the model bacterium Sinorhizobium meliloti growing under controlled acid stress in a chemostat. A stepwise extracellular acidification of the culture medium had indicated that S. meliloti stopped growing at ca. pH 6.0-6.1. Under such stress the rhizobia increased the O2 consumption per cell by more than 5-fold. This phenotype, together with an increase in the transcripts for several membrane cytochromes, entails a higher aerobic-respiration rate in the acid-stressed rhizobia. Multivariate analysis of global metabolome data served to unequivocally correlate specific-metabolite profiles with the extracellular pH, showing that at low pH the pentose-phosphate pathway exhibited increases in several transcripts, enzymes, and metabolites. Further analyses should be focused on the time course of the observed changes, its associated intracellular signaling, and on the comparison with the changes that operate during the sub lethal acid-adaptive response (ATR) in rhizobia.

  19. The scientific modeling assistant: An advanced software tool for scientific model building

    NASA Technical Reports Server (NTRS)

    Keller, Richard M.; Sims, Michael H.

    1991-01-01

    Viewgraphs on the scientific modeling assistant: an advanced software tool for scientific model building are presented. The objective is to build a specialized software tool to assist in scientific model-building.

  20. The scientific modeling assistant: An advanced software tool for scientific model building

    NASA Technical Reports Server (NTRS)

    Keller, Richard M.; Sims, Michael H.

    1991-01-01

    Viewgraphs on the scientific modeling assistant: an advanced software tool for scientific model building are presented. The objective is to build a specialized software tool to assist in scientific model-building.

  1. Phytochelatin synthases of the model legume Lotus japonicus. A small multigene family with differential response to cadmium and alternatively spliced variants.

    PubMed

    Ramos, Javier; Clemente, Maria R; Naya, Loreto; Loscos, Jorge; Pérez-Rontomé, Carmen; Sato, Shusei; Tabata, Satoshi; Becana, Manuel

    2007-03-01

    The biosynthesis of phytochelatins and homophytochelatins has been studied in nodulated plants of the model legume Lotus (Lotus japonicus). In the first 6 to 24 h of treatment with cadmium (Cd), roots started to synthesize elevated amounts of both polypeptides, with a concomitant increase of glutathione and a decrease of homoglutathione, indicating the presence of active phytochelatin synthase (PCS) genes. Screening of transformation-competent artificial chromosome libraries allowed identification of a cluster of three genes, LjPCS1, LjPCS2, and LjPCS3, which were mapped at 69.0 cM on chromosome 1. The genes differ in exon-intron composition and responsiveness to Cd. Gene structures and phylogenetic analysis of the three protein products, LjPCS1-8R, LjPCS2-7N, and LjPCS3-7N, are consistent with two sequential gene duplication events during evolution of vascular plants. Two sites for alternative splicing in the primary transcripts were identified. One of them, involving intron 2 of the LjPCS2 gene, was confirmed by the finding of the two predicted mRNAs, encoding LjPCS2-7R in roots and LjPCS2-7N in nodules. The amino acid sequences of LjPCS2-7R (or LjPCS2-7N) and LjPCS3-7N share 90% identity, but have only 43% to 59% identity with respect to the typical PCS1 enzymes of Lotus and other plants. The unusual LjPCS2-7N and LjPCS3-7N proteins conferred Cd tolerance when expressed in yeast (Saccharomyces cerevisiae) cells, whereas the alternatively spliced form, LjPCS2-7R, differing only in a five-amino acid motif (GRKWK) did not. These results unveil complex regulatory mechanisms of PCS expression in legume tissues in response to heavy metals and probably to other developmental and environmental factors.

  2. Interactive model building for Q-learning.

    PubMed

    Laber, Eric B; Linn, Kristin A; Stefanski, Leonard A

    2014-10-20

    Evidence-based rules for optimal treatment allocation are key components in the quest for efficient, effective health care delivery. Q-learning, an approximate dynamic programming algorithm, is a popular method for estimating optimal sequential decision rules from data. Q-learning requires the modeling of nonsmooth, nonmonotone transformations of the data, complicating the search for adequately expressive, yet parsimonious, statistical models. The default Q-learning working model is multiple linear regression, which is not only provably misspecified under most data-generating models, but also results in nonregular regression estimators, complicating inference. We propose an alternative strategy for estimating optimal sequential decision rules for which the requisite statistical modeling does not depend on nonsmooth, nonmonotone transformed data, does not result in nonregular regression estimators, is consistent under a broader array of data-generation models than Q-learning, results in estimated sequential decision rules that have better sampling properties, and is amenable to established statistical approaches for exploratory data analysis, model building, and validation. We derive the new method, IQ-learning, via an interchange in the order of certain steps in Q-learning. In simulated experiments IQ-learning improves on Q-learning in terms of integrated mean squared error and power. The method is illustrated using data from a study of major depressive disorder.

  3. Legume genomics: promise versus reality

    USDA-ARS?s Scientific Manuscript database

    Legume root nodules, the specialized organs in which symbiotic nitrogen fixation (SNF) occurs, are structurally and metabolically complex organs. Their development and function depends upon coordinated gene expression between the host plant and rhizobial partner. Depending upon the symbiosis, nodule...

  4. A Team Building Model for Software Engineering Courses Term Projects

    ERIC Educational Resources Information Center

    Sahin, Yasar Guneri

    2011-01-01

    This paper proposes a new model for team building, which enables teachers to build coherent teams rapidly and fairly for the term projects of software engineering courses. Moreover, the model can also be used to build teams for any type of project, if the team member candidates are students, or if they are inexperienced on a certain subject. The…

  5. Photograph of model projected new hospital building and new landscaping ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    Photograph of model projected new hospital building and new landscaping for area north of building 500. Model displayed on the mezzanine level of building 500. - Fitzsimons General Hospital, Bounded by East Colfax to south, Peoria Street to west, Denver City/County & Adams County Line to north, & U.S. Route 255 to east, Aurora, Adams County, CO

  6. A Team Building Model for Software Engineering Courses Term Projects

    ERIC Educational Resources Information Center

    Sahin, Yasar Guneri

    2011-01-01

    This paper proposes a new model for team building, which enables teachers to build coherent teams rapidly and fairly for the term projects of software engineering courses. Moreover, the model can also be used to build teams for any type of project, if the team member candidates are students, or if they are inexperienced on a certain subject. The…

  7. Genome-wide analysis of ATP-binding cassette (ABC) proteins in a model legume plant, Lotus japonicus: comparison with Arabidopsis ABC protein family.

    PubMed

    Sugiyama, Akifumi; Shitan, Nobukazu; Sato, Shusei; Nakamura, Yasukazu; Tabata, Satoshi; Yazaki, Kazufumi

    2006-10-31

    ATP-binding cassette (ABC) proteins constitute a large family in plants with more than 120 members each in Arabidopsis and rice, and have various functions including the transport of auxin and alkaloid, as well as the regulation of stomata movement. In this report, we carried out genome-wide analysis of ABC protein genes in a model legume plant, Lotus japonicus. For analysis of the Lotus genome sequence, we devised a new method 'domain-based clustering analysis', where domain structures like the nucleotide-binding domain (NBD) and transmembrane domain (TMD), instead of full-length amino acid sequences, are used to compare phylogenetically each other. This method enabled us to characterize fragments of ABC proteins, which frequently appear in a draft sequence of the Lotus genome. We identified 91 putative ABC proteins in L. japonicus, i.e. 43 'full-size', 40 'half-size' and 18 'soluble' putative ABC proteins. The characteristic feature of the composition is that Lotus has extraordinarily many paralogs similar to AtMRP14 and AtPDR12, which are at least six and five members, respectively. Expression analysis of the latter genes performed with real-time quantitative reverse transcription-PCR revealed their putative involvement in the nodulation process.

  8. Near-Source Modeling Updates: Building Downwash & Near-Road

    EPA Science Inventory

    The presentation describes recent research efforts in near-source model development focusing on building downwash and near-road barriers. The building downwash section summarizes a recent wind tunnel study, ongoing computational fluid dynamics simulations and efforts to improve ...

  9. Near-Source Modeling Updates: Building Downwash & Near-Road

    EPA Science Inventory

    The presentation describes recent research efforts in near-source model development focusing on building downwash and near-road barriers. The building downwash section summarizes a recent wind tunnel study, ongoing computational fluid dynamics simulations and efforts to improve ...

  10. Building Markov state models with solvent dynamics.

    PubMed

    Gu, Chen; Chang, Huang-Wei; Maibaum, Lutz; Pande, Vijay S; Carlsson, Gunnar E; Guibas, Leonidas J

    2013-01-01

    Markov state models have been widely used to study conformational changes of biological macromolecules. These models are built from short timescale simulations and then propagated to extract long timescale dynamics. However, the solvent information in molecular simulations are often ignored in current methods, because of the large number of solvent molecules in a system and the indistinguishability of solvent molecules upon their exchange. We present a solvent signature that compactly summarizes the solvent distribution in the high-dimensional data, and then define a distance metric between different configurations using this signature. We next incorporate the solvent information into the construction of Markov state models and present a fast geometric clustering algorithm which combines both the solute-based and solvent-based distances. We have tested our method on several different molecular dynamical systems, including alanine dipeptide, carbon nanotube, and benzene rings. With the new solvent-based signatures, we are able to identify different solvent distributions near the solute. Furthermore, when the solute has a concave shape, we can also capture the water number inside the solute structure. Finally we have compared the performances of different Markov state models. The experiment results show that our approach improves the existing methods both in the computational running time and the metastability. In this paper we have initiated an study to build Markov state models for molecular dynamical systems with solvent degrees of freedom. The methods we described should also be broadly applicable to a wide range of biomolecular simulation analyses.

  11. Building Markov state models with solvent dynamics

    PubMed Central

    2013-01-01

    Background Markov state models have been widely used to study conformational changes of biological macromolecules. These models are built from short timescale simulations and then propagated to extract long timescale dynamics. However, the solvent information in molecular simulations are often ignored in current methods, because of the large number of solvent molecules in a system and the indistinguishability of solvent molecules upon their exchange. Methods We present a solvent signature that compactly summarizes the solvent distribution in the high-dimensional data, and then define a distance metric between different configurations using this signature. We next incorporate the solvent information into the construction of Markov state models and present a fast geometric clustering algorithm which combines both the solute-based and solvent-based distances. Results We have tested our method on several different molecular dynamical systems, including alanine dipeptide, carbon nanotube, and benzene rings. With the new solvent-based signatures, we are able to identify different solvent distributions near the solute. Furthermore, when the solute has a concave shape, we can also capture the water number inside the solute structure. Finally we have compared the performances of different Markov state models. The experiment results show that our approach improves the existing methods both in the computational running time and the metastability. Conclusions In this paper we have initiated an study to build Markov state models for molecular dynamical systems with solvent degrees of freedom. The methods we described should also be broadly applicable to a wide range of biomolecular simulation analyses. PMID:23368418

  12. LFRic: Building a new Unified Model

    NASA Astrophysics Data System (ADS)

    Melvin, Thomas; Mullerworth, Steve; Ford, Rupert; Maynard, Chris; Hobson, Mike

    2017-04-01

    The LFRic project, named for Lewis Fry Richardson, aims to develop a replacement for the Met Office Unified Model in order to meet the challenges which will be presented by the next generation of exascale supercomputers. This project, a collaboration between the Met Office, STFC Daresbury and the University of Manchester, builds on the earlier GungHo project to redesign the dynamical core, in partnership with NERC. The new atmospheric model aims to retain the performance of the current ENDGame dynamical core and associated subgrid physics, while also enabling a far greater scalability and flexibility to accommodate future supercomputer architectures. Design of the model revolves around a principle of a 'separation of concerns', whereby the natural science aspects of the code can be developed without worrying about the underlying architecture, while machine dependent optimisations can be carried out at a high level. These principles are put into practice through the development of an autogenerated Parallel Systems software layer (known as the PSy layer) using a domain-specific compiler called PSyclone. The prototype model includes a re-write of the dynamical core using a mixed finite element method, in which different function spaces are used to represent the various fields. It is able to run in parallel with MPI and OpenMP and has been tested on over 200,000 cores. In this talk an overview of the both the natural science and computational science implementations of the model will be presented.

  13. Virtual Solar System Project: Building Understanding through Model Building.

    ERIC Educational Resources Information Center

    Barab, Sasha A.; Hay, Kenneth E.; Barnett, Michael; Keating, Thomas

    2000-01-01

    Describes an introductory astronomy course for undergraduate students in which students use three-dimensional (3-D) modeling tools to model the solar system and develop rich understandings of astronomical phenomena. Indicates that 3-D modeling can be used effectively in regular undergraduate university courses as a tool to develop understandings…

  14. Virtual Solar System Project: Building Understanding through Model Building.

    ERIC Educational Resources Information Center

    Barab, Sasha A.; Hay, Kenneth E.; Barnett, Michael; Keating, Thomas

    2000-01-01

    Describes an introductory astronomy course for undergraduate students in which students use three-dimensional (3-D) modeling tools to model the solar system and develop rich understandings of astronomical phenomena. Indicates that 3-D modeling can be used effectively in regular undergraduate university courses as a tool to develop understandings…

  15. Demonstration of reduced-order urban scale building energy models

    DOE PAGES

    Heidarinejad, Mohammad; Mattise, Nicholas; Dahlhausen, Matthew; ...

    2017-09-08

    The aim of this study is to demonstrate a developed framework to rapidly create urban scale reduced-order building energy models using a systematic summary of the simplifications required for the representation of building exterior and thermal zones. These urban scale reduced-order models rely on the contribution of influential variables to the internal, external, and system thermal loads. OpenStudio Application Programming Interface (API) serves as a tool to automate the process of model creation and demonstrate the developed framework. The results of this study show that the accuracy of the developed reduced-order building energy models varies only up to 10% withmore » the selection of different thermal zones. In addition, to assess complexity of the developed reduced-order building energy models, this study develops a novel framework to quantify complexity of the building energy models. Consequently, this study empowers the building energy modelers to quantify their building energy model systematically in order to report the model complexity alongside the building energy model accuracy. An exhaustive analysis on four university campuses suggests that the urban neighborhood buildings lend themselves to simplified typical shapes. Specifically, building energy modelers can utilize the developed typical shapes to represent more than 80% of the U.S. buildings documented in the CBECS database. One main benefits of this developed framework is the opportunity for different models including airflow and solar radiation models to share the same exterior representation, allowing a unifying exchange data. Altogether, the results of this study have implications for a large-scale modeling of buildings in support of urban energy consumption analyses or assessment of a large number of alternative solutions in support of retrofit decision-making in the building industry.« less

  16. Modeling Distributed Electricity Generation in the NEMS Buildings Models

    EIA Publications

    2011-01-01

    This paper presents the modeling methodology, projected market penetration, and impact of distributed generation with respect to offsetting future electricity needs and carbon dioxide emissions in the residential and commercial buildings sector in the Annual Energy Outlook 2000 (AEO2000) reference case.

  17. Oil body biogenesis and biotechnology in legume seeds.

    PubMed

    Song, Youhong; Wang, Xin-Ding; Rose, Ray J

    2017-09-02

    The seeds of many legume species including soybean, Pongamia pinnata and the model legume Medicago truncatula store considerable oil, apart from protein, in their cotyledons. However, as a group, legume storage strategies are quite variable and provide opportunities for better understanding of carbon partitioning into different storage products. Legumes with their ability to fix nitrogen can also increase the sustainability of agricultural systems. This review integrates the cell biology, biochemistry and molecular biology of oil body biogenesis before considering biotechnology strategies to enhance oil body biosynthesis. Cellular aspects of packaging triacylglycerol (TAG) into oil bodies are emphasized. Enhancing seed oil content has successfully focused on the up-regulation of the TAG biosynthesis pathways using overexpression of enzymes such as diacylglycerol acyltransferase1 and transcription factors such as WRINKLE1 and LEAFY COTYLEDON1. While these strategies are central, decreasing carbon flow into other storage products and maximizing the packaging of oil bodies into the cytoplasm are other strategies that need further examination. Overall there is much potential for integrating carbon partitioning, up-regulation of fatty acid and TAG synthesis and oil body packaging, for enhancing oil levels. In addition to the potential for integrated strategies to improving oil yields, the capacity to modify fatty acid composition and use of oil bodies as platforms for the production of recombinant proteins in seed of transgenic legumes provide other opportunities for legume biotechnology.

  18. Encoding Dissimilarity Data for Statistical Model Building

    PubMed Central

    Wahba, Grace

    2010-01-01

    We summarize, review and comment upon three papers which discuss the use of discrete, noisy, incomplete, scattered pairwise dissimilarity data in statistical model building. Convex cone optimization codes are used to embed the objects into a Euclidean space which respects the dissimilarity information while controlling the dimension of the space. A “newbie” algorithm is provided for embedding new objects into this space. This allows the dissimilarity information to be incorporated into a Smoothing Spline ANOVA penalized likelihood model, a Support Vector Machine, or any model that will admit Reproducing Kernel Hilbert Space components, for nonparametric regression, supervised learning, or semi-supervised learning. Future work and open questions are discussed. The papers are: F. Lu, S. Keles, S. Wright and G. Wahba 2005. A framework for kernel regularization with application to protein clustering. Proceedings of the National Academy of Sciences 102, 12332–1233.G. Corrada Bravo, G. Wahba, K. Lee, B. Klein, R. Klein and S. Iyengar 2009. Examining the relative influence of familial, genetic and environmental covariate information in flexible risk models. Proceedings of the National Academy of Sciences 106, 8128–8133F. Lu, Y. Lin and G. Wahba. Robust manifold unfolding with kernel regularization. TR 1008, Department of Statistics, University of Wisconsin-Madison. PMID:20814436

  19. Encoding Dissimilarity Data for Statistical Model Building.

    PubMed

    Wahba, Grace

    2010-12-01

    We summarize, review and comment upon three papers which discuss the use of discrete, noisy, incomplete, scattered pairwise dissimilarity data in statistical model building. Convex cone optimization codes are used to embed the objects into a Euclidean space which respects the dissimilarity information while controlling the dimension of the space. A "newbie" algorithm is provided for embedding new objects into this space. This allows the dissimilarity information to be incorporated into a Smoothing Spline ANOVA penalized likelihood model, a Support Vector Machine, or any model that will admit Reproducing Kernel Hilbert Space components, for nonparametric regression, supervised learning, or semi-supervised learning. Future work and open questions are discussed. The papers are: F. Lu, S. Keles, S. Wright and G. Wahba 2005. A framework for kernel regularization with application to protein clustering. Proceedings of the National Academy of Sciences 102, 12332-1233.G. Corrada Bravo, G. Wahba, K. Lee, B. Klein, R. Klein and S. Iyengar 2009. Examining the relative influence of familial, genetic and environmental covariate information in flexible risk models. Proceedings of the National Academy of Sciences 106, 8128-8133F. Lu, Y. Lin and G. Wahba. Robust manifold unfolding with kernel regularization. TR 1008, Department of Statistics, University of Wisconsin-Madison.

  20. Mechanistic action of gibberellins in legume nodulation.

    PubMed

    Hayashi, Satomi; Gresshoff, Peter M; Ferguson, Brett J

    2014-10-01

    Legume plants are capable of entering into a symbiotic relationship with rhizobia bacteria. This results in the formation of novel organs on their roots, called nodules, in which the bacteria capture atmospheric nitrogen and provide it as ammonium to the host plant. Complex molecular and physiological changes are involved in the formation and establishment of such nodules. Several phytohormones are known to play key roles in this process. Gibberellins (gibberellic acids; GAs), a class of phytohormones known to be involved in a wide range of biological processes (i.e., cell elongation, germination) are reported to be involved in the formation and maturation of legume nodules, highlighted by recent transcriptional analyses of early soybean symbiotic steps. Here, we summarize what is currently known about GAs in legume nodulation and propose a model of GA action during nodule development. Results from a wide range of studies, including GA application, mutant phenotyping, and gene expression studies, indicate that GAs are required at different stages, with an optimum, tightly regulated level being key to achieve successful nodulation. Gibberellic acids appear to be required at two distinct stages of nodulation: (i) early stages of rhizobia infection and nodule primordium establishment; and (ii) later stages of nodule maturation. © 2014 Institute of Botany, Chinese Academy of Sciences.

  1. A geodynamic model of Andean mountain building

    NASA Astrophysics Data System (ADS)

    Schellart, Wouter P.

    2017-04-01

    The Andes mountain range in South America is the longest in the world and is unique in that it has formed at a subduction zone and not at a continent-continent collision zone. The mountain range has formed due to overriding plate shortening since the Late Cretaceous, and its origin and the driving mechanism(s) responsible for its formation remain a topic of intense debate. Here I present a buoyancy-driven geodynamic model of South American-style subduction, mantle flow and overriding plate deformation, illustrating how subduction-induced mantle flow drives overriding plate deformation. The model reproduces several first-order characteristics of the Andes, including major crustal thickening (up to double the initial crustal thickness) and hundreds of km of east-west shortening in the Central Andes, as well as a slab geometry that is comparable to that of the Nazca slab below the Central Andes. Ultimately, the geodynamic model shows that subduction-induced mantle flow is responsible for Andean-style mountain building.

  2. Web tools for predictive toxicology model building.

    PubMed

    Jeliazkova, Nina

    2012-07-01

    The development and use of web tools in chemistry has accumulated more than 15 years of history already. Powered by the advances in the Internet technologies, the current generation of web systems are starting to expand into areas, traditional for desktop applications. The web platforms integrate data storage, cheminformatics and data analysis tools. The ease of use and the collaborative potential of the web is compelling, despite the challenges. The topic of this review is a set of recently published web tools that facilitate predictive toxicology model building. The focus is on software platforms, offering web access to chemical structure-based methods, although some of the frameworks could also provide bioinformatics or hybrid data analysis functionalities. A number of historical and current developments are cited. In order to provide comparable assessment, the following characteristics are considered: support for workflows, descriptor calculations, visualization, modeling algorithms, data management and data sharing capabilities, availability of GUI or programmatic access and implementation details. The success of the Web is largely due to its highly decentralized, yet sufficiently interoperable model for information access. The expected future convergence between cheminformatics and bioinformatics databases provides new challenges toward management and analysis of large data sets. The web tools in predictive toxicology will likely continue to evolve toward the right mix of flexibility, performance, scalability, interoperability, sets of unique features offered, friendly user interfaces, programmatic access for advanced users, platform independence, results reproducibility, curation and crowdsourcing utilities, collaborative sharing and secure access.

  3. Teaching Model Building to High School Students: Theory and Reality.

    ERIC Educational Resources Information Center

    Roberts, Nancy; Barclay, Tim

    1988-01-01

    Builds on a National Science Foundation (NSF) microcomputer based laboratory project to introduce system dynamics into the precollege setting. Focuses on providing students with powerful and investigatory theory building tools. Discusses developed hardware, software, and curriculum materials used to introduce model building and simulations into…

  4. Building groundwater modeling capacity in Mongolia

    USGS Publications Warehouse

    Valder, Joshua F.; Carter, Janet M.; Anderson, Mark T.; Davis, Kyle W.; Haynes, Michelle A.; Dorjsuren Dechinlhundev,

    2016-06-16

    Ulaanbaatar, the capital city of Mongolia (fig. 1), is dependent on groundwater for its municipal and industrial water supply. The population of Mongolia is about 3 million people, with about one-half the population residing in or near Ulaanbaatar (World Population Review, 2016). Groundwater is drawn from a network of shallow wells in an alluvial aquifer along the Tuul River. Evidence indicates that current water use may not be sustainable from existing water sources, especially when factoring the projected water demand from a rapidly growing urban population (Ministry of Environment and Green Development, 2013). In response, the Government of Mongolia Ministry of Environment, Green Development, and Tourism (MEGDT) and the Freshwater Institute, Mongolia, requested technical assistance on groundwater modeling through the U.S. Army Corps of Engineers (USACE) to the U.S. Geological Survey (USGS). Scientists from the USGS and USACE provided two workshops in 2015 to Mongolian hydrology experts on basic principles of groundwater modeling using the USGS groundwater modeling program MODFLOW-2005 (Harbaugh, 2005). The purpose of the workshops was to bring together representatives from the Government of Mongolia, local universities, technical experts, and other key stakeholders to build in-country capacity in hydrogeology and groundwater modeling.A preliminary steady-state groundwater-flow model was developed as part of the workshops to demonstrate groundwater modeling techniques to simulate groundwater conditions in alluvial deposits along the Tuul River in the vicinity of Ulaanbaatar. ModelMuse (Winston, 2009) was used as the graphical user interface for MODFLOW for training purposes during the workshops. Basic and advanced groundwater modeling concepts included in the workshops were groundwater principles; estimating hydraulic properties; developing model grids, data sets, and MODFLOW input files; and viewing and evaluating MODFLOW output files. A key to success was

  5. Optimizing Energy Consumption in Building Designs Using Building Information Model (BIM)

    NASA Astrophysics Data System (ADS)

    Egwunatum, Samuel; Joseph-Akwara, Esther; Akaigwe, Richard

    2016-09-01

    Given the ability of a Building Information Model (BIM) to serve as a multi-disciplinary data repository, this paper seeks to explore and exploit the sustainability value of Building Information Modelling/models in delivering buildings that require less energy for their operation, emit less CO2 and at the same time provide a comfortable living environment for their occupants. This objective was achieved by a critical and extensive review of the literature covering: (1) building energy consumption, (2) building energy performance and analysis, and (3) building information modeling and energy assessment. The literature cited in this paper showed that linking an energy analysis tool with a BIM model helped project design teams to predict and create optimized energy consumption. To validate this finding, an in-depth analysis was carried out on a completed BIM integrated construction project using the Arboleda Project in the Dominican Republic. The findings showed that the BIM-based energy analysis helped the design team achieve the world's first 103% positive energy building. From the research findings, the paper concludes that linking an energy analysis tool with a BIM model helps to expedite the energy analysis process, provide more detailed and accurate results as well as deliver energy-efficient buildings. The study further recommends that the adoption of a level 2 BIM and the integration of BIM in energy optimization analyse should be made compulsory for all projects irrespective of the method of procurement (government-funded or otherwise) or its size.

  6. Iterative-build OMIT maps: map improvement by iterative model building and refinement without model bias

    PubMed Central

    Terwilliger, Thomas C.; Grosse-Kunstleve, Ralf W.; Afonine, Pavel V.; Moriarty, Nigel W.; Adams, Paul D.; Read, Randy J.; Zwart, Peter H.; Hung, Li-Wei

    2008-01-01

    A procedure for carrying out iterative model building, density modification and refinement is presented in which the density in an OMIT region is essentially unbiased by an atomic model. Density from a set of overlapping OMIT regions can be combined to create a composite ‘iterative-build’ OMIT map that is everywhere unbiased by an atomic model but also everywhere benefiting from the model-based information present elsewhere in the unit cell. The procedure may have applications in the validation of specific features in atomic models as well as in overall model validation. The procedure is demonstrated with a molecular-replacement structure and with an experimentally phased structure and a variation on the method is demonstrated by removing model bias from a structure from the Protein Data Bank. PMID:18453687

  7. Model Predictive Control for the Operation of Building Cooling Systems

    SciTech Connect

    Ma, Yudong; Borrelli, Francesco; Hencey, Brandon; Coffey, Brian; Bengea, Sorin; Haves, Philip

    2010-06-29

    A model-based predictive control (MPC) is designed for optimal thermal energy storage in building cooling systems. We focus on buildings equipped with a water tank used for actively storing cold water produced by a series of chillers. Typically the chillers are operated at night to recharge the storage tank in order to meet the building demands on the following day. In this paper, we build on our previous work, improve the building load model, and present experimental results. The experiments show that MPC can achieve reduction in the central plant electricity cost and improvement of its efficiency.

  8. Testing a pollen-parent fecundity distribution model on seed-parent fecundity distributions in bee-pollinated forage legume polycrosses

    USDA-ARS?s Scientific Manuscript database

    Random mating (i.e., panmixis) is a fundamental assumption in quantitative genetics. In outcrossing bee-pollinated perennial forage legume polycrosses, mating is assumed by default to follow theoretical random mating. This assumption informs breeders of expected inbreeding estimates based on polycro...

  9. A legacy building model for holistic nursing.

    PubMed

    Lange, Bernadette; Zahourek, Rothlyn P; Mariano, Carla

    2014-06-01

    This pilot project was an effort to record the historical roots, development, and legacy of holistic nursing through the visionary spirit of four older American Holistic Nurses Association (AHNA) members. The aim was twofold: (a) to capture the holistic nursing career experiences of elder AHNA members and (b) to begin to create a Legacy Building Model for Holistic Nursing. The narratives will help initiate an ongoing, systematic method for the collection of historical data and serve as a perpetual archive of knowledge and inspiration for present and future holistic nurses. An aesthetic inquiry approach was used to conduct in-depth interviews with four older AHNA members who have made significant contributions to holistic nursing. The narratives provide a rich description of their personal and professional evolution as holistic nurses. The narratives are presented in an aesthetic format of the art forms of snapshot, pastiche, and collage rather than traditional presentations of research findings. A synopsis of the narratives is a dialogue between the three authors and provides insight for how a Legacy Model can guide our future. Considerations for practice, education, and research are discussed based on the words of wisdom from the four older holistic nurses.

  10. DEVELOPMENT OF A FLEXIBLE, MULTIZONE, MULTIFAMILY BUILDING SIMULATION MODEL

    SciTech Connect

    Malhotra, Mini; Im, Piljae

    2012-01-01

    Weatherization of multifamily buildings is gaining increased attention in the U.S. Available energy audit tools for multifamily buildings were found to need desirable improvements. On the wish list of field experts for enhanced features was the basic ability to model multizone buildings (i.e., one thermal zone per dwelling unit) with simplified user inputs, which allows a better analysis of decentralized and centralized HVAC and domestic hot water systems of multifamily buildings without having to create detailed building models. To address the desired capabilities, development of an enhanced energy audit tool was begun in 2011. The tool is a strategically structured, flexible, one-zone-per-unit, DOE-2.1e model coupled with a simplified user interface to model small to large multifamily buildings with decentralized or centralized systems and associated energy measures. This paper describes the modeling concept and its implementation.

  11. MtVRN2 is a Polycomb VRN2-like gene which represses the transition to flowering in the model legume Medicago truncatula.

    PubMed

    Jaudal, Mauren; Zhang, Lulu; Che, Chong; Hurley, Daniel G; Thomson, Geoffrey; Wen, Jiangqi; Mysore, Kirankumar S; Putterill, Joanna

    2016-04-01

    Optimising the timing of flowering contributes to successful sexual reproduction and yield in agricultural plants. FLOWERING LOCUS T (FT) genes, first identified in Arabidopsis thaliana (Arabidopsis), promote flowering universally, but the upstream flowering regulatory pathways can differ markedly among plants. Flowering in the model legume, Medicago truncatula (Medicago) is accelerated by winter cold (vernalisation) followed by long day (LD) photoperiods leading to elevated expression of the floral activator, FT-like gene FTa1. However, Medicago, like some other plants, lacks the activator CONSTANS (CO) and the repressor FLOWERING LOCUS C (FLC) genes which directly regulate FT and are key to LD and vernalisation responses in Arabidopsis. Conversely, Medicago has a VERNALISATION2-LIKE VEFS-box gene (MtVRN2). In Arabidopsis AtVRN2 is a key member of a Polycomb complex involved in stable repression of Arabidopsis FLC after vernalisation. VRN2-like genes have been identified in other eudicot plants, but their function has never been reported. We show that Mtvrn2 mutants bypass the need for vernalisation for early flowering in LD conditions in Medicago. Investigation of the underlying mechanism by transcriptome analysis reveals that Mtvrn2 mutants precociously express FTa1 and other suites of genes including floral homeotic genes. Double-mutant analysis indicates that early flowering is dependent on functional FTa1. The broad significance of our study is that we have demonstrated a function for a VRN2-like VEFS gene beyond the Brassicaceae. In particular, MtVRN2 represses the transition to flowering in Medicago by regulating the onset of expression of the potent floral activator, FTa1.

  12. A View on Future Building System Modeling and Simulation

    SciTech Connect

    Wetter, Michael

    2011-04-01

    This chapter presents what a future environment for building system modeling and simulation may look like. As buildings continue to require increased performance and better comfort, their energy and control systems are becoming more integrated and complex. We therefore focus in this chapter on the modeling, simulation and analysis of building energy and control systems. Such systems can be classified as heterogeneous systems because they involve multiple domains, such as thermodynamics, fluid dynamics, heat and mass transfer, electrical systems, control systems and communication systems. Also, they typically involve multiple temporal and spatial scales, and their evolution can be described by coupled differential equations, discrete equations and events. Modeling and simulating such systems requires a higher level of abstraction and modularisation to manage the increased complexity compared to what is used in today's building simulation programs. Therefore, the trend towards more integrated building systems is likely to be a driving force for changing the status quo of today's building simulation programs. Thischapter discusses evolving modeling requirements and outlines a path toward a future environment for modeling and simulation of heterogeneous building systems.A range of topics that would require many additional pages of discussion has been omitted. Examples include computational fluid dynamics for air and particle flow in and around buildings, people movement, daylight simulation, uncertainty propagation and optimisation methods for building design and controls. For different discussions and perspectives on the future of building modeling and simulation, we refer to Sahlin (2000), Augenbroe (2001) and Malkawi and Augenbroe (2004).

  13. Modeling arson - An exercise in qualitative model building

    NASA Technical Reports Server (NTRS)

    Heineke, J. M.

    1975-01-01

    A detailed example is given of the role of von Neumann and Morgenstern's 1944 'expected utility theorem' (in the theory of games and economic behavior) in qualitative model building. Specifically, an arsonist's decision as to the amount of time to allocate to arson and related activities is modeled, and the responsiveness of this time allocation to changes in various policy parameters is examined. Both the activity modeled and the method of presentation are intended to provide an introduction to the scope and power of the expected utility theorem in modeling situations of 'choice under uncertainty'. The robustness of such a model is shown to vary inversely with the number of preference restrictions used in the analysis. The fewer the restrictions, the wider is the class of agents to which the model is applicable, and accordingly more confidence is put in the derived results. A methodological discussion on modeling human behavior is included.

  14. Modeling arson - An exercise in qualitative model building

    NASA Technical Reports Server (NTRS)

    Heineke, J. M.

    1975-01-01

    A detailed example is given of the role of von Neumann and Morgenstern's 1944 'expected utility theorem' (in the theory of games and economic behavior) in qualitative model building. Specifically, an arsonist's decision as to the amount of time to allocate to arson and related activities is modeled, and the responsiveness of this time allocation to changes in various policy parameters is examined. Both the activity modeled and the method of presentation are intended to provide an introduction to the scope and power of the expected utility theorem in modeling situations of 'choice under uncertainty'. The robustness of such a model is shown to vary inversely with the number of preference restrictions used in the analysis. The fewer the restrictions, the wider is the class of agents to which the model is applicable, and accordingly more confidence is put in the derived results. A methodological discussion on modeling human behavior is included.

  15. Iterative model-building, structure refinement, and density modification with the PHENIX AutoBuild Wizard

    SciTech Connect

    Los Alamos National Laboratory, Mailstop M888, Los Alamos, NM 87545, USA; Lawrence Berkeley National Laboratory, One Cyclotron Road, Building 64R0121, Berkeley, CA 94720, USA; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, England; Terwilliger, Thomas; Terwilliger, T.C.; Grosse-Kunstleve, Ralf Wilhelm; Afonine, P.V.; Moriarty, N.W.; Zwart, P.H.; Hung, L.-W.; Read, R.J.; Adams, P.D.

    2007-04-29

    The PHENIX AutoBuild Wizard is a highly automated tool for iterative model-building, structure refinement and density modification using RESOLVE or TEXTAL model-building, RESOLVE statistical density modification, and phenix.refine structure refinement. Recent advances in the AutoBuild Wizard and phenix.refine include automated detection and application of NCS from models as they are built, extensive model completion algorithms, and automated solvent molecule picking. Model completion algorithms in the AutoBuild Wizard include loop-building, crossovers between chains in different models of a structure, and side-chain optimization. The AutoBuild Wizard has been applied to a set of 48 structures at resolutions ranging from 1.1 {angstrom} to 3.2 {angstrom}, resulting in a mean R-factor of 0.24 and a mean free R factor of 0.29. The R-factor of the final model is dependent on the quality of the starting electron density, and relatively independent of resolution.

  16. Iterative model building, structure refinement and density modification with the PHENIX AutoBuild wizard.

    PubMed

    Terwilliger, Thomas C; Grosse-Kunstleve, Ralf W; Afonine, Pavel V; Moriarty, Nigel W; Zwart, Peter H; Hung, Li Wei; Read, Randy J; Adams, Paul D

    2008-01-01

    The PHENIX AutoBuild wizard is a highly automated tool for iterative model building, structure refinement and density modification using RESOLVE model building, RESOLVE statistical density modification and phenix.refine structure refinement. Recent advances in the AutoBuild wizard and phenix.refine include automated detection and application of NCS from models as they are built, extensive model-completion algorithms and automated solvent-molecule picking. Model-completion algorithms in the AutoBuild wizard include loop building, crossovers between chains in different models of a structure and side-chain optimization. The AutoBuild wizard has been applied to a set of 48 structures at resolutions ranging from 1.1 to 3.2 A, resulting in a mean R factor of 0.24 and a mean free R factor of 0.29. The R factor of the final model is dependent on the quality of the starting electron density and is relatively independent of resolution.

  17. Building Energy Modeling: A Data-Driven Approach

    NASA Astrophysics Data System (ADS)

    Cui, Can

    Buildings consume nearly 50% of the total energy in the United States, which drives the need to develop high-fidelity models for building energy systems. Extensive methods and techniques have been developed, studied, and applied to building energy simulation and forecasting, while most of work have focused on developing dedicated modeling approach for generic buildings. In this study, an integrated computationally efficient and high-fidelity building energy modeling framework is proposed, with the concentration on developing a generalized modeling approach for various types of buildings. First, a number of data-driven simulation models are reviewed and assessed on various types of computationally expensive simulation problems. Motivated by the conclusion that no model outperforms others if amortized over diverse problems, a meta-learning based recommendation system for data-driven simulation modeling is proposed. To test the feasibility of the proposed framework on the building energy system, an extended application of the recommendation system for short-term building energy forecasting is deployed on various buildings. Finally, Kalman filter-based data fusion technique is incorporated into the building recommendation system for on-line energy forecasting. Data fusion enables model calibration to update the state estimation in real-time, which filters out the noise and renders more accurate energy forecast. The framework is composed of two modules: off-line model recommendation module and on-line model calibration module. Specifically, the off-line model recommendation module includes 6 widely used data-driven simulation models, which are ranked by meta-learning recommendation system for off-line energy modeling on a given building scenario. Only a selective set of building physical and operational characteristic features is needed to complete the recommendation task. The on-line calibration module effectively addresses system uncertainties, where data fusion on

  18. Vibration Response of Multi Storey Building Using Finite Element Modelling

    NASA Astrophysics Data System (ADS)

    Chik, T. N. T.; Zakaria, M. F.; Remali, M. A.; Yusoff, N. A.

    2016-07-01

    Interaction between building, type of foundation and the geotechnical parameter of ground may trigger a significant effect on the building. In general, stiffer foundations resulted in higher natural frequencies of the building-soil system and higher input frequencies are often associated with other ground. Usually, vibrations transmitted to the buildings by ground borne are often noticeable and can be felt. It might affect the building and become worse if the vibration level is not controlled. UTHM building is prone to the ground borne vibration due to closed distance from the main road, and the construction activities adjacent to the buildings. This paper investigates the natural frequency and vibration mode of multi storey office building with the presence of foundation system and comparison between both systems. Finite element modelling (FEM) package software of LUSAS is used to perform the vibration analysis of the building. The building is modelled based on the original plan with the foundation system on the structure model. The FEM results indicated that the structure which modelled with rigid base have high natural frequency compare to the structure with foundation system. These maybe due to soil structure interaction and also the damping of the system which related to the amount of energy dissipated through the foundation soil. Thus, this paper suggested that modelling with soil is necessary to demonstrate the soil influence towards vibration response to the structure.

  19. Houston biosecurity: building a national model.

    PubMed Central

    Casscells, Ward; Mirhaji, Parsa; Lillibridge, Scott; Madjid, Mohammad

    2004-01-01

    On September 11, 2001, Al Qaeda terrorists committed an atrocity when they used domestic jetliners to crash into buildings in New York City and Washington, DC, killing thousands of people. In October 2001, another act of savagery occurred, this time using anthrax, not airplanes, to take innocent lives. Each incident demonstrates the vulnerability of an open society, and Americans are left to wonder how such acts can be prevented. Two years later, Al Qaeda operatives are reportedly regrouping, recruiting, and changing their tactics to distribute money and messages to operatives around the world. Many experts believe that terrorist attacks are inevitable. Every city is vulnerable to an attack, and none are fully prepared to handle the residual impact of a biological or chemical attack. A survey conducted by the Cable News Network (CNN) in January 2002, studied 30 major US cities, ranking them based on 6 statistical indices of vulnerability. Thirteen cities were deemed better prepared than Houston, 10 were in a similar state of preparedness, and only 6 were less prepared than Houston. We will discuss the protective measures that have been put in place in Houston, and future steps to take. Other cities can model Houston's experience to develop similar plans nation-wide. PMID:17060983

  20. Complementarity of Historic Building Information Modelling and Geographic Information Systems

    NASA Astrophysics Data System (ADS)

    Yang, X.; Koehl, M.; Grussenmeyer, P.; Macher, H.

    2016-06-01

    In this paper, we discuss the potential of integrating both semantically rich models from Building Information Modelling (BIM) and Geographical Information Systems (GIS) to build the detailed 3D historic model. BIM contributes to the creation of a digital representation having all physical and functional building characteristics in several dimensions, as e.g. XYZ (3D), time and non-architectural information that are necessary for construction and management of buildings. GIS has potential in handling and managing spatial data especially exploring spatial relationships and is widely used in urban modelling. However, when considering heritage modelling, the specificity of irregular historical components makes it problematic to create the enriched model according to its complex architectural elements obtained from point clouds. Therefore, some open issues limiting the historic building 3D modelling will be discussed in this paper: how to deal with the complex elements composing historic buildings in BIM and GIS environment, how to build the enriched historic model, and why to construct different levels of details? By solving these problems, conceptualization, documentation and analysis of enriched Historic Building Information Modelling are developed and compared to traditional 3D models aimed primarily for visualization.

  1. Building Energy Model Development for Retrofit Homes

    SciTech Connect

    Chasar, David; McIlvaine, Janet; Blanchard, Jeremy; Widder, Sarah H.; Baechler, Michael C.

    2012-09-30

    Based on previous research conducted by Pacific Northwest National Laboratory and Florida Solar Energy Center providing technical assistance to implement 22 deep energy retrofits across the nation, 6 homes were selected in Florida and Texas for detailed post-retrofit energy modeling to assess realized energy savings (Chandra et al, 2012). However, assessing realized savings can be difficult for some homes where pre-retrofit occupancy and energy performance are unknown. Initially, savings had been estimated using a HERS Index comparison for these homes. However, this does not account for confounding factors such as occupancy and weather. This research addresses a method to more reliably assess energy savings achieved in deep energy retrofits for which pre-retrofit utility bills or occupancy information in not available. A metered home, Riverdale, was selected as a test case for development of a modeling procedure to account occupancy and weather factors, potentially creating more accurate estimates of energy savings. This “true up” procedure was developed using Energy Gauge USA software and post-retrofit homeowner information and utility bills. The 12 step process adjusts the post-retrofit modeling results to correlate with post-retrofit utility bills and known occupancy information. The “trued” post retrofit model is then used to estimate pre-retrofit energy consumption by changing the building efficiency characteristics to reflect the pre-retrofit condition, but keeping all weather and occupancy-related factors the same. This creates a pre-retrofit model that is more comparable to the post-retrofit energy use profile and can improve energy savings estimates. For this test case, a home for which pre- and post- retrofit utility bills were available was selected for comparison and assessment of the accuracy of the “true up” procedure. Based on the current method, this procedure is quite time intensive. However, streamlined processing spreadsheets or

  2. A Comparison of Two Balance Calibration Model Building Methods

    NASA Technical Reports Server (NTRS)

    DeLoach, Richard; Ulbrich, Norbert

    2007-01-01

    Simulated strain-gage balance calibration data is used to compare the accuracy of two balance calibration model building methods for different noise environments and calibration experiment designs. The first building method obtains a math model for the analysis of balance calibration data after applying a candidate math model search algorithm to the calibration data set. The second building method uses stepwise regression analysis in order to construct a model for the analysis. Four balance calibration data sets were simulated in order to compare the accuracy of the two math model building methods. The simulated data sets were prepared using the traditional One Factor At a Time (OFAT) technique and the Modern Design of Experiments (MDOE) approach. Random and systematic errors were introduced in the simulated calibration data sets in order to study their influence on the math model building methods. Residuals of the fitted calibration responses and other statistical metrics were compared in order to evaluate the calibration models developed with different combinations of noise environment, experiment design, and model building method. Overall, predicted math models and residuals of both math model building methods show very good agreement. Significant differences in model quality were attributable to noise environment, experiment design, and their interaction. Generally, the addition of systematic error significantly degraded the quality of calibration models developed from OFAT data by either method, but MDOE experiment designs were more robust with respect to the introduction of a systematic component of the unexplained variance.

  3. Proteomics and Metabolomics: Two Emerging Areas for Legume Improvement

    PubMed Central

    Ramalingam, Abirami; Kudapa, Himabindu; Pazhamala, Lekha T.; Weckwerth, Wolfram; Varshney, Rajeev K.

    2015-01-01

    The crop legumes such as chickpea, common bean, cowpea, peanut, pigeonpea, soybean, etc. are important sources of nutrition and contribute to a significant amount of biological nitrogen fixation (>20 million tons of fixed nitrogen) in agriculture. However, the production of legumes is constrained due to abiotic and biotic stresses. It is therefore imperative to understand the molecular mechanisms of plant response to different stresses and identify key candidate genes regulating tolerance which can be deployed in breeding programs. The information obtained from transcriptomics has facilitated the identification of candidate genes for the given trait of interest and utilizing them in crop breeding programs to improve stress tolerance. However, the mechanisms of stress tolerance are complex due to the influence of multi-genes and post-transcriptional regulations. Furthermore, stress conditions greatly affect gene expression which in turn causes modifications in the composition of plant proteomes and metabolomes. Therefore, functional genomics involving various proteomics and metabolomics approaches have been obligatory for understanding plant stress tolerance. These approaches have also been found useful to unravel different pathways related to plant and seed development as well as symbiosis. Proteome and metabolome profiling using high-throughput based systems have been extensively applied in the model legume species, Medicago truncatula and Lotus japonicus, as well as in the model crop legume, soybean, to examine stress signaling pathways, cellular and developmental processes and nodule symbiosis. Moreover, the availability of protein reference maps as well as proteomics and metabolomics databases greatly support research and understanding of various biological processes in legumes. Protein-protein interaction techniques, particularly the yeast two-hybrid system have been advantageous for studying symbiosis and stress signaling in legumes. In this review, several

  4. Proteomics and Metabolomics: Two Emerging Areas for Legume Improvement.

    PubMed

    Ramalingam, Abirami; Kudapa, Himabindu; Pazhamala, Lekha T; Weckwerth, Wolfram; Varshney, Rajeev K

    2015-01-01

    The crop legumes such as chickpea, common bean, cowpea, peanut, pigeonpea, soybean, etc. are important sources of nutrition and contribute to a significant amount of biological nitrogen fixation (>20 million tons of fixed nitrogen) in agriculture. However, the production of legumes is constrained due to abiotic and biotic stresses. It is therefore imperative to understand the molecular mechanisms of plant response to different stresses and identify key candidate genes regulating tolerance which can be deployed in breeding programs. The information obtained from transcriptomics has facilitated the identification of candidate genes for the given trait of interest and utilizing them in crop breeding programs to improve stress tolerance. However, the mechanisms of stress tolerance are complex due to the influence of multi-genes and post-transcriptional regulations. Furthermore, stress conditions greatly affect gene expression which in turn causes modifications in the composition of plant proteomes and metabolomes. Therefore, functional genomics involving various proteomics and metabolomics approaches have been obligatory for understanding plant stress tolerance. These approaches have also been found useful to unravel different pathways related to plant and seed development as well as symbiosis. Proteome and metabolome profiling using high-throughput based systems have been extensively applied in the model legume species, Medicago truncatula and Lotus japonicus, as well as in the model crop legume, soybean, to examine stress signaling pathways, cellular and developmental processes and nodule symbiosis. Moreover, the availability of protein reference maps as well as proteomics and metabolomics databases greatly support research and understanding of various biological processes in legumes. Protein-protein interaction techniques, particularly the yeast two-hybrid system have been advantageous for studying symbiosis and stress signaling in legumes. In this review, several

  5. Rhode Island Model Evaluation & Support System: Building Administrator. Edition III

    ERIC Educational Resources Information Center

    Rhode Island Department of Education, 2015

    2015-01-01

    Rhode Island educators believe that implementing a fair, accurate, and meaningful educator evaluation and support system will help improve teaching, learning, and school leadership. The primary purpose of the Rhode Island Model Building Administrator Evaluation and Support System (Rhode Island Model) is to help all building administrators improve.…

  6. 40. Photocopy of building model photograph, ca., 1974, photographer unknown. ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    40. Photocopy of building model photograph, ca., 1974, photographer unknown. Original photograph property of United States Air Force, 21" Space Command. CAPE COD AIR STATION PAVE PAWS FACILITY MODEL - ELEVATION SHOWING FLOOR AND EQUIPMENT LAYOUT. - Cape Cod Air Station, Technical Facility-Scanner Building & Power Plant, Massachusetts Military Reservation, Sandwich, Barnstable County, MA

  7. 39. Photocopy of building model photograph, ca. 1974, photographer unknown. ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    39. Photocopy of building model photograph, ca. 1974, photographer unknown. Original photograph property of United States Air Force, 21" Space Command. CAPE COD AIR STATION PAVE PAWS FACILITY MODEL - SHOWING "A" AND "B" FACES. - Cape Cod Air Station, Technical Facility-Scanner Building & Power Plant, Massachusetts Military Reservation, Sandwich, Barnstable County, MA

  8. Digital Learning Material for Model Building in Molecular Biology

    ERIC Educational Resources Information Center

    Aegerter-Wilmsen, Tinri; Janssen, Fred; Hartog, Rob; Bisseling, Ton

    2005-01-01

    Building models to describe processes forms an essential part of molecular biology research. However, in molecular biology curricula little attention is generally being paid to the development of this skill. In order to provide students the opportunity to improve their model building skills, we decided to develop a number of digital cases about…

  9. Digital Learning Material for Model Building in Molecular Biology

    ERIC Educational Resources Information Center

    Aegerter-Wilmsen, Tinri; Janssen, Fred; Hartog, Rob; Bisseling, Ton

    2005-01-01

    Building models to describe processes forms an essential part of molecular biology research. However, in molecular biology curricula little attention is generally being paid to the development of this skill. In order to provide students the opportunity to improve their model building skills, we decided to develop a number of digital cases about…

  10. Perception-based shape retrieval for 3D building models

    NASA Astrophysics Data System (ADS)

    Zhang, Man; Zhang, Liqiang; Takis Mathiopoulos, P.; Ding, Yusi; Wang, Hao

    2013-01-01

    With the help of 3D search engines, a large number of 3D building models can be retrieved freely online. A serious disadvantage of most rotation-insensitive shape descriptors is their inability to distinguish between two 3D building models which are different at their main axes, but appear similar when one of them is rotated. To resolve this problem, we present a novel upright-based normalization method which not only correctly rotates such building models, but also greatly simplifies and accelerates the abstraction and the matching of building models' shape descriptors. Moreover, the abundance of architectural styles significantly hinders the effective shape retrieval of building models. Our research has shown that buildings with different designs are not well distinguished by the widely recognized shape descriptors for general 3D models. Motivated by this observation and to further improve the shape retrieval quality, a new building matching method is introduced and analyzed based on concepts found in the field of perception theory and the well-known Light Field descriptor. The resulting normalized building models are first classified using the qualitative shape descriptors of Shell and Unevenness which outline integral geometrical and topological information. These models are then put in on orderly fashion with the help of an improved quantitative shape descriptor which we will term as Horizontal Light Field Descriptor, since it assembles detailed shape characteristics. To accurately evaluate the proposed methodology, an enlarged building shape database which extends previous well-known shape benchmarks was implemented as well as a model retrieval system supporting inputs from 2D sketches and 3D models. Various experimental performance evaluation results have shown that, as compared to previous methods, retrievals employing the proposed matching methodology are faster and more consistent with human recognition of spatial objects. In addition these performance

  11. CAROTENOID CLEAVAGE DIOXYGENASE 7 modulates plant growth, reproduction, senescence, and determinate nodulation in the model legume Lotus japonicus

    PubMed Central

    Liu, Junwei; Novero, Mara; Charnikhova, Tatsiana; Ferrandino, Alessandra; Schubert, Andrea; Ruyter-Spira, Carolien; Bonfante, Paola; Lovisolo, Claudio; Bouwmeester, Harro J.; Cardinale, Francesca

    2013-01-01

    Strigolactones (SLs) are newly identified hormones that regulate multiple aspects of plant development, infection by parasitic weeds, and mutualistic symbiosis in the roots. In this study, the role of SLs was studied for the first time in the model plant Lotus japonicus using transgenic lines silenced for CAROTENOID CLEAVAGE DIOXYGENASE 7 (LjCCD7), the orthologue of Arabidopsis More Axillary Growth 3. Transgenic LjCCD7-silenced plants displayed reduced height due to shorter internodes, and more branched shoots and roots than the controls, and an increase in total plant biomass, while their root:shoot ratio remained unchanged. Moreover, these lines had longer primary roots, delayed senescence, and reduced flower/pod numbers from the third round of flower and pod setting onwards. Only a mild reduction in determinate nodule numbers and hardly any impact on the colonization by arbuscular mycorrhizal fungi were observed. The results show that the impairment of CCD7 activity in L. japonicus leads to a phenotype linked to SL functions, but with specific features possibly due to the peculiar developmental pattern of this plant species. It is believed that the data also link determinate nodulation, plant reproduction, and senescence to CCD7 function for the first time. PMID:23567864

  12. Comparative genomics to bridge Vicia faba with model and closely-related legume species: stability of QTLs for flowering and yield-related traits.

    PubMed

    Cruz-Izquierdo, S; Avila, C M; Satovic, Z; Palomino, C; Gutierrez, N; Ellwood, S R; Phan, H T T; Cubero, J I; Torres, A M

    2012-12-01

    This study presents the development of an enhanced map in faba bean. The map contains 258 loci, mostly gene-based markers, organized in 16 linkage groups that expand 1,875 cM, with an average inter-marker distance of 7.26 cM. The combination of EST-derived markers with a number of markers physically located or previously ascribed to chromosomes by trisomic segregation, allowed the allocation of eight linkage groups (229 markers), to specific chromosomes. Moreover, this approach provided anchor points to establish a global homology among the faba bean chromosomes and those of closely-related legumes species. The map was used to identify and validate, for the first time, QTLs controlling five flowering and reproductive traits: days to flowering, flowering length, pod length, number of seeds per pod and number of ovules per pod. Twelve QTLs stable in the 2 years of evaluation were identified in chromosomes II, V and VI. Comparative mapping suggested the conservation of one of the faba bean genomic regions controlling the character days to flowering in other five legume species (Medicago, Lotus, pea, lupine, chickpea). Additional syntenic co-localizations of QTLs controlling pod length and number of seeds per pod between faba bean and Lotus japonicus are likely. The new genetic map opens the way for further translational studies between faba bean and related legume species, and provides an efficient tool for breeding applications such as QTL analysis and marker-assisted selection.

  13. Examining the impact of lahars on buildings using numerical modelling

    NASA Astrophysics Data System (ADS)

    Mead, Stuart R.; Magill, Christina; Lemiale, Vincent; Thouret, Jean-Claude; Prakash, Mahesh

    2017-05-01

    Lahars are volcanic flows containing a mixture of fluid and sediment which have the potential to cause significant damage to buildings, critical infrastructure and human life. The extent of this damage is controlled by properties of the lahar, location of elements at risk and susceptibility of these elements to the lahar. Here we focus on understanding lahar-induced building damage. Quantification of building damage can be difficult due to the complexity of lahar behaviour (hazard), varying number and type of buildings exposed to the lahar (exposure) and the uncertain susceptibility of buildings to lahar impacts (vulnerability). In this paper, we quantify and examine the importance of lahar hazard, exposure and vulnerability in determining building damage with reference to a case study in the city of Arequipa, Peru. Numerical modelling is used to investigate lahar properties that are important in determining the inundation area and forces applied to buildings. Building vulnerability is quantified through the development of critical depth-pressure curves based on the ultimate bending moment of masonry structures. In the case study area, results suggest that building strength plays a minor role in determining overall building losses in comparison to the effects of building exposure and hydraulic characteristics of the lahar.

  14. Armagh Observatory - Historic Building Information Modelling for Virtual Learning in Building Conservation

    NASA Astrophysics Data System (ADS)

    Murphy, M.; Chenaux, A.; Keenaghan, G.; GIbson, V..; Butler, J.; Pybusr, C.

    2017-08-01

    In this paper the recording and design for a Virtual Reality Immersive Model of Armagh Observatory is presented, which will replicate the historic buildings and landscape with distant meridian markers and position of its principal historic instruments within a model of the night sky showing the position of bright stars. The virtual reality model can be used for educational purposes allowing the instruments within the historic building model to be manipulated within 3D space to demonstrate how the position measurements of stars were made in the 18th century. A description is given of current student and researchers activities concerning on-site recording and surveying and the virtual modelling of the buildings and landscape. This is followed by a design for a Virtual Reality Immersive Model of Armagh Observatory use game engine and virtual learning platforms and concepts.

  15. Developing Verification Systems for Building Information Models of Heritage Buildings with Heterogeneous Datasets

    NASA Astrophysics Data System (ADS)

    Chow, L.; Fai, S.

    2017-08-01

    The digitization and abstraction of existing buildings into building information models requires the translation of heterogeneous datasets that may include CAD, technical reports, historic texts, archival drawings, terrestrial laser scanning, and photogrammetry into model elements. In this paper, we discuss a project undertaken by the Carleton Immersive Media Studio (CIMS) that explored the synthesis of heterogeneous datasets for the development of a building information model (BIM) for one of Canada's most significant heritage assets - the Centre Block of the Parliament Hill National Historic Site. The scope of the project included the development of an as-found model of the century-old, six-story building in anticipation of specific model uses for an extensive rehabilitation program. The as-found Centre Block model was developed in Revit using primarily point cloud data from terrestrial laser scanning. The data was captured by CIMS in partnership with Heritage Conservation Services (HCS), Public Services and Procurement Canada (PSPC), using a Leica C10 and P40 (exterior and large interior spaces) and a Faro Focus (small to mid-sized interior spaces). Secondary sources such as archival drawings, photographs, and technical reports were referenced in cases where point cloud data was not available. As a result of working with heterogeneous data sets, a verification system was introduced in order to communicate to model users/viewers the source of information for each building element within the model.

  16. Dietary fibre and fermentability characteristics of root crops and legumes.

    PubMed

    Mallillin, Aida C; Trinidad, Trinidad P; Raterta, Ruby; Dagbay, Kevin; Loyola, Anacleta S

    2008-09-01

    The dietary fibre and fermentability characteristics of local root crops and legumes were determined. Total, soluble and insoluble fibre were determined in six root crops (kamote, gabi, potato, tugi, ube, cassava) and ten legumes (mungbean, soyabean, peanut, pole sitao, cowpea, chickpea, green pea, lima bean, kidney bean and pigeon pea) using Association of Official Analytical Chemists methods. The dietary fibre from test foods was isolated and fermented in vitro using human faecal inoculum simulating conditions in the human colon. The SCFA, e.g. acetate, propionate, butyrate, produced after fibre fermentation was measured using HPLC. The dietary fibre content of root crops ranged from 4.6 to 13.5 g/100 g while legumes ranged from 20.9 to 46.9 g/100 g, suggesting that root crops and legumes are good sources of dietary fibre. Significant amounts of SCFA were produced after in vitro fermentation of the fibre isolate of both root crops and legumes. The best sources (as mmol/g fibre isolate) of acetate among the legumes were pole sitao (5.6 (sem 0.5)) and mungbean (5.3 (sem 0.1)) and among the root crops, tugi (2.5 (sem 0.4)) and cassava (2.4 (sem 0.1)); of propionate, kidney bean (7.2 (sem 1.5)) and pigeon pea (3.3 (sem 0.2)) for legumes, and tugi (1.8 (sem 0.2)) for root crops; and of butyrate, peanut (6.0 (sem 0.2)) and cowpea (5.4 (sem 0.2)) for legumes, and tugi (0.8 (sem 0.0)) and cassava (0.8 (sem 0.0)) for root crops. In conclusion, root crops and legumes are good sources of dietary fibre and produced SCFA after fibre fermentation, such as acetate, propionate and butyrate. SCFA production after in vitro fermentation can be estimated using human faecal inoculum and can be used to model the human colon.

  17. From Model to Crop: Functional Analysis of a STAY-GREEN Gene in the Model Legume Medicago truncatula and Effective Use of the Gene for Alfalfa Improvement1[W][OA

    PubMed Central

    Zhou, Chuanen; Han, Lu; Pislariu, Catalina; Nakashima, Jin; Fu, Chunxiang; Jiang, Qingzhen; Quan, Li; Blancaflor, Elison B.; Tang, Yuhong; Bouton, Joseph H.; Udvardi, Michael; Xia, Guangmin; Wang, Zeng-Yu

    2011-01-01

    Medicago truncatula has been developed into a model legume. Its close relative alfalfa (Medicago sativa) is the most widely grown forage legume crop in the United States. By screening a large population of M. truncatula mutants tagged with the transposable element of tobacco (Nicotiana tabacum) cell type1 (Tnt1), we identified a mutant line (NF2089) that maintained green leaves and showed green anthers, central carpels, mature pods, and seeds during senescence. Genetic and molecular analyses revealed that the mutation was caused by Tnt1 insertion in a STAY-GREEN (MtSGR) gene. Transcript profiling analysis of the mutant showed that loss of the MtSGR function affected the expression of a large number of genes involved in different biological processes. Further analyses revealed that SGR is implicated in nodule development and senescence. MtSGR expression was detected across all nodule developmental zones and was higher in the senescence zone. The number of young nodules on the mutant roots was higher than in the wild type. Expression levels of several nodule senescence markers were reduced in the sgr mutant. Based on the MtSGR sequence, an alfalfa SGR gene (MsSGR) was cloned, and transgenic alfalfa lines were produced by RNA interference. Silencing of MsSGR led to the production of stay-green transgenic alfalfa. This beneficial trait offers the opportunity to produce premium alfalfa hay with a more greenish appearance. In addition, most of the transgenic alfalfa lines retained more than 50% of chlorophylls during senescence and had increased crude protein content. This study illustrates the effective use of knowledge gained from a model system for the genetic improvement of an important commercial crop. PMID:21957014

  18. Calibrating Building Energy Models Using Supercomputer Trained Machine Learning Agents

    SciTech Connect

    Sanyal, Jibonananda; New, Joshua Ryan; Edwards, Richard; Parker, Lynne Edwards

    2014-01-01

    Building Energy Modeling (BEM) is an approach to model the energy usage in buildings for design and retrofit purposes. EnergyPlus is the flagship Department of Energy software that performs BEM for different types of buildings. The input to EnergyPlus can often extend in the order of a few thousand parameters which have to be calibrated manually by an expert for realistic energy modeling. This makes it challenging and expensive thereby making building energy modeling unfeasible for smaller projects. In this paper, we describe the Autotune research which employs machine learning algorithms to generate agents for the different kinds of standard reference buildings in the U.S. building stock. The parametric space and the variety of building locations and types make this a challenging computational problem necessitating the use of supercomputers. Millions of EnergyPlus simulations are run on supercomputers which are subsequently used to train machine learning algorithms to generate agents. These agents, once created, can then run in a fraction of the time thereby allowing cost-effective calibration of building models.

  19. Energy Savings Modeling of Standard Commercial Building Re-tuning Measures: Large Office Buildings

    SciTech Connect

    Fernandez, Nicholas; Katipamula, Srinivas; Wang, Weimin; Huang, Yunzhi; Liu, Guopeng

    2012-06-01

    Today, many large commercial buildings use sophisticated building automation systems (BASs) to manage a wide range of building equipment. While the capabilities of BASs have increased over time, many buildings still do not fully use the BAS's capabilities and are not properly commissioned, operated or maintained, which leads to inefficient operation, increased energy use, and reduced lifetimes of the equipment. This report investigates the energy savings potential of several common HVAC system retuning measures on a typical large office building prototype model, using the Department of Energy's building energy modeling software, EnergyPlus. The baseline prototype model uses roughly as much energy as an average large office building in existing building stock, but does not utilize any re-tuning measures. Individual re-tuning measures simulated against this baseline include automatic schedule adjustments, damper minimum flow adjustments, thermostat adjustments, as well as dynamic resets (set points that change continuously with building and/or outdoor conditions) to static pressure, supply air temperature, condenser water temperature, chilled and hot water temperature, and chilled and hot water differential pressure set points. Six combinations of these individual measures have been formulated - each designed to conform to limitations to implementation of certain individual measures that might exist in typical buildings. All of these measures and combinations were simulated in 16 cities representative of specific U.S. climate zones. The modeling results suggest that the most effective energy savings measures are those that affect the demand-side of the building (air-systems and schedules). Many of the demand-side individual measures were capable of reducing annual HVAC system energy consumption by over 20% in most cities that were modeled. Supply side measures affecting HVAC plant conditions were only modestly successful (less than 5% annual HVAC energy savings for

  20. A Multidisciplinary Model of Evaluation Capacity Building

    ERIC Educational Resources Information Center

    Preskill, Hallie; Boyle, Shanelle

    2008-01-01

    Evaluation capacity building (ECB) has become a hot topic of conversation, activity, and study within the evaluation field. Seeking to enhance stakeholders' understanding of evaluation concepts and practices, and in an effort to create evaluation cultures, organizations have been implementing a variety of strategies to help their members learn…

  1. Partnerships for Knowledge Building: An Emerging Model

    ERIC Educational Resources Information Center

    Laferriere, Therese; Montane, Mireia; Gros, Begona; Alvarez, Isabel; Bernaus, Merce; Breuleux, Alain; Allaire, Stephane; Hamel, Christine; Lamon, Mary

    2010-01-01

    Knowledge Building is approached in this study from an organizational perspective, with a focus on the nature of school-university-government partnerships to support research-based educational innovation. The paper starts with an overview of what is known about effective partnerships and elaborates a conceptual framework for Knowledge Building…

  2. Fast, Automated, Photo realistic, 3D Modeling of Building Interiors

    DTIC Science & Technology

    2016-09-12

    important for applications in augmented and virtual reality , indoor navigation, and building simulation software. This paper presents a method to...navigation, augmented and virtual reality , as well as building energy simulation software. These applications require watertight models with limited...preservation, entertainment, and augmented reality , the demand for both fast and accurate scanning technologies has dramatically increased. In this

  3. Modelling Technology for Building Fire Scene with Virtual Geographic Environment

    NASA Astrophysics Data System (ADS)

    Song, Y.; Zhao, L.; Wei, M.; Zhang, H.; Liu, W.

    2017-09-01

    Building fire is a risky activity that can lead to disaster and massive destruction. The management and disposal of building fire has always attracted much interest from researchers. Integrated Virtual Geographic Environment (VGE) is a good choice for building fire safety management and emergency decisions, in which a more real and rich fire process can be computed and obtained dynamically, and the results of fire simulations and analyses can be much more accurate as well. To modelling building fire scene with VGE, the application requirements and modelling objective of building fire scene were analysed in this paper. Then, the four core elements of modelling building fire scene (the building space environment, the fire event, the indoor Fire Extinguishing System (FES) and the indoor crowd) were implemented, and the relationship between the elements was discussed also. Finally, with the theory and framework of VGE, the technology of building fire scene system with VGE was designed within the data environment, the model environment, the expression environment, and the collaborative environment as well. The functions and key techniques in each environment are also analysed, which may provide a reference for further development and other research on VGE.

  4. Making Connections to the "Real World": A Model Building Lesson

    ERIC Educational Resources Information Center

    Horibe, Shusaku; Underwood, Bret

    2009-01-01

    Classroom activities that include the process of model building, in which students build simplified physical representations of a system, have the potential to help students make meaningful connections between physics and the real world. We describe a lesson designed with this intent for an introductory college classroom that engages students in…

  5. Building Component Library: An Online Repository to Facilitate Building Energy Model Creation; Preprint

    SciTech Connect

    Fleming, K.; Long, N.; Swindler, A.

    2012-05-01

    This paper describes the Building Component Library (BCL), the U.S. Department of Energy's (DOE) online repository of building components that can be directly used to create energy models. This comprehensive, searchable library consists of components and measures as well as the metadata which describes them. The library is also designed to allow contributors to easily add new components, providing a continuously growing, standardized list of components for users to draw upon.

  6. Models for estimating organic emissions from building materials: Formaldehyde example

    NASA Astrophysics Data System (ADS)

    Hawthorne, Alan R.; Matthews, Thomas G.

    One important source of chronic exposure to low levels of organic compounds in the indoor environment is emissions from building materials. Because removal of offending products may be costly or otherwise impractical, it is important that the emissions of organic pollutants be understood prior to incorporation of these materials into buildings. Once the organic pollutants of concern are identified, based on potential health effects and emission potential from the building material, it is necessary that an emission model be developed to predict the behavior of emission rates under various indoor conditions. Examples of the type of requirements that must be addressed in developing models for estimating organic emissions from building materials into the indoor environment are presented. Important factors include the products' characteristic source strengths at standard test conditions, impact of variations in environmental conditions (such as temperature and humidity), concentrations of the modeled organic pollutants in indoor environments and product ages. Ideally, emission models should have physical/chemical bases so that the important physical factors can be identified and their relative importance quantified. Although a universal model describing organic emissions from all building materials may not be feasible due to the tremendous variety of organic products and building materials in use, the most studied of the volatile organic compounds from building materials, formaldehyde, is used to illustrate an approach to the development of a specific model for organic emissions.

  7. D Topological Indoor Building Modeling Integrated with Open Street Map

    NASA Astrophysics Data System (ADS)

    Jamali, A.; Rahman, A. Abdul; Boguslawski, P.

    2016-09-01

    Considering various fields of applications for building surveying and various demands, geometry representation of a building is the most crucial aspect of a building survey. The interiors of the buildings need to be described along with the relative locations of the rooms, corridors, doors and exits in many kinds of emergency response, such as fire, bombs, smoke, and pollution. Topological representation is a challenging task within the Geography Information Science (GIS) environment, as the data structures required to express these relationships are particularly difficult to develop. Even within the Computer Aided Design (CAD) community, the structures for expressing the relationships between adjacent building parts are complex and often incomplete. In this paper, an integration of 3D topological indoor building modeling in Dual Half Edge (DHE) data structure and outdoor navigation network from Open Street Map (OSM) is presented.

  8. Structural Simulations and Conservation Analysis -Historic Building Information Model (HBIM)

    NASA Astrophysics Data System (ADS)

    Dore, C.; Murphy, M.; McCarthy, S.; Brechin, F.; Casidy, C.; Dirix, E.

    2015-02-01

    In this paper the current findings to date of the Historic Building Information Model (HBIM) of the Four Courts in Dublin are presented. The Historic Building Information Model (HBIM) forms the basis for both structural and conservation analysis to measure the impact of war damage which still impacts on the building. The laser scan survey was carried out in the summer of 2014 of the internal and external structure. After registration and processing of the laser scan survey, the HBIM was created of the damaged section of the building and is presented as two separate workflows in this paper. The first is the model created from historic data, the second a procedural and segmented model developed from laser scan survey of the war damaged drum and dome. From both models structural damage and decay simulations will be developed for documentation and conservation analysis.

  9. Modelling inspection policies for building maintenance.

    PubMed

    Christer, A H

    1982-08-01

    A method of assessing the potential of an inspection maintenance policy as opposed to an existing breakdown maintenance policy for a building complex is developed. The method is based upon information likely to be available and specific subjective assessments which could be made available. Estimates of the expected number of defects identified at an inspection and the consequential cost saving are presented as functions of the inspection frequency.

  10. Building energy modeling for green architecture and intelligent dashboard applications

    NASA Astrophysics Data System (ADS)

    DeBlois, Justin

    Buildings are responsible for 40% of the carbon emissions in the United States. Energy efficiency in this sector is key to reducing overall greenhouse gas emissions. This work studied the passive technique called the roof solar chimney for reducing the cooling load in homes architecturally. Three models of the chimney were created: a zonal building energy model, computational fluid dynamics model, and numerical analytic model. The study estimated the error introduced to the building energy model (BEM) through key assumptions, and then used a sensitivity analysis to examine the impact on the model outputs. The conclusion was that the error in the building energy model is small enough to use it for building simulation reliably. Further studies simulated the roof solar chimney in a whole building, integrated into one side of the roof. Comparisons were made between high and low efficiency constructions, and three ventilation strategies. The results showed that in four US climates, the roof solar chimney results in significant cooling load energy savings of up to 90%. After developing this new method for the small scale representation of a passive architecture technique in BEM, the study expanded the scope to address a fundamental issue in modeling - the implementation of the uncertainty from and improvement of occupant behavior. This is believed to be one of the weakest links in both accurate modeling and proper, energy efficient building operation. A calibrated model of the Mascaro Center for Sustainable Innovation's LEED Gold, 3,400 m2 building was created. Then algorithms were developed for integration to the building's dashboard application that show the occupant the energy savings for a variety of behaviors in real time. An approach using neural networks to act on real-time building automation system data was found to be the most accurate and efficient way to predict the current energy savings for each scenario. A stochastic study examined the impact of the

  11. Jeddah Historical Building Information Modelling "JHBIM" - Object Library

    NASA Astrophysics Data System (ADS)

    Baik, A.; Alitany, A.; Boehm, J.; Robson, S.

    2014-05-01

    The theory of using Building Information Modelling "BIM" has been used in several Heritage places in the worldwide, in the case of conserving, documenting, managing, and creating full engineering drawings and information. However, one of the most serious issues that facing many experts in order to use the Historical Building Information Modelling "HBIM", is creating the complicated architectural elements of these Historical buildings. In fact, many of these outstanding architectural elements have been designed and created in the site to fit the exact location. Similarly, this issue has been faced the experts in Old Jeddah in order to use the BIM method for Old Jeddah historical Building. Moreover, The Saudi Arabian City has a long history as it contains large number of historic houses and buildings that were built since the 16th century. Furthermore, the BIM model of the historical building in Old Jeddah always take a lot of time, due to the unique of Hijazi architectural elements and no such elements library, which have been took a lot of time to be modelled. This paper will focus on building the Hijazi architectural elements library based on laser scanner and image survey data. This solution will reduce the time to complete the HBIM model and offering in depth and rich digital architectural elements library to be used in any heritage projects in Al-Balad district, Jeddah City.

  12. Jeddah Historical Building Information Modeling "JHBIM" Old Jeddah - Saudi Arabia

    NASA Astrophysics Data System (ADS)

    Baik, A.; Boehm, J.; Robson, S.

    2013-07-01

    The historic city of Jeddah faces serious issues in the conservation, documentation and recording of its valuable building stock. Terrestrial Laser Scanning and Architectural Photogrammetry have already been used in many Heritage sites in the world. The integration of heritage recording and Building Information Modelling (BIM) has been introduced as HBIM and is now a method to document and manage these buildings. In the last decade many traditional surveying methods were used to record the buildings in Old Jeddah. However, these methods take a long time, can sometimes provide unreliable information and often lack completeness. This paper will look at another approach for heritage recording by using the Jeddah Historical Building Information Modelling (JHBIM).

  13. Artificial intelligence support for scientific model-building

    NASA Technical Reports Server (NTRS)

    Keller, Richard M.

    1992-01-01

    Scientific model-building can be a time-intensive and painstaking process, often involving the development of large and complex computer programs. Despite the effort involved, scientific models cannot easily be distributed and shared with other scientists. In general, implemented scientific models are complex, idiosyncratic, and difficult for anyone but the original scientific development team to understand. We believe that artificial intelligence techniques can facilitate both the model-building and model-sharing process. In this paper, we overview our effort to build a scientific modeling software tool that aids the scientist in developing and using models. This tool includes an interactive intelligent graphical interface, a high-level domain specific modeling language, a library of physics equations and experimental datasets, and a suite of data display facilities.

  14. Integration of Building Knowledge Into Binary Space Partitioning for the Reconstruction of Regularized Building Models

    NASA Astrophysics Data System (ADS)

    Wichmann, A.; Jung, J.; Sohn, G.; Kada, M.; Ehlers, M.

    2015-09-01

    Recent approaches for the automatic reconstruction of 3D building models from airborne point cloud data integrate prior knowledge of roof shapes with the intention to improve the regularization of the resulting models without lessening the flexibility to generate all real-world occurring roof shapes. In this paper, we present a method to integrate building knowledge into the data-driven approach that uses binary space partitioning (BSP) for modeling the 3D building geometry. A retrospective regularization of polygons that emerge from the BSP tree is not without difficulty because it has to deal with the 2D BSP subdivision itself and the plane definitions of the resulting partition regions to ensure topological correctness. This is aggravated by the use of hyperplanes during the binary subdivision that often splits planar roof regions into several parts that are stored in different subtrees of the BSP tree. We therefore introduce the use of hyperpolylines in the generation of the BSP tree to avoid unnecessary spatial subdivisions, so that the spatial integrity of planar roof regions is better maintained. The hyperpolylines are shown to result from basic building roof knowledge that is extracted based on roof topology graphs. An adjustment of the underlying point segments ensures that the positions of the extracted hyperpolylines result in regularized 2D partitions as well as topologically correct 3D building models. The validity and limitations of the approach are demonstrated on real-world examples.

  15. Development and validation of a building design waste reduction model.

    PubMed

    Llatas, C; Osmani, M

    2016-10-01

    Reduction in construction waste is a pressing need in many countries. The design of building elements is considered a pivotal process to achieve waste reduction at source, which enables an informed prediction of their wastage reduction levels. However the lack of quantitative methods linking design strategies to waste reduction hinders designing out waste practice in building projects. Therefore, this paper addresses this knowledge gap through the design and validation of a Building Design Waste Reduction Strategies (Waste ReSt) model that aims to investigate the relationships between design variables and their impact on onsite waste reduction. The Waste ReSt model was validated in a real-world case study involving 20 residential buildings in Spain. The validation process comprises three stages. Firstly, design waste causes were analyzed. Secondly, design strategies were applied leading to several alternative low waste building elements. Finally, their potential source reduction levels were quantified and discussed within the context of the literature. The Waste ReSt model could serve as an instrumental tool to simulate designing out strategies in building projects. The knowledge provided by the model could help project stakeholders to better understand the correlation between the design process and waste sources and subsequently implement design practices for low-waste buildings.

  16. A Tutorial for Building CMMI Process Performance Models

    DTIC Science & Technology

    2010-04-26

    Process Simulation • Other Advanced Modeling Techniques • Markov Petri net Neural Nets Systems Dynamics, - , , 47 Robert Stoddard and Dave Zubrow...SSTC 2010 A Tutorial for Building CMMI Process Performance Models Software Engineering Institute C i M ll U i itarneg e e on n vers y...2010 to 00-00-2010 4. TITLE AND SUBTITLE A Tutorial for Building CMMI Process Performance Moels 5a. CONTRACT NUMBER 5b. GRANT NUMBER 5c. PROGRAM

  17. Development of hazard-compatible building fragility and vulnerability models

    USGS Publications Warehouse

    Karaca, E.; Luco, N.

    2008-01-01

    We present a methodology for transforming the structural and non-structural fragility functions in HAZUS into a format that is compatible with conventional seismic hazard analysis information. The methodology makes use of the building capacity (or pushover) curves and related building parameters provided in HAZUS. Instead of the capacity spectrum method applied in HAZUS, building response is estimated by inelastic response history analysis of corresponding single-degree-of-freedom systems under a large number of earthquake records. Statistics of the building response are used with the damage state definitions from HAZUS to derive fragility models conditioned on spectral acceleration values. Using the developed fragility models for structural and nonstructural building components, with corresponding damage state loss ratios from HAZUS, we also derive building vulnerability models relating spectral acceleration to repair costs. Whereas in HAZUS the structural and nonstructural damage states are treated as if they are independent, our vulnerability models are derived assuming "complete" nonstructural damage whenever the structural damage state is complete. We show the effects of considering this dependence on the final vulnerability models. The use of spectral acceleration (at selected vibration periods) as the ground motion intensity parameter, coupled with the careful treatment of uncertainty, makes the new fragility and vulnerability models compatible with conventional seismic hazard curves and hence useful for extensions to probabilistic damage and loss assessment.

  18. Knowledge-based model building of proteins: concepts and examples.

    PubMed Central

    Bajorath, J.; Stenkamp, R.; Aruffo, A.

    1993-01-01

    We describe how to build protein models from structural templates. Methods to identify structural similarities between proteins in cases of significant, moderate to low, or virtually absent sequence similarity are discussed. The detection and evaluation of structural relationships is emphasized as a central aspect of protein modeling, distinct from the more technical aspects of model building. Computational techniques to generate and complement comparative protein models are also reviewed. Two examples, P-selectin and gp39, are presented to illustrate the derivation of protein model structures and their use in experimental studies. PMID:7505680

  19. Modeling and Analysis of Solar Radiation Potentials on Building Rooftops

    SciTech Connect

    Omitaomu, Olufemi A; Kodysh, Jeffrey B; Bhaduri, Budhendra L

    2012-01-01

    The active application of photovoltaic for electricity generation could effectively transform neighborhoods and commercial districts into small, localized power plants. This application, however, relies heavily on an accurate estimation of the amount of solar radiation that is available on individual building rooftops. While many solar energy maps exist at higher spatial resolution for concentrated solar energy applications, the data from these maps are not suitable for roof-mounted photovoltaic for several reasons, including lack of data at the appropriate spatial resolution and lack of integration of building-specific characteristics into the models used to generate the maps. To address this problem, we have developed a modeling framework for estimating solar radiation potentials on individual building rooftops that is suitable for utility-scale applications as well as building-specific applications. The framework uses light detection and ranging (LIDAR) data at approximately 1-meter horizontal resolution and 0.3-meter vertical resolution as input for modeling a large number of buildings quickly. One of the strengths of this framework is the ability to parallelize its implementation. Furthermore, the framework accounts for building specific characteristics, such as roof slope, roof aspect, and shadowing effects, that are critical to roof-mounted photovoltaic systems. The resulting data has helped us to identify the so-called solar panel sweet spots on individual building rooftops and obtain accurate statistics of the variation in solar radiation as a function of time of year and geographical location.

  20. Building footprint extraction from digital surface models using neural networks

    NASA Astrophysics Data System (ADS)

    Davydova, Ksenia; Cui, Shiyong; Reinartz, Peter

    2016-10-01

    Two-dimensional building footprints are a basis for many applications: from cartography to three-dimensional building models generation. Although, many methodologies have been proposed for building footprint extraction, this topic remains an open research area. Neural networks are able to model the complex relationships between the multivariate input vector and the target vector. Based on these abilities we propose a methodology using neural networks and Markov Random Fields (MRF) for automatic building footprint extraction from normalized Digital Surface Model (nDSM) and satellite images within urban areas. The proposed approach has mainly two steps. In the first step, the unary terms are learned for the MRF energy function by a four-layer neural network. The neural network is learned on a large set of patches consisting of both nDSM and Normalized Difference Vegetation Index (NDVI). Then prediction is performed to calculate the unary terms that are used in the MRF. In the second step, the energy function is minimized using a maxflow algorithm, which leads to a binary building mask. The building extraction results are compared with available ground truth. The comparison illustrates the efficiency of the proposed algorithm which can extract approximately 80% of buildings from nDSM with high accuracy.

  1. Negotiation of mutualism: rhizobia and legumes

    PubMed Central

    Akçay, Erol; Roughgarden, Joan

    2006-01-01

    The evolution and persistence of biological cooperation have been an important puzzle in evolutionary theory. Here, we suggest a new approach based on bargaining theory to tackle the question. We present a mechanistic model for negotiation of benefits between a nitrogen-fixing nodule and a legume plant. To that end, we first derive growth rates for the nodule and plant from metabolic models of each as a function of material fluxes between them. We use these growth rates as pay-off functions in the negotiation process, which is analogous to collective bargaining between a firm and a workers' union. Our model predicts that negotiations lead to the Nash bargaining solution, maximizing the product of players' pay-offs. This work introduces elements of cooperative game theory into the field of mutualistic interactions. In the discussion of the paper, we argue for the benefits of such an approach in studying the question of biological cooperation. PMID:17015340

  2. An Occupant Behavior Model for Building Energy Efficiency and Safety

    NASA Astrophysics Data System (ADS)

    Pan, L. L.; Chen, T.; Jia, Q. S.; Yuan, R. X.; Wang, H. T.; Ding, R.

    2010-05-01

    An occupant behavior model is suggested to improve building energy efficiency and safety. This paper provides a generic outline of the model, which includes occupancy behavior abstraction, model framework and primary structure, input and output, computer simulation results as well as summary and outlook. Using information technology, now it's possible to collect large amount of information of occupancy. Yet this can only provide partial and historical information, so it's important to develop a model to have full view of the researched building as well as prediction. We used the infrared monitoring system which is set at the front door of the Low Energy Demo Building (LEDB) at Tsinghua University in China, to provide the time variation of the total number of occupants in the LEDB building. This information is used as input data for the model. While the RFID system is set on the 1st floor, which provides the time variation of the occupants' localization in each region. The collected data are used to validate the model. The simulation results show that this presented model provides a feasible framework to simulate occupants' behavior and predict the time variation of the number of occupants in the building. Further development and application of the model is also discussed.

  3. Building aggregate timber supply models from individual harvest choice

    Treesearch

    Maksym Polyakov; David N. Wear; Robert Huggett

    2009-01-01

    Timber supply has traditionally been modelled using aggregate data. In this paper, we build aggregate supply models for four roundwood products for the US state of North Carolina from a stand-level harvest choice model applied to detailed forest inventory. The simulated elasticities of pulpwood supply are much lower than reported by previous studies. Cross price...

  4. A New Method of Building Scale-Model Houses

    Treesearch

    Richard N. Malcolm

    1978-01-01

    Scale-model houses are used to display new architectural and construction designs.Some scale-model houses will not withstand the abuse of shipping and handling.This report describes how to build a solid-core model house which is rigid, lightweight, and sturdy.

  5. Building Test Cases through Model Driven Engineering

    NASA Astrophysics Data System (ADS)

    Sousa, Helaine; Lopes, Denivaldo; Abdelouahab, Zair; Hammoudi, Slimane; Claro, Daniela Barreiro

    Recently, Model Driven Engineering (MDE) has been proposed to face the complexity in the development, maintenance and evolution of large and distributed software systems. Model Driven Architecture (MDA) is an example of MDE. In this context, model transformations enable a large reuse of software systems through the transformation of a Platform Independent Model into a Platform Specific Model. Although source code can be generated from models, defects can be injected during the modeling or transformation process. In order to delivery software systems without defects that cause errors and fails, the source code must be submitted to test. In this paper, we present an approach that takes care of test in the whole software life cycle, i.e. it starts in the modeling level and finishes in the test of source code of software systems. We provide an example to illustrate our approach.

  6. Building Simple Hidden Markov Models. Classroom Notes

    ERIC Educational Resources Information Center

    Ching, Wai-Ki; Ng, Michael K.

    2004-01-01

    Hidden Markov models (HMMs) are widely used in bioinformatics, speech recognition and many other areas. This note presents HMMs via the framework of classical Markov chain models. A simple example is given to illustrate the model. An estimation method for the transition probabilities of the hidden states is also discussed.

  7. Duct thermal performance models for large commercial buildings

    SciTech Connect

    Wray, Craig P.

    2003-10-01

    Despite the potential for significant energy savings by reducing duct leakage or other thermal losses from duct systems in large commercial buildings, California Title 24 has no provisions to credit energy-efficient duct systems in these buildings. A substantial reason is the lack of readily available simulation tools to demonstrate the energy-saving benefits associated with efficient duct systems in large commercial buildings. The overall goal of the Efficient Distribution Systems (EDS) project within the PIER High Performance Commercial Building Systems Program is to bridge the gaps in current duct thermal performance modeling capabilities, and to expand our understanding of duct thermal performance in California large commercial buildings. As steps toward this goal, our strategy in the EDS project involves two parts: (1) developing a whole-building energy simulation approach for analyzing duct thermal performance in large commercial buildings, and (2) using the tool to identify the energy impacts of duct leakage in California large commercial buildings, in support of future recommendations to address duct performance in the Title 24 Energy Efficiency Standards for Nonresidential Buildings. The specific technical objectives for the EDS project were to: (1) Identify a near-term whole-building energy simulation approach that can be used in the impacts analysis task of this project (see Objective 3), with little or no modification. A secondary objective is to recommend how to proceed with long-term development of an improved compliance tool for Title 24 that addresses duct thermal performance. (2) Develop an Alternative Calculation Method (ACM) change proposal to include a new metric for thermal distribution system efficiency in the reporting requirements for the 2005 Title 24 Standards. The metric will facilitate future comparisons of different system types using a common ''yardstick''. (3) Using the selected near-term simulation approach, assess the impacts of

  8. Desk-top model buildings for dynamic earthquake response demonstrations

    USGS Publications Warehouse

    Brady, A. Gerald

    1992-01-01

    Models of buildings that illustrate dynamic resonance behavior when excited by hand are designed and built. Two types of buildings are considered, one with columns stronger than floors, the other with columns weaker than floors. Combinations and variations of these two types are possible. Floor masses and column stiffnesses are chosen in order that the frequency of the second mode is approximately five cycles per second, so that first and second modes can be excited manually. The models are expected to be resonated by hand by schoolchildren or persons unfamiliar with the dynamic resonant response of tall buildings, to gain an understanding of structural behavior during earthquakes. Among other things, this experience will develop a level of confidence in the builder and experimenter should they be in a high-rise building during an earthquake, sensing both these resonances and other violent shaking.

  9. NREL's Building Component Library for Use with Energy Models

    DOE Data Explorer

    The Building Component Library (BCL) is the U.S. Department of Energy’s comprehensive online searchable library of energy modeling building blocks and descriptive metadata. Novice users and seasoned practitioners can use the freely available and uniquely identifiable components to create energy models and cite the sources of input data, which will increase the credibility and reproducibility of their simulations. The BCL contains components which are the building blocks of an energy model. They can represent physical characteristics of the building such as roofs, walls, and windows, or can refer to related operational information such as occupancy and equipment schedules and weather information. Each component is identified through a set of attributes that are specific to its type, as well as other metadata such as provenance information and associated files. The BCL also contains energy conservation measures (ECM), referred to as measures, which describe a change to a building and its associated model. For the BCL, this description attempts to define a measure for reproducible application, either to compare it to a baseline model, to estimate potential energy savings, or to examine the effects of a particular implementation. The BCL currently contains more than 30,000 components and measures. A faceted search mechanism has been implemented on the BCL that allows users to filter through the search results using various facets. Facet categories include component and measure types, data source, and energy modeling software type. All attributes of a component or measure can also be used to filter the results.

  10. Team Learning: Building Shared Mental Models

    ERIC Educational Resources Information Center

    Van den Bossche, Piet; Gijselaers, Wim; Segers, Mien; Woltjer, Geert; Kirschner, Paul

    2011-01-01

    To gain insight in the social processes that underlie knowledge sharing in teams, this article questions which team learning behaviors lead to the construction of a shared mental model. Additionally, it explores how the development of shared mental models mediates the relation between team learning behaviors and team effectiveness. Analyses were…

  11. Building a Database for a Quantitative Model

    NASA Technical Reports Server (NTRS)

    Kahn, C. Joseph; Kleinhammer, Roger

    2014-01-01

    A database can greatly benefit a quantitative analysis. The defining characteristic of a quantitative risk, or reliability, model is the use of failure estimate data. Models can easily contain a thousand Basic Events, relying on hundreds of individual data sources. Obviously, entering so much data by hand will eventually lead to errors. Not so obviously entering data this way does not aid linking the Basic Events to the data sources. The best way to organize large amounts of data on a computer is with a database. But a model does not require a large, enterprise-level database with dedicated developers and administrators. A database built in Excel can be quite sufficient. A simple spreadsheet database can link every Basic Event to the individual data source selected for them. This database can also contain the manipulations appropriate for how the data is used in the model. These manipulations include stressing factors based on use and maintenance cycles, dormancy, unique failure modes, the modeling of multiple items as a single "Super component" Basic Event, and Bayesian Updating based on flight and testing experience. A simple, unique metadata field in both the model and database provides a link from any Basic Event in the model to its data source and all relevant calculations. The credibility for the entire model often rests on the credibility and traceability of the data.

  12. Building Water Models: A Different Approach

    PubMed Central

    2015-01-01

    Simplified classical water models are currently an indispensable component in practical atomistic simulations. Yet, despite several decades of intense research, these models are still far from perfect. Presented here is an alternative approach to constructing widely used point charge water models. In contrast to the conventional approach, we do not impose any geometry constraints on the model other than the symmetry. Instead, we optimize the distribution of point charges to best describe the “electrostatics” of the water molecule. The resulting “optimal” 3-charge, 4-point rigid water model (OPC) reproduces a comprehensive set of bulk properties significantly more accurately than commonly used rigid models: average error relative to experiment is 0.76%. Close agreement with experiment holds over a wide range of temperatures. The improvements in the proposed model extend beyond bulk properties: compared to common rigid models, predicted hydration free energies of small molecules using OPC are uniformly closer to experiment, with root-mean-square error <1 kcal/mol. PMID:25400877

  13. Team Learning: Building Shared Mental Models

    ERIC Educational Resources Information Center

    Van den Bossche, Piet; Gijselaers, Wim; Segers, Mien; Woltjer, Geert; Kirschner, Paul

    2011-01-01

    To gain insight in the social processes that underlie knowledge sharing in teams, this article questions which team learning behaviors lead to the construction of a shared mental model. Additionally, it explores how the development of shared mental models mediates the relation between team learning behaviors and team effectiveness. Analyses were…

  14. Career Pathways Skill-Building Instructional Model.

    ERIC Educational Resources Information Center

    Community Coll. of Rhode Island, Warwick.

    As part of an effort to develop a skill-based education program for students that relates academic skills with workplace skills, the Community College of Rhode Island developed a working instructional model consisting of 6 areas, or strands, and 31 skills. The model is directed at students in grades 9 through 12 and recognizes the importance of…

  15. Back to basics for Bayesian model building in genomic selection.

    PubMed

    Kärkkäinen, Hanni P; Sillanpää, Mikko J

    2012-07-01

    Numerous Bayesian methods of phenotype prediction and genomic breeding value estimation based on multilocus association models have been proposed. Computationally the methods have been based either on Markov chain Monte Carlo or on faster maximum a posteriori estimation. The demand for more accurate and more efficient estimation has led to the rapid emergence of workable methods, unfortunately at the expense of well-defined principles for Bayesian model building. In this article we go back to the basics and build a Bayesian multilocus association model for quantitative and binary traits with carefully defined hierarchical parameterization of Student's t and Laplace priors. In this treatment we consider alternative model structures, using indicator variables and polygenic terms. We make the most of the conjugate analysis, enabled by the hierarchical formulation of the prior densities, by deriving the fully conditional posterior densities of the parameters and using the acquired known distributions in building fast generalized expectation-maximization estimation algorithms.

  16. A Pathway Idea for Model Building.

    PubMed

    Mathai, A M; Moschopoulos, Panagis

    2012-01-01

    Models, mathematical or stochastic, which move from one functional form to another through pathway parameters, so that in between stages can be captured, are examined in this article. Models which move from generalized type-1 beta family to type-2 beta family, to generalized gamma family to generalized Mittag-Leffler family to Lévy distributions are examined here. It is known that one can likely find an approximate model for the data at hand whether the data are coming from biological, physical, engineering, social sciences or other areas. Different families of functions are connected through the pathway parameters and hence one will find a suitable member from within one of the families or in between stages of two families. Graphs are provided to show the movement of the different models showing thicker tails, thinner tails, right tail cut off etc.

  17. Building an environment model using depth information

    NASA Technical Reports Server (NTRS)

    Roth-Tabak, Y.; Jain, Ramesh

    1989-01-01

    Modeling the environment is one of the most crucial issues for the development and research of autonomous robot and tele-perception. Though the physical robot operates (navigates and performs various tasks) in the real world, any type of reasoning, such as situation assessment, planning or reasoning about action, is performed based on information in its internal world. Hence, the robot's intentional actions are inherently constrained by the models it has. These models may serve as interfaces between sensing modules and reasoning modules, or in the case of telerobots serve as interface between the human operator and the distant robot. A robot operating in a known restricted environment may have a priori knowledge of its whole possible work domain, which will be assimilated in its World Model. As the information in the World Model is relatively fixed, an Environment Model must be introduced to cope with the changes in the environment and to allow exploring entirely new domains. Introduced here is an algorithm that uses dense range data collected at various positions in the environment to refine and update or generate a 3-D volumetric model of an environment. The model, which is intended for autonomous robot navigation and tele-perception, consists of cubic voxels with the possible attributes: Void, Full, and Unknown. Experimental results from simulations of range data in synthetic environments are given. The quality of the results show great promise for dealing with noisy input data. The performance measures for the algorithm are defined, and quantitative results for noisy data and positional uncertainty are presented.

  18. A model for the sustainable selection of building envelope assemblies

    SciTech Connect

    Huedo, Patricia; Mulet, Elena; López-Mesa, Belinda

    2016-02-15

    The aim of this article is to define an evaluation model for the environmental impacts of building envelopes to support planners in the early phases of materials selection. The model is intended to estimate environmental impacts for different combinations of building envelope assemblies based on scientifically recognised sustainability indicators. These indicators will increase the amount of information that existing catalogues show to support planners in the selection of building assemblies. To define the model, first the environmental indicators were selected based on the specific aims of the intended sustainability assessment. Then, a simplified LCA methodology was developed to estimate the impacts applicable to three types of dwellings considering different envelope assemblies, building orientations and climate zones. This methodology takes into account the manufacturing, installation, maintenance and use phases of the building. Finally, the model was validated and a matrix in Excel was created as implementation of the model. - Highlights: • Method to assess the envelope impacts based on a simplified LCA • To be used at an earlier phase than the existing methods in a simple way. • It assigns a score by means of known sustainability indicators. • It estimates data about the embodied and operating environmental impacts. • It compares the investment costs with the costs of the consumed energy.

  19. Generating 3D building models from architectural drawings: a survey.

    PubMed

    Yin, Xuetao; Wonka, Peter; Razdan, Anshuman

    2009-01-01

    Automatically generating 3D building models from 2D architectural drawings has many useful applications in the architecture engineering and construction community. This survey of model generation from paper and CAD-based architectural drawings covers the common pipeline and compares various algorithms for each step of the process.

  20. Concordance between criteria for covariate model building.

    PubMed

    Hennig, Stefanie; Karlsson, Mats O

    2014-04-01

    When performing a population pharmacokinetic modelling analysis covariates are often added to the model. Such additions are often justified by improved goodness of fit and/or decreased in unexplained (random) parameter variability. Increased goodness of fit is most commonly measured by the decrease in the objective function value. Parameter variability can be defined as the sum of unexplained (random) and explained (predictable) variability. Increase in magnitude of explained parameter variability could be another possible criterion for judging improvement in the model. The agreement between these three criteria in diagnosing covariate-parameter relationships of different strengths and nature using stochastic simulations and estimations as well as assessing covariate-parameter relationships in four previously published real data examples were explored. Total estimated parameter variability was found to vary with the number of covariates introduced on the parameter. In the simulated examples and two real examples, the parameter variability increased with increasing number of included covariates. For the other real examples parameter variability decreased or did not change systematically with the addition of covariates. The three criteria were highly correlated, with the decrease in unexplained variability being more closely associated with changes in objective function values than increases in explained parameter variability were. The often used assumption that inclusion of covariates in models only shifts unexplained parameter variability to explained parameter variability appears not to be true, which may have implications for modelling decisions.

  1. A Pathway Idea in Model Building

    NASA Astrophysics Data System (ADS)

    Mathai, A. M.; Haubold, H. J.

    2014-01-01

    The pathway idea is a way of going from one family of functions to another family of functions and yet another family of functions through a parameter in the mode l so that a switching mechanism is introduced into the model through a parameter. The advantage of the idea is that the model can cover the ideal or stable situation in a physical situation as well as cover the unstable neighborhoods or move from unstable neighborhoods to the stable situation. The basic idea is illustrated for the real scalar case here and its connections to topics in astrophysics and non-extens ive statistical mechanics, namely superstatistics and Tsallis statistics, Mittag-Leffler models, hypergeometric functions and generalized special functions such as the H-function etc are pointed out. The pathway idea is available for the real and complex rectangular matrix variate cases but only the real scalar case is illustrated here.

  2. A sustainable legume biomass energy farming system

    SciTech Connect

    Neathery, J.; Rubel, A.; Stencel, J.; Collins, M.

    1996-12-31

    Before environmentally sensitive areas are converted to biomass energy production, the production, the potential for sustainability of such systems must be assessed. The focus has been on woody or grass crops because of their high potential yields; however, yield sustainability is dependent on the application of fertilizer and lining materials, which in turn contribute to large costs. Growing legumes or mixtures of legumes with grasses could lower or alleviate the need for nitrate fertilizers. The incorporation of legumes into energy cropping systems could: (1) add soil organic matter; (2) introduce biologically fixed N; (3) improve soil structure and texture; (4) reduce soil erosion; (5) reduce production costs; and (6) decrease nitrate run-off in surface waters. Through the {open_quotes}rotation effect{close_quotes}, legumes cause increases in yield of subsequent non-legume crops beyond that accounted for by biologically-fixed N alone. In this paper, we describe a biomass energy system combining legume and grass biomass energy with fertilizer production from these same materials. Preliminary agronomic and engineering assessments for this type of biomass system are presented. The technologies needed to integrate nitrate production with legume energy farming and energy production through legume energy conversion are identified.

  3. Utilization of summer legumes as bioenergy feedstocks

    USDA-ARS?s Scientific Manuscript database

    Sunn hemp (Crotolaria juncea), is a fast growing, high biomass yielding tropical legume that may be a possible southeastern bioenergy crop. When comparing this legume to a commonly grown summer legume—cowpeas (Vigna unguiculata), sunn hemp was superior in biomass yield and subsequent energy yield. S...

  4. Impact of the U.S. National Building Information Model Standard (NBIMS) on Building Energy Performance Simulation

    SciTech Connect

    Bazjanac, Vladimir

    2007-08-01

    The U.S. National Institute for Building Sciences (NIBS) started the development of the National Building Information Model Standard (NBIMS). Its goal is to define standard sets of data required to describe any given building in necessary detail so that any given AECO industry discipline application can find needed data at any point in the building lifecycle. This will include all data that are used in or are pertinent to building energy performance simulation and analysis. This paper describes the background that lead to the development of NBIMS, its goals and development methodology, its Part 1 (Version 1.0), and its probable impact on building energy performance simulation and analysis.

  5. Building Action Principles for Extended MHD Models

    NASA Astrophysics Data System (ADS)

    Keramidas Charidakos, Ioannis; Lingam, Manasvi; Morrison, Philip; White, Ryan; Wurm, Alexander

    2014-10-01

    The general, non-dissipative, two-fluid model in plasma physics is Hamiltonian, but this property is sometimes lost in the process of deriving simplified two-fluid or one-fluid models from the two-fluid equations of motion. One way to ensure that the reduced models are Hamiltonian is to derive them from an action. We start with the general two-fluid action functional for an electron and an ion fluid interacting with an electromagnetic field, expressed in Lagrangian variables. We perform a change of variables and make various approximations (eg. quasineutrality and ordering of the fields) and small parameter expansions directly in the action. The resulting equations of motion are then mapped to the Eulerian fluid variables using a novel nonlocal Lagrange-Euler map. The correct Eulerian equations are obtained after we impose locality. Using this method and the proper approximations and expansions, we recover Lust's general two-fluid model, extended MHD, Hall MHD, and Electron MHD from a unified framework. The variational formulation allows us to use Noether's theorem to derive conserved quantities for each symmetry of the action. U.S. Dept. of Energy Contract # DE-FG05-80ET-53088, Western New England University Research Fund.

  6. Evolutionary Tuning of Building Models to Monthly Electrical Consumption

    SciTech Connect

    Garrett, Aaron; New, Joshua Ryan; Chandler, Theodore

    2013-01-01

    Building energy models of existing buildings are unreliable unless calibrated so they correlate well with actual energy usage. Calibrating models is costly because it is currently an art which requires significant manual effort by an experienced and skilled professional. An automated methodology could significantly decrease this cost and facilitate greater adoption of energy simulation capabilities into the marketplace. The Autotune project is a novel methodology which leverages supercomputing, large databases of simulation data, and machine learning to allow automatic calibration of simulations to match measured experimental data on commodity hardware. This paper shares initial results from the automated methodology applied to the calibration of building energy models (BEM) for EnergyPlus (E+) to reproduce measured monthly electrical data.

  7. Exploitation of Semantic Building Model in Indoor Navigation Systems

    NASA Astrophysics Data System (ADS)

    Anjomshoaa, A.; Shayeganfar, F.; Tjoa, A. Min

    2009-04-01

    There are many types of indoor and outdoor navigation tools and methodologies available. A majority of these solutions are based on Global Positioning Systems (GPS) and instant video and image processing. These approaches are ideal for open world environments where very few information about the target location is available, but for large scale building environments such as hospitals, governmental offices, etc the end-user will need more detailed information about the surrounding context which is especially important in case of people with special needs. This paper presents a smart indoor navigation solution that is based on Semantic Web technologies and Building Information Model (BIM). The proposed solution is also aligned with Google Android's concepts to enlighten the realization of results. Keywords: IAI IFCXML, Building Information Model, Indoor Navigation, Semantic Web, Google Android, People with Special Needs 1 Introduction Built environment is a central factor in our daily life and a big portion of human life is spent inside buildings. Traditionally the buildings are documented using building maps and plans by utilization of IT tools such as computer-aided design (CAD) applications. Documenting the maps in an electronic way is already pervasive but CAD drawings do not suffice the requirements regarding effective building models that can be shared with other building-related applications such as indoor navigation systems. The navigation in built environment is not a new issue, however with the advances in emerging technologies like GPS, mobile and networked environments, and Semantic Web new solutions have been suggested to enrich the traditional building maps and convert them to smart information resources that can be reused in other applications and improve the interpretability with building inhabitants and building visitors. Other important issues that should be addressed in building navigation scenarios are location tagging and end-user communication

  8. Building metaphors and extending models of grief.

    PubMed

    VandeCreek, L

    1985-01-01

    Persons in grief turn to metaphors as they seek to understand and express their experience. Metaphors illustrated in this article include "grief is a whirlwind," "grief is the Great Depression all over again" and "grief is gray, cloudy and rainy weather." Hospice personnel can enhance their bereavement efforts by identifying and cultivating the expression of personal metaphors from patients and families. Two metaphors have gained wide cultural acceptance and lie behind contemporary scientific explorations of grief. These are "grief is recovery from illness" (Bowlby and Parkes) and "death is the last stage of growth and grief is the adjustment reaction to this growth" (Kubler-Ross). These models have developed linear perspectives of grief but have neglected to study the fluctuating intensity of symptoms. Adopting Worden's four-part typology of grief, the author illustrates how the pie graph can be used to display this important aspect of the grief experience, thus enhancing these models.

  9. Visualization and model building in medical imaging.

    PubMed

    McDonald, J P; Siebert, J P; Fryer, R J; Urquhart, C W

    1994-01-01

    We present technologies and ideas, developed from the JFIT 'Active Stereo Probe Project', which are applicable to problems within medical measurement and monitoring. Two related areas are considered. The first concerns patient body surface modelling. During the project two state-of-the-art non-contact surface measurement techniques have been developed which are applicable to medical situations requiring dense and accurate body surface modelling. Such applications include, for example, prosthetic appliance fabrication, presurgical planning and non-invasive deformity analysis. The second is concerned with overlay projection. Using this enabling technology the information content of a scene can be enhanced as an aid to medical personnel. Results and illustrative applications of the newly developed technology are presented.

  10. The Schwarzschild Method for Building Galaxy Models

    NASA Astrophysics Data System (ADS)

    de Zeeuw, P. T.

    1998-09-01

    Martin Schwarzschild is most widely known as one of the towering figures of the theory of stellar evolution. However, from the early fifties onward he displayed a strong interest in dynamical astronomy, and in particular in its application to the structure of star clusters and galaxies. This resulted in a string of remarkable investigations, including the discovery of what became known as the Spitzer-Schwarzschild mechanism, the invention of the strip count method for mass determinations, the demonstration of the existence of dark matter on large scales, and the study of the nucleus of M31, based on his own Stratoscope II balloon observations. With his retirement approaching he decided to leave the field of stellar evolution, and to make his life--long hobby of stellar dynamics a full-time occupation, and to tackle the problem of self-consistent equilibria for elliptical galaxies, which by then were suspected to have a triaxial shape. Rather than following classical methods, which had trouble already in dealing with axisymmetric systems, he invented a simple numerical technique, which seeks to populate individual stellar orbits in the galaxy potential so as to reproduce the associated model density. This is now known as Schwarzschild's method. He showed by numerical calculation that most stellar orbits in a triaxial potential relevant for elliptical galaxies have two effective integrals of motion in addition to the classical energy integral, and then constructed the first ever self-consistent equilibrium model for a realistic triaxial galaxy. This provided a very strong stimulus to research in the dynamics of flattened galaxies. This talk will review how Schwarzschild's Method is used today, in problems ranging from the existence of equilibrium models as a function of shape, central cusp slope, tumbling rate, and presence of a central point mass, to modeling of individual galaxies to find stellar dynamical evidence for dark matter in extended halos, and/or massive

  11. Building Qualitative Models of Thermodynamic Processes

    DTIC Science & Technology

    2007-01-01

    definition for fluid flow 39 28 Modifying flow rates according to conductance assumptions 40 29 Transfer of heat during fluid flow 40 30...bindings of the : type and : conditions modifiers hold . Notice that if any of these statements is known to be false such an instance can never exist, let...enforce the consistent use of modeling assumptions . That is, if it is assumed that FOO is a Thermal-Physob, then it must be the case that one is

  12. Cooking Has Variable Effects on the Fermentability in the Large Intestine of the Fraction of Meats, Grain Legumes, and Insects That Is Resistant to Digestion in the Small Intestine in an in Vitro Model of the Pig's Gastrointestinal Tract.

    PubMed

    Poelaert, Christine; Despret, Xavier; Sindic, Marianne; Beckers, Yves; Francis, Frédéric; Portetelle, Daniel; Soyeurt, Hélène; Théwis, André; Bindelle, Jérôme

    2017-01-18

    This study aimed to evaluate the fermentation in the large intestine of indigestible dietary protein sources from animal, insect, and plant origin using an in vitro model of the pig's gastrointestinal tract. Protein sources were used raw and after a cooking treatment. Results showed that the category of the ingredient (meats, insects, or grain legumes) exerts a stronger impact on enzymatic digestibility, fermentation patterns, and bacterial metabolites such as short-chain fatty acids (SCFA) and hydrogen sulfide (H2S) than the cooking treatment. The digestibility and the fermentation characteristics of insects were more affected by the cooking procedure than the other categories. Per gram of consumed food, ingredients from animal origin, namely, meats and insects, were associated with fewer fermentation end-products (gas, H2S, SCFA) than ingredients from plant origin, which is related to their higher small intestinal digestibility.

  13. Current State of the Art Historic Building Information Modelling

    NASA Astrophysics Data System (ADS)

    Dore, C.; Murphy, M.

    2017-08-01

    In an extensive review of existing literature a number of observations were made in relation to the current approaches for recording and modelling existing buildings and environments: Data collection and pre-processing techniques are becoming increasingly automated to allow for near real-time data capture and fast processing of this data for later modelling applications. Current BIM software is almost completely focused on new buildings and has very limited tools and pre-defined libraries for modelling existing and historic buildings. The development of reusable parametric library objects for existing and historic buildings supports modelling with high levels of detail while decreasing the modelling time. Mapping these parametric objects to survey data, however, is still a time-consuming task that requires further research. Promising developments have been made towards automatic object recognition and feature extraction from point clouds for as-built BIM. However, results are currently limited to simple and planar features. Further work is required for automatic accurate and reliable reconstruction of complex geometries from point cloud data. Procedural modelling can provide an automated solution for generating 3D geometries but lacks the detail and accuracy required for most as-built applications in AEC and heritage fields.

  14. Legume genomics: understanding biology through DNA and RNA sequencing

    PubMed Central

    O'Rourke, Jamie A.; Bolon, Yung-Tsi; Bucciarelli, Bruna; Vance, Carroll P.

    2014-01-01

    Background The legume family (Leguminosae) consists of approx. 17 000 species. A few of these species, including, but not limited to, Phaseolus vulgaris, Cicer arietinum and Cajanus cajan, are important dietary components, providing protein for approx. 300 million people worldwide. Additional species, including soybean (Glycine max) and alfalfa (Medicago sativa), are important crops utilized mainly in animal feed. In addition, legumes are important contributors to biological nitrogen, forming symbiotic relationships with rhizobia to fix atmospheric N2 and providing up to 30 % of available nitrogen for the next season of crops. The application of high-throughput genomic technologies including genome sequencing projects, genome re-sequencing (DNA-seq) and transcriptome sequencing (RNA-seq) by the legume research community has provided major insights into genome evolution, genomic architecture and domestication. Scope and Conclusions This review presents an overview of the current state of legume genomics and explores the role that next-generation sequencing technologies play in advancing legume genomics. The adoption of next-generation sequencing and implementation of associated bioinformatic tools has allowed researchers to turn each species of interest into their own model organism. To illustrate the power of next-generation sequencing, an in-depth overview of the transcriptomes of both soybean and white lupin (Lupinus albus) is provided. The soybean transcriptome focuses on analysing seed development in two near-isogenic lines, examining the role of transporters, oil biosynthesis and nitrogen utilization. The white lupin transcriptome analysis examines how phosphate deficiency alters gene expression patterns, inducing the formation of cluster roots. Such studies illustrate the power of next-generation sequencing and bioinformatic analyses in elucidating the gene networks underlying biological processes. PMID:24769535

  15. Model-building codes for membrane proteins.

    SciTech Connect

    Shirley, David Noyes; Hunt, Thomas W.; Brown, W. Michael; Schoeniger, Joseph S.; Slepoy, Alexander; Sale, Kenneth L.; Young, Malin M.; Faulon, Jean-Loup Michel; Gray, Genetha Anne

    2005-01-01

    We have developed a novel approach to modeling the transmembrane spanning helical bundles of integral membrane proteins using only a sparse set of distance constraints, such as those derived from MS3-D, dipolar-EPR and FRET experiments. Algorithms have been written for searching the conformational space of membrane protein folds matching the set of distance constraints, which provides initial structures for local conformational searches. Local conformation search is achieved by optimizing these candidates against a custom penalty function that incorporates both measures derived from statistical analysis of solved membrane protein structures and distance constraints obtained from experiments. This results in refined helical bundles to which the interhelical loops and amino acid side-chains are added. Using a set of only 27 distance constraints extracted from the literature, our methods successfully recover the structure of dark-adapted rhodopsin to within 3.2 {angstrom} of the crystal structure.

  16. Building a generalized distributed system model

    NASA Technical Reports Server (NTRS)

    Mukkamala, R.

    1992-01-01

    The key elements in the second year (1991-92) of our project are: (1) implementation of the distributed system prototype; (2) successful passing of the candidacy examination and a PhD proposal acceptance by the funded student; (3) design of storage efficient schemes for replicated distributed systems; and (4) modeling of gracefully degrading reliable computing systems. In the third year of the project (1992-93), we propose to: (1) complete the testing of the prototype; (2) enhance the functionality of the modules by enabling the experimentation with more complex protocols; (3) use the prototype to verify the theoretically predicted performance of locking protocols, etc.; and (4) work on issues related to real-time distributed systems. This should result in efficient protocols for these systems.

  17. Modeling of heat and mass transfer in lateritic building envelopes

    NASA Astrophysics Data System (ADS)

    Meukam, Pierre; Noumowe, Albert

    2005-12-01

    The aim of the present work is to investigate the behavior of building envelopes made of local lateritic soil bricks subjected to different climatic conditions. The building envelopes studied in this work consist of lateritic soil bricks with incorporation of natural pozzolan or sawdust in order to obtain small thermal conductivity and low-density materials. In order to describe coupled heat and moisture transfer in wet porous materials, the coupled equations were solved by the introduction of diffusion coefficients. A numerical model HMtrans, developed for prediction of heat and moisture transfer in multi-layered building components, was used to simulate the temperature, water content and relative humidity profiles within the building envelopes. The results allow the prediction of the duration of the exposed building walls to the local weather conditions. They show that the durability of building envelopes made of lateritic soil bricks with incorporation of natural pozzolan or sawdust is not strongly affected by the climatic conditions in tropical and equatorial areas.

  18. Improving Traditional Building Repair Construction Quality Using Historic Building Information Modeling Concept

    NASA Astrophysics Data System (ADS)

    Wu, T. C.; Lin, Y. C.; Hsu, M. F.; Zheng, N. W.; Chen, W. L.

    2013-07-01

    In addition to the repair construction project following the repair principles contemplated by heritage experts, the construction process should be recorded and measured at any time for monitoring to ensure the quality of repair. The conventional construction record methods mostly depend on the localized shooting of 2D digital images coupled with text and table for illustration to achieve the purpose of monitoring. Such methods cannot fully and comprehensively record the 3D spatial relationships in the real world. Therefore, the construction records of traditional buildings are very important but cannot function due to technical limitations. This study applied the 3D laser scanning technology to establish a 3D point cloud model for the repair construction of historical buildings. It also broke down the detailed components of the 3D point cloud model by using the concept of the historic building information modeling, and established the 3D models of various components and their attribute data in the 3DGIS platform database. In the construction process, according to the time of completion of each stage as developed on the construction project, this study conducted the 3D laser scanning and database establishment for each stage, also applied 3DGIS spatial information and attribute information comparison and analysis to propose the analysis of differences in completion of various stages for improving the traditional building repair construction quality. This method helps to improve the quality of repair construction work of tangible cultural assets of the world. The established 3DGIS platform can be used as a power tool for subsequent management and maintenance.

  19. Combined Grammar for the Modeling of Building Interiors

    NASA Astrophysics Data System (ADS)

    Becker, S.; Peter, M.; Fritsch, D.; Philipp, D.; Baier, P.; Dibak, C.

    2013-11-01

    As spatial grammars have proven successful and efficient to deliver LOD3 models, the next challenge is their extension to indoor applications, leading to LOD4 models. Therefore, a combined indoor grammar for the automatic generation of indoor models from erroneous and incomplete observation data is presented. In building interiors where inaccurate observation data is available, the grammar can be used to make the reconstruction process robust, and verify the reconstructed geometries. In unobserved building interiors, the grammar can generate hypotheses about possible indoor geometries matching the style of the rest of the building. The grammar combines concepts from L-systems and split grammars. It is designed in such way that it can be derived from observation data fully automatically. Thus, manual predefinitions of the grammar rules usually required to tune the grammar to a specific building style, become obsolete. The potential benefit of using our grammar as support for indoor modeling is evaluated based on an example where the grammar has been applied to automatically generate an indoor model from erroneous and incomplete traces gathered by foot-mounted MEMS/IMU positioning systems.

  20. Evaluation study of building-resolved urban dispersion models

    SciTech Connect

    Flaherty, Julia E.; Allwine, K Jerry; Brown, Mike J.; Coirier, WIlliam J.; Ericson, Shawn C.; Hansen, Olav R.; Huber, Alan H.; Kim, Sura; Leach, Martin J.; Mirocha, Jeff D.; Newsom, Rob K.; Patnaik, Gopal; Senocak, Inanc

    2007-09-10

    For effective emergency response and recovery planning, it is critically important that building-resolved urban dispersion models be evaluated using field data. Several full-physics computational fluid dynamics (CFD) models and semi-empirical building-resolved (SEB) models are being advanced and applied to simulating flow and dispersion in urban areas. To obtain an estimate of the current state-of-readiness of these classes of models, the Department of Homeland Security (DHS) funded a study to compare five CFD models and one SEB model with tracer data from the extensive Midtown Manhattan field study (MID05) conducted during August 2005 as part of the DHS Urban Dispersion Program (UDP; Allwine and Flaherty 2007). Six days of tracer and meteorological experiments were conducted over an approximately 2-km-by-2-km area in Midtown Manhattan just south of Central Park in New York City. A subset of these data was used for model evaluations. The study was conducted such that an evaluation team, independent of the six modeling teams, provided all the input data (e.g., building data, meteorological data and tracer release rates) and run conditions for each of four experimental periods simulated. Tracer concentration data for two of the four experimental periods were provided to the modeling teams for their own evaluation of their respective models to ensure proper setup and operation. Tracer data were not provided for the second two experimental periods to provide for an independent evaluation of the models. The tracer concentrations resulting from the model simulations were provided to the evaluation team in a standard format for consistency in inter-comparing model results. An overview of the model evaluation approach will be given followed by a discussion on the qualitative comparison of the respective models with the field data. Future model developments efforts needed to address modeling gaps identified from this study will also be discussed.

  1. Differential effectiveness of novel and old legume-rhizobia mutualisms: implications for invasion by exotic legumes.

    PubMed

    Rodríguez-Echeverría, Susana; Fajardo, Susana; Ruiz-Díez, Beatriz; Fernández-Pascual, Mercedes

    2012-09-01

    The degree of specialization in the legume-rhizobium mutualism and the variation in the response to different potential symbionts are crucial factors for understanding the process of invasion by exotic legumes and the consequences for the native resident plants and bacteria. The enhanced novel mutualism hypothesis predicts that exotic invasive legumes would take advantage of native rhizobia present in the invaded soils. However, recent studies have shown that exotic legumes might become invasive by using exotic introduced microsymbionts, and that they could be a source of exotic bacteria for native legumes. To unravel the role of novel and old symbioses in the progress of invasion, nodulation and symbiotic effectiveness were analyzed for exotic invasive plants and native co-occurring legumes in a Mediterranean coastal dune ecosystem. Although most of the studied species nodulated with bacteria from distant origins these novel mutualisms were less effective in terms of nodulation, nitrogenase activity and plant growth than the interactions of plants and bacteria from the same origin. The relative effect of exotic bradyrhizobia was strongly positive for exotic invasive legumes and detrimental for native shrubs. We conclude that (1) the studied invasive legumes do not rely on novel mutualisms but rather need the co-introduction of compatible symbionts, and (2) since exotic rhizobia colonize native legumes in invaded areas, the lack of effectiveness of these novel symbiosis demonstrated here suggests that invasion can disrupt native belowground mutualisms and reduce native legumes fitness.

  2. Semi-Automatic Modelling of Building FAÇADES with Shape Grammars Using Historic Building Information Modelling

    NASA Astrophysics Data System (ADS)

    Dore, C.; Murphy, M.

    2013-02-01

    This paper outlines a new approach for generating digital heritage models from laser scan or photogrammetric data using Historic Building Information Modelling (HBIM). HBIM is a plug-in for Building Information Modelling (BIM) software that uses parametric library objects and procedural modelling techniques to automate the modelling stage. The HBIM process involves a reverse engineering solution whereby parametric interactive objects representing architectural elements are mapped onto laser scan or photogrammetric survey data. A library of parametric architectural objects has been designed from historic manuscripts and architectural pattern books. These parametric objects were built using an embedded programming language within the ArchiCAD BIM software called Geometric Description Language (GDL). Procedural modelling techniques have been implemented with the same language to create a parametric building façade which automatically combines library objects based on architectural rules and proportions. Different configurations of the façade are controlled by user parameter adjustment. The automatically positioned elements of the façade can be subsequently refined using graphical editing while overlaying the model with orthographic imagery. Along with this semi-automatic method for generating façade models, manual plotting of library objects can also be used to generate a BIM model from survey data. After the 3D model has been completed conservation documents such as plans, sections, elevations and 3D views can be automatically generated for conservation projects.

  3. Overcoming Microsoft Excel's Weaknesses for Crop Model Building and Simulations

    ERIC Educational Resources Information Center

    Sung, Christopher Teh Boon

    2011-01-01

    Using spreadsheets such as Microsoft Excel for building crop models and running simulations can be beneficial. Excel is easy to use, powerful, and versatile, and it requires the least proficiency in computer programming compared to other programming platforms. Excel, however, has several weaknesses: it does not directly support loops for iterative…

  4. Facilities Management of Existing School Buildings: Two Models.

    ERIC Educational Resources Information Center

    Building Technology, Inc., Silver Spring, MD.

    While all school districts are responsible for the management of their existing buildings, they often approach the task in different ways. This document presents two models that offer ways a school district administration, regardless of size, may introduce activities into its ongoing management process that will lead to improvements in earthquake…

  5. Reframing Leadership Pedagogy through Model and Theory Building.

    ERIC Educational Resources Information Center

    Mello, Jeffrey A.

    1999-01-01

    Leadership theories formed the basis of a course assignment with four objectives: understanding complex factors affecting leadership dynamics, developing abilities to assess organizational factors influencing leadership, practicing model and theory building, and viewing leadership from a multicultural perspective. The assignment was to develop a…

  6. Getting Started and Working with Building Information Modeling

    ERIC Educational Resources Information Center

    Smith, Dana K.

    2009-01-01

    This article will assume that one has heard of Building Information Modeling or BIM but has not developed a strategy as to how to get the most out of it. The National BIM Standard (NBIMS) has defined BIM as a digital representation of physical and functional characteristics of a facility. As such, it serves as a shared knowledge resource for…

  7. Overcoming Microsoft Excel's Weaknesses for Crop Model Building and Simulations

    ERIC Educational Resources Information Center

    Sung, Christopher Teh Boon

    2011-01-01

    Using spreadsheets such as Microsoft Excel for building crop models and running simulations can be beneficial. Excel is easy to use, powerful, and versatile, and it requires the least proficiency in computer programming compared to other programming platforms. Excel, however, has several weaknesses: it does not directly support loops for iterative…

  8. Building and Sustaining Digital Collections: Models for Libraries and Museums.

    ERIC Educational Resources Information Center

    Council on Library and Information Resources, Washington, DC.

    In February 2001, the Council on Library and Information Resources (CLIR) and the National Initiative for a Networked Cultural Heritage (NINCH) convened a meeting to discuss how museums and libraries are building digital collections and what business models are available to sustain them. A group of museum and library senior executives met with…

  9. A Synergetic Model for Building an Intelligent Documentation System (IDS).

    ERIC Educational Resources Information Center

    Emdad, Ali

    1990-01-01

    Presents a conceptual framework for building an intelligent documentation system (IDS) for computer software by integrating hypermedia and expert systems technologies. The need for online computer documentation for end-users is discussed, and elements of the synergetic model are described, including knowledge representation, the hypermedia…

  10. A Relationship-Building Model for the Web Retail Marketplace.

    ERIC Educational Resources Information Center

    Wang, Fang; Head, Milena; Archer, Norm

    2000-01-01

    Discusses the effects of the Web on marketing practices. Introduces the concept and theory of relationship marketing. The relationship network concept, which typically is only applied to the business-to-business market, is discussed within the business-to-consumer market, and a new relationship-building model for the Web marketplace is proposed.…

  11. Building a Model PE Curriculum: Education Reform in Action

    ERIC Educational Resources Information Center

    Moore, John

    2012-01-01

    The blueprint to build a model physical education (PE) curriculum begins by establishing a sound curricular foundation based on a lesson plan template that incorporates clear and concise program goals, the alignment of lessons to state or national content standards, and the collection, analysis and use of objective assessment data that informs…

  12. Building information modeling (BIM) approach to the GMT Project

    NASA Astrophysics Data System (ADS)

    Teran, Jose; Sheehan, Michael; Neff, Daniel H.; Adriaanse, David; Grigel, Eric; Farahani, Arash

    2014-07-01

    The Giant Magellan Telescope (GMT), one of several next generation Extremely Large Telescopes (ELTs), is a 25.4 meter diameter altitude over azimuth design set to be built at the summit of Cerro Campánas at the Las Campánas Observatory in Chile. The paper describes the use of Building Information Modeling (BIM) for the GMT project.

  13. Impact of thermal processing on legume allergens.

    PubMed

    Verma, Alok Kumar; Kumar, Sandeep; Das, Mukul; Dwivedi, Premendra D

    2012-12-01

    Food induced allergic manifestations are reported from several parts of the world. Food proteins exert their allergenic potential by absorption through the gastrointestinal tract and can even induce life threatening anaphylaxis reactions. Among all food allergens, legume allergens play an important role in induction of allergy because legumes are a major source of protein for vegetarians. Most of the legumes are cooked either by boiling, roasting or frying before consumption, which can be considered a form of thermal treatment. Thermal processing may also include autoclaving, microwave heating, blanching, pasteurization, canning, or steaming. Thermal processing of legumes may reduce, eliminate or enhance the allergenic potential of a respective legume. In most of the cases, minimization of allergenic potential on thermal treatment has generally been reported. Thus, thermal processing can be considered an important tool by indirectly prevent allergenicity in susceptible individuals, thereby reducing treatment costs and reducing industry/office/school absence in case of working population/school going children. The present review attempts to explore various possibilities of reducing or eliminating allergenicity of leguminous food using different methods of thermal processing. Further, this review summarizes different methods of food processing, major legumes and their predominant allergenic proteins, thermal treatment and its relation with antigenicity, effect of thermal processing on legume allergens; also suggests a path that may be taken for future research to reduce the allergenicity using conventional/nonconventional methods.

  14. The Creation of Space Vector Models of Buildings From RPAS Photogrammetry Data

    NASA Astrophysics Data System (ADS)

    Trhan, Ondrej

    2017-06-01

    The results of Remote Piloted Aircraft System (RPAS) photogrammetry are digital surface models and orthophotos. The main problem of the digital surface models obtained is that buildings are not perpendicular and the shape of roofs is deformed. The task of this paper is to obtain a more accurate digital surface model using building reconstructions. The paper discusses the problem of obtaining and approximating building footprints, reconstructing the final spatial vector digital building model, and modifying the buildings on the digital surface model.

  15. Flooding tolerance of forage legumes.

    PubMed

    Striker, Gustavo G; Colmer, Timothy D

    2016-06-20

    We review waterlogging and submergence tolerances of forage (pasture) legumes. Growth reductions from waterlogging in perennial species ranged from >50% for Medicago sativa and Trifolium pratense to <25% for Lotus corniculatus, L. tenuis, and T. fragiferum For annual species, waterlogging reduced Medicago truncatula by ~50%, whereas Melilotus siculus and T. michelianum were not reduced. Tolerant species have higher root porosity (gas-filled volume in tissues) owing to aerenchyma formation. Plant dry mass (waterlogged relative to control) had a positive (hyperbolic) relationship to root porosity across eight species. Metabolism in hypoxic roots was influenced by internal aeration. Sugars accumulate in M. sativa due to growth inhibition from limited respiration and low energy in roots of low porosity (i.e. 4.5%). In contrast, L. corniculatus, with higher root porosity (i.e. 17.2%) and O2 supply allowing respiration, maintained growth better and sugars did not accumulate. Tolerant legumes form nodules, and internal O2 diffusion along roots can sustain metabolism, including N2 fixation, in submerged nodules. Shoot physiology depends on species tolerance. In M. sativa, photosynthesis soon declines and in the longer term (>10 d) leaves suffer chlorophyll degradation, damage, and N, P, and K deficiencies. In tolerant L corniculatus and L. tenuis, photosynthesis is maintained longer, shoot N is less affected, and shoot P can even increase during waterlogging. Species also differ in tolerance of partial and complete shoot submergence. Gaps in knowledge include anoxia tolerance of roots, N2 fixation during field waterlogging, and identification of traits conferring the ability to recover after water subsides.

  16. On a computational model of building thermal dynamic response

    NASA Astrophysics Data System (ADS)

    Jarošová, Petra; Vala, Jiří

    2016-07-01

    Development and exploitation of advanced materials, structures and technologies in civil engineering, both for buildings with carefully controlled interior temperature and for common residential houses, together with new European and national directives and technical standards, stimulate the development of rather complex and robust, but sufficiently simple and inexpensive computational tools, supporting their design and optimization of energy consumption. This paper demonstrates the possibility of consideration of such seemingly contradictory requirements, using the simplified non-stationary thermal model of a building, motivated by the analogy with the analysis of electric circuits; certain semi-analytical forms of solutions come from the method of lines.

  17. Enhancements to ASHRAE Standard 90.1 Prototype Building Models

    SciTech Connect

    Goel, Supriya; Athalye, Rahul A.; Wang, Weimin; Zhang, Jian; Rosenberg, Michael I.; Xie, YuLong; Hart, Philip R.; Mendon, Vrushali V.

    2014-04-16

    This report focuses on enhancements to prototype building models used to determine the energy impact of various versions of ANSI/ASHRAE/IES Standard 90.1. Since the last publication of the prototype building models, PNNL has made numerous enhancements to the original prototype models compliant with the 2004, 2007, and 2010 editions of Standard 90.1. Those enhancements are described here and were made for several reasons: (1) to change or improve prototype design assumptions; (2) to improve the simulation accuracy; (3) to improve the simulation infrastructure; and (4) to add additional detail to the models needed to capture certain energy impacts from Standard 90.1 improvements. These enhancements impact simulated prototype energy use, and consequently impact the savings estimated from edition to edition of Standard 90.1.

  18. Early experiences building a software quality prediction model

    NASA Technical Reports Server (NTRS)

    Agresti, W. W.; Evanco, W. M.; Smith, M. C.

    1990-01-01

    Early experiences building a software quality prediction model are discussed. The overall research objective is to establish a capability to project a software system's quality from an analysis of its design. The technical approach is to build multivariate models for estimating reliability and maintainability. Data from 21 Ada subsystems were analyzed to test hypotheses about various design structures leading to failure-prone or unmaintainable systems. Current design variables highlight the interconnectivity and visibility of compilation units. Other model variables provide for the effects of reusability and software changes. Reported results are preliminary because additional project data is being obtained and new hypotheses are being developed and tested. Current multivariate regression models are encouraging, explaining 60 to 80 percent of the variation in error density of the subsystems.

  19. 7 CFR Exhibit E to Subpart A of... - Voluntary National Model Building Codes

    Code of Federal Regulations, 2011 CFR

    2011-01-01

    ... 7 Agriculture 12 2011-01-01 2011-01-01 false Voluntary National Model Building Codes E Exhibit E... National Model Building Codes The following documents address the health and safety aspects of buildings and related structures and are voluntary national model building codes as defined in § 1924.4(h)(2)...

  20. Links Related to the Indoor Air Quality Building Education and Assessment Model

    EPA Pesticide Factsheets

    The Indoor Air Quality Building Education and Assessment Model (I-BEAM) is a guidance tool designed for use by building professionals and others interested in indoor air quality in commercial buildings.

  1. Bibliography for the Indoor Air Quality Building Education and Assessment Model

    EPA Pesticide Factsheets

    The Indoor Air Quality Building Education and Assessment Model (I-BEAM) is a guidance tool designed for use by building professionals and others interested in indoor air quality in commercial buildings.

  2. Building America Top Innovations 2012: Model Simulating Real Domestic Hot Water Use

    SciTech Connect

    none,

    2013-01-01

    This Building America Top Innovations profile describes Building America research that is improving domestic hot water modeling capabilities to more effectively address one of the largest energy uses in residential buildings.

  3. Supermultiplicative Speedups of Probabilistic Model-Building Genetic Algorithms

    DTIC Science & Technology

    2009-02-01

    simulations. We (Todd Martinez (2005 MacArthur fellow), Duanc Johnson, Kumara Sastry and David E. Goldberg) have applied inultiobjcctive GAs and model...AUTHOR(S) David E. Goldberg. Kumara Sastry. Martin Pelikan 5d. PROJECT NUMBER 5e. TASK NUMBER 5f. WORK UNIT NUMBER 7. PERFORMING ORGANIZATION NAME(S...Speedups of Probabilistic Model-Building Genetic Algorithms AFOSR Grant No. FA9550-06-1-0096 February 1, 2006 to November 30, 2008 David E. Goldberg

  4. First Prismatic Building Model Reconstruction from Tomosar Point Clouds

    NASA Astrophysics Data System (ADS)

    Sun, Y.; Shahzad, M.; Zhu, X.

    2016-06-01

    This paper demonstrates for the first time the potential of explicitly modelling the individual roof surfaces to reconstruct 3-D prismatic building models using spaceborne tomographic synthetic aperture radar (TomoSAR) point clouds. The proposed approach is modular and works as follows: it first extracts the buildings via DSM generation and cutting-off the ground terrain. The DSM is smoothed using BM3D denoising method proposed in (Dabov et al., 2007) and a gradient map of the smoothed DSM is generated based on height jumps. Watershed segmentation is then adopted to oversegment the DSM into different regions. Subsequently, height and polygon complexity constrained merging is employed to refine (i.e., to reduce) the retrieved number of roof segments. Coarse outline of each roof segment is then reconstructed and later refined using quadtree based regularization plus zig-zag line simplification scheme. Finally, height is associated to each refined roof segment to obtain the 3-D prismatic model of the building. The proposed approach is illustrated and validated over a large building (convention center) in the city of Las Vegas using TomoSAR point clouds generated from a stack of 25 images using Tomo-GENESIS software developed at DLR.

  5. A consistent model for tsunami actions on buildings

    NASA Astrophysics Data System (ADS)

    Foster, A.; Rossetto, T.; Eames, I.; Chandler, I.; Allsop, W.

    2016-12-01

    The Japan (2011) and Indian Ocean (2004) tsunami resulted in significant loss of life, buildings, and critical infrastructure. The tsunami forces imposed upon structures in coastal regions are initially due to wave slamming, after which the quasi-steady flow of the sea water around buildings becomes important. An essential requirement in both design and loss assessment is a consistent model that can accurately predict these forces. A model suitable for predicting forces in the in the quasi-steady range has been established as part of a systematic programme of research by the UCL EPICentre to understand the fundamental physical processes of tsunami actions on buildings, and more generally their social and economic consequences. Using the pioneering tsunami generator at HR Wallingford, this study considers the influence of unsteady flow conditions on the forces acting upon a rectangular building occupying 10-80% of a channel for 20-240 second wave periods. A mathematical model based upon basic open-channel flow principles is proposed, which provides empirical estimates for drag and hydrostatic coefficients. A simple force prediction equation, requiring only basic flow velocity and wave height inputs is then developed, providing good agreement with the experimental results. The results of this study demonstrate that the unsteady forces from the very long waves encountered during tsunami events can be predicted with a level of accuracy and simplicity suitable for design and risk assessment.

  6. A method for building 3D models of barchan dunes

    NASA Astrophysics Data System (ADS)

    Nai, Yang; Li-lan, Su; Lin, Wan; Jie, Yang; Shi-yi, Chen; Wei-lu, Hu

    2016-01-01

    The distributions of barchan dunes are usually represented by digital terrain models (DTMs) overlaid with digital orthophoto maps. Given that most regions with barchan dues have low relief, a 3D map obtained from a DTM may ineffectively show the stereoscopic shape of each dune. The method of building 3D models of barchan dunes using existing modeling software seldom considers the geographical environment. As a result, barchan dune models are often inconsistent with actual DTMs and incompletely express the morphological characteristics of dunes. Manual construction of barchan dune models is also costly and time consuming. Considering these problems, the morphological characteristics of barchan dunes and the mathematical relationships between the morphological parameters of the dunes, such as length, height, and width, are analyzed in this study. The methods of extracting the morphological feature points of barchan dunes, calculating their morphological parameters and building dune outlines and skeleton lines based on the medial axes, are also presented. The dune outlines, skeleton lines, and part of the medial axes of dunes are used to construct a constrained triangulated irregular network. C# and ArcEngine are employed to build 3D models of barchan dunes automatically. Experimental results of a study conducted in Tengger Desert show that the method can be used to approximate the morphological characteristics of barchan dunes and is less time consuming than manual methods.

  7. Facultative nitrogen fixation by canopy legumes in a lowland tropical forest.

    PubMed

    Barron, Alexander R; Purves, Drew W; Hedin, Lars O

    2011-02-01

    Symbiotic dinitrogen (N(2)) fixation is often invoked to explain the N richness of tropical forests as ostensibly N(2)-fixing trees can be a major component of the community. Such arguments assume N(2) fixers are fixing N when present. However, in laboratory experiments, legumes consistently reduce N(2) fixation in response to increased soil N availability. These contrasting views of N(2) fixation as either obligate or facultative have drastically different implications for the N cycle of tropical forests. We tested these models by directly measuring N(2)-fixing root nodules and nitrogenase activity of individual canopy-dominant legume trees (Inga sp.) across several lowland forest types. Fixation was substantial in disturbed forests and some gaps but near zero in the high N soils of mature forest. Our findings suggest that canopy legumes closely regulate N(2) fixation, leading to large variations in N inputs across the landscape, and low symbiotic fixation in mature forests despite abundant legumes.

  8. Increasing seed size and quality by manipulating BIG SEEDS1 in legume species

    PubMed Central

    Ge, Liangfa; Yu, Jianbin; Wang, Hongliang; Luth, Diane; Bai, Guihua; Wang, Kan

    2016-01-01

    Plant organs, such as seeds, are primary sources of food for both humans and animals. Seed size is one of the major agronomic traits that have been selected in crop plants during their domestication. Legume seeds are a major source of dietary proteins and oils. Here, we report a conserved role for the BIG SEEDS1 (BS1) gene in the control of seed size and weight in the model legume Medicago truncatula and the grain legume soybean (Glycine max). BS1 encodes a plant-specific transcription regulator and plays a key role in the control of the size of plant organs, including seeds, seed pods, and leaves, through a regulatory module that targets primary cell proliferation. Importantly, down-regulation of BS1 orthologs in soybean by an artificial microRNA significantly increased soybean seed size, weight, and amino acid content. Our results provide a strategy for the increase in yield and seed quality in legumes. PMID:27791139

  9. Applied Concepts in PBPK Modeling: How to Build a PBPK/PD Model

    PubMed Central

    Kuepfer, L; Niederalt, C; Wendl, T; Schlender, J‐F; Willmann, S; Lippert, J; Block, M; Eissing, T

    2016-01-01

    The aim of this tutorial is to introduce the fundamental concepts of physiologically based pharmacokinetic/pharmacodynamic (PBPK/PD) modeling with a special focus on their practical implementation in a typical PBPK model building workflow. To illustrate basic steps in PBPK model building, a PBPK model for ciprofloxacin will be constructed and coupled to a pharmacodynamic model to simulate the antibacterial activity of ciprofloxacin treatment. PMID:27653238

  10. Infiltration modeling guidelines for commercial building energy analysis

    SciTech Connect

    Gowri, Krishnan; Winiarski, David W.; Jarnagin, Ronald E.

    2009-09-30

    This report presents a methodology for modeling air infiltration in EnergyPlus to account for envelope air barrier characteristics. Based on a review of various infiltration modeling options available in EnergyPlus and sensitivity analysis, the linear wind velocity coefficient based on DOE-2 infiltration model is recommended. The methodology described in this report can be used to calculate the EnergyPlus infiltration input for any given building level infiltration rate specified at known pressure difference. The sensitivity analysis shows that EnergyPlus calculates the wind speed based on zone altitude, and the linear wind velocity coefficient represents the variation in infiltration heat loss consistent with building location and weather data.

  11. Healthy food trends -- beans and legumes

    MedlinePlus

    ... large, fleshy, colorful plant seeds. Beans, peas, and lentils are all types of legumes. Vegetables such as ... in healthy diets and have many benefits. Beans, lentils, and peas come in many options, cost little ...

  12. Active buildings: modelling physical activity and movement in office buildings. An observational study protocol.

    PubMed

    Smith, Lee; Ucci, Marcella; Marmot, Alexi; Spinney, Richard; Laskowski, Marek; Sawyer, Alexia; Konstantatou, Marina; Hamer, Mark; Ambler, Gareth; Wardle, Jane; Fisher, Abigail

    2013-11-12

    Health benefits of regular participation in physical activity are well documented but population levels are low. Office layout, and in particular the number and location of office building destinations (eg, print and meeting rooms), may influence both walking time and characteristics of sitting time. No research to date has focused on the role that the layout of the indoor office environment plays in facilitating or inhibiting step counts and characteristics of sitting time. The primary aim of this study was to investigate associations between office layout and physical activity, as well as sitting time using objective measures. Active buildings is a unique collaboration between public health, built environment and computer science researchers. The study involves objective monitoring complemented by a larger questionnaire arm. UK office buildings will be selected based on a variety of features, including office floor area and number of occupants. Questionnaires will include items on standard demographics, well-being, physical activity behaviour and putative socioecological correlates of workplace physical activity. Based on survey responses, approximately 30 participants will be recruited from each building into the objective monitoring arm. Participants will wear accelerometers (to monitor physical activity and sitting inside and outside the office) and a novel tracking device will be placed in the office (to record participant location) for five consecutive days. Data will be analysed using regression analyses, as well as novel agent-based modelling techniques. The results of this study will be disseminated through peer-reviewed publications and scientific presentations. Ethical approval was obtained through the University College London Research Ethics Committee (Reference number 4400/001).

  13. Active buildings: modelling physical activity and movement in office buildings. An observational study protocol

    PubMed Central

    Smith, Lee; Ucci, Marcella; Marmot, Alexi; Spinney, Richard; Laskowski, Marek; Sawyer, Alexia; Konstantatou, Marina; Hamer, Mark; Ambler, Gareth; Wardle, Jane; Fisher, Abigail

    2013-01-01

    Introduction Health benefits of regular participation in physical activity are well documented but population levels are low. Office layout, and in particular the number and location of office building destinations (eg, print and meeting rooms), may influence both walking time and characteristics of sitting time. No research to date has focused on the role that the layout of the indoor office environment plays in facilitating or inhibiting step counts and characteristics of sitting time. The primary aim of this study was to investigate associations between office layout and physical activity, as well as sitting time using objective measures. Methods and analysis Active buildings is a unique collaboration between public health, built environment and computer science researchers. The study involves objective monitoring complemented by a larger questionnaire arm. UK office buildings will be selected based on a variety of features, including office floor area and number of occupants. Questionnaires will include items on standard demographics, well-being, physical activity behaviour and putative socioecological correlates of workplace physical activity. Based on survey responses, approximately 30 participants will be recruited from each building into the objective monitoring arm. Participants will wear accelerometers (to monitor physical activity and sitting inside and outside the office) and a novel tracking device will be placed in the office (to record participant location) for five consecutive days. Data will be analysed using regression analyses, as well as novel agent-based modelling techniques. Ethics and dissemination The results of this study will be disseminated through peer-reviewed publications and scientific presentations. Ethical approval was obtained through the University College London Research Ethics Committee (Reference number 4400/001). PMID:24227873

  14. Air Dispersion Modeling for Building 3026C/D Demolition

    SciTech Connect

    Ward, Richard C; Sjoreen, Andrea L; Eckerman, Keith F

    2010-06-01

    This report presents estimates of dispersion coefficients and effective dose for potential air dispersion scenarios of uncontrolled releases from Oak Ridge National Laboratory (ORNL) buildings 3026C, 3026D, and 3140 prior to or during the demolition of the 3026 Complex. The Environmental Protection Agency (EPA) AERMOD system1-6 was used to compute these estimates. AERMOD stands for AERMIC Model, where AERMIC is the American Meteorological Society-EPA Regulatory Model Improvement Committee. Five source locations (three in building 3026D and one each in building 3026C and the filter house 3140) and associated source characteristics were determined with the customer. In addition, the area of study was determined and building footprints and intake locations of air-handling systems were obtained. In addition to the air intakes, receptor sites consisting of ground level locations on four polar grids (50 m, 100 m, 200 m, and 500 m) and two intersecting lines of points (50 m separation), corresponding to sidewalks along Central Avenue and Fifth Street. Three years of meteorological data (2006 2008) were used each consisting of three datasets: 1) National Weather Service data; 2) upper air data for the Knoxville-Oak Ridge area; and 3) local weather data from Tower C (10 m, 30 m and 100 m) on the ORNL reservation. Annual average air concentration, highest 1 h average and highest 3 h average air concentrations were computed using AERMOD for the five source locations for the three years of meteorological data. The highest 1 h average air concentrations were converted to dispersion coefficients to characterize the atmospheric dispersion as the customer was interested in the most significant response and the highest 1 h average data reflects the best time-averaged values available from the AERMOD code. Results are presented in tabular and graphical form. The results for dose were obtained using radionuclide activities for each of the buildings provided by the customer.7

  15. Building 235-F Goldsim Fate And Transport Model

    SciTech Connect

    Taylor, G. A.; Phifer, M. A.

    2012-09-14

    Savannah River National Laboratory (SRNL) personnel, at the request of Area Completion Projects (ACP), evaluated In-Situ Disposal (ISD) alternatives that are under consideration for deactivation and decommissioning (D&D) of Building 235-F and the Building 294-2F Sand Filter. SRNL personnel developed and used a GoldSim fate and transport model, which is consistent with Musall 2012, to evaluate relative to groundwater protection, ISD alternatives that involve either source removal and/or the grouting of portions or all of 235-F. This evaluation was conducted through the development and use of a Building 235-F GoldSim fate and transport model. The model simulates contaminant release from four 235-F process areas and the 294-2F Sand Filter. In addition, it simulates the fate and transport through the vadose zone, the Upper Three Runs (UTR) aquifer, and the Upper Three Runs (UTR) creek. The model is designed as a stochastic model, and as such it can provide both deterministic and stochastic (probabilistic) results. The results show that the median radium activity concentrations exceed the 5 ?Ci/L radium MCL at the edge of the building for all ISD alternatives after 10,000 years, except those with a sufficient amount of inventory removed. A very interesting result was that grouting was shown to basically have minimal effect on the radium activity concentration. During the first 1,000 years grouting may have some small positive benefit relative to radium, however after that it may have a slightly deleterious effect. The Pb-210 results, relative to its 0.06 ?Ci/L PRG, are essentially identical to the radium results, but the Pb-210 results exhibit a lesser degree of exceedance. In summary, some level of inventory removal will be required to ensure that groundwater standards are met.

  16. Assessing Predicted Contacts for Building Protein Three-Dimensional Models.

    PubMed

    Adhikari, Badri; Bhattacharya, Debswapna; Cao, Renzhi; Cheng, Jianlin

    2017-01-01

    Recent successes of contact-guided protein structure prediction methods have revived interest in solving the long-standing problem of ab initio protein structure prediction. With homology modeling failing for many protein sequences that do not have templates, contact-guided structure prediction has shown promise, and consequently, contact prediction has gained a lot of interest recently. Although a few dozen contact prediction tools are already currently available as web servers and downloadables, not enough research has been done towards using existing measures like precision and recall to evaluate these contacts with the goal of building three-dimensional models. Moreover, when we do not have a native structure for a set of predicted contacts, the only analysis we can perform is a simple contact map visualization of the predicted contacts. A wider and more rigorous assessment of the predicted contacts is needed, in order to build tertiary structure models. This chapter discusses instructions and protocols for using tools and applying techniques in order to assess predicted contacts for building three-dimensional models.

  17. Building Detection Using Aerial Images and Digital Surface Models

    NASA Astrophysics Data System (ADS)

    Mu, J.; Cui, S.; Reinartz, P.

    2017-05-01

    In this paper a method for building detection in aerial images based on variational inference of logistic regression is proposed. It consists of three steps. In order to characterize the appearances of buildings in aerial images, an effective bag-of-Words (BoW) method is applied for feature extraction in the first step. In the second step, a classifier of logistic regression is learned using these local features. The logistic regression can be trained using different methods. In this paper we adopt a fully Bayesian treatment for learning the classifier, which has a number of obvious advantages over other learning methods. Due to the presence of hyper prior in the probabilistic model of logistic regression, approximate inference methods have to be applied for prediction. In order to speed up the inference, a variational inference method based on mean field instead of stochastic approximation such as Markov Chain Monte Carlo is applied. After the prediction, a probabilistic map is obtained. In the third step, a fully connected conditional random field model is formulated and the probabilistic map is used as the data term in the model. A mean field inference is utilized in order to obtain a binary building mask. A benchmark data set consisting of aerial images and digital surfaced model (DSM) released by ISPRS for 2D semantic labeling is used for performance evaluation. The results demonstrate the effectiveness of the proposed method.

  18. Production of resistant starch by enzymatic debranching in legume flours.

    PubMed

    Morales-Medina, Rocío; Del Mar Muñío, María; Guadix, Emilia M; Guadix, Antonio

    2014-01-30

    Resistant starch (RS) was produced by enzymatic hydrolysis of flours from five different legumes: lentil, chickpea, faba bean, kidney bean and red kidney bean. Each legume was firstly treated thermally, then hydrolyzed with pullulanase for 24h at 50°C and pH 5 and lyophilized. At the end of each hydrolysis reaction, the RS amount ranged from 4.7% for red kidney beans to 7.5% for chickpeas. With respect to the curves of RS against hydrolysis time, a linear increase was observed initially and a plateau was generally achieved by the end of reaction. These curves were successfully modeled by a kinetic equation including three parameters: initial RS, RS at long operation time and a kinetic constant (k). Furthermore, the relative increase in hydrolysis, calculated using the kinetic parameters, was successfully correlated to the percentage of amylose.

  19. Unlocking the potential of orphan legumes.

    PubMed

    Cullis, Christopher; Kunert, Karl J

    2016-12-21

    Orphan, or underutilized, legumes are domesticated legumes with useful properties, but with less importance than major world crops due to use and supply constraints. However, they play a significant role in many developing countries, providing food security and nutrition to consumers, as well as income to resource-poor farmers. They have been largely neglected by both researchers and industry due to their limited economic importance in the global market. Orphan legumes are better adapted than the major legume crops to extreme soil and climatic conditions, with high tolerance to abiotic environmental stresses such as drought. As a stress response they can also produce compounds with pharmaceutical value. Orphan legumes are therefore a likely source of important traits for introduction into major crops to aid in combating the stresses associated with global climate change. Modern large-scale genomics techniques are now being applied to many of these previously understudied crops, with the first successes reported in the genomics area. However, greater investment of resources and manpower are necessary if the potential of orphan legumes is to be unlocked and applied in the future.

  20. Toward a General Research Process for Using Dubin's Theory Building Model

    ERIC Educational Resources Information Center

    Holton, Elwood F.; Lowe, Janis S.

    2007-01-01

    Dubin developed a widely used methodology for theory building, which describes the components of the theory building process. Unfortunately, he does not define a research process for implementing his theory building model. This article proposes a seven-step general research process for implementing Dubin's theory building model. An example of a…

  1. Toward a General Research Process for Using Dubin's Theory Building Model

    ERIC Educational Resources Information Center

    Holton, Elwood F.; Lowe, Janis S.

    2007-01-01

    Dubin developed a widely used methodology for theory building, which describes the components of the theory building process. Unfortunately, he does not define a research process for implementing his theory building model. This article proposes a seven-step general research process for implementing Dubin's theory building model. An example of a…

  2. Understanding Building Infrastructure and Building Operation through DOE Asset Score Model: Lessons Learned from a Pilot Project

    SciTech Connect

    Wang, Na; Goel, Supriya; Gorrissen, Willy J.; Makhmalbaf, Atefe

    2013-06-24

    The U.S. Department of Energy (DOE) is developing a national voluntary energy asset score system to help building owners to evaluate the as-built physical characteristics (including building envelope, the mechanical and electrical systems) and overall building energy efficiency, independent of occupancy and operational choices. The energy asset score breaks down building energy use information by simulating building performance under typical operating and occupancy conditions for a given use type. A web-based modeling tool, the energy asset score tool facilitates the implementation of the asset score system. The tool consists of a simplified user interface built on a centralized simulation engine (EnergyPlus). It is intended to reduce both the implementation cost for the users and increase modeling standardization compared with an approach that requires users to build their own energy models. A pilot project with forty-two buildings (consisting mostly offices and schools) was conducted in 2012. This paper reports the findings. Participants were asked to collect a minimum set of building data and enter it into the asset score tool. Participants also provided their utility bills, existing ENERGY STAR scores, and previous energy audit/modeling results if available. The results from the asset score tool were compared with the building energy use data provided by the pilot participants. Three comparisons were performed. First, the actual building energy use, either from the utility bills or via ENERGY STAR Portfolio Manager, was compared with the modeled energy use. It was intended to examine how well the energy asset score represents a building’s system efficiencies, and how well it is correlated to a building’s actual energy consumption. Second, calibrated building energy models (where they exist) were used to examine any discrepancies between the asset score model and the pilot participant buildings’ [known] energy use pattern. This comparison examined the end

  3. Combining a Detailed Building Energy Model with a Physically-Based Urban Canopy Model

    NASA Astrophysics Data System (ADS)

    Bueno, Bruno; Norford, Leslie; Pigeon, Grégoire; Britter, Rex

    2011-09-01

    A scheme that couples a detailed building energy model, EnergyPlus, and an urban canopy model, the Town Energy Balance (TEB), is presented. Both models are well accepted and evaluated within their individual scientific communities. The coupled scheme proposes a more realistic representation of buildings and heating, ventilation and air-conditioning (HVAC) systems, which allows a broader analysis of the two-way interactions between the energy performance of buildings and the urban climate around the buildings. The scheme can be used to evaluate the building energy models that are being developed within the urban climate community. In this study, the coupled scheme is evaluated using measurements conducted over the dense urban centre of Toulouse, France. The comparison includes electricity and natural gas energy consumption of buildings, building façade temperatures, and urban canyon air temperatures. The coupled scheme is then used to analyze the effect of different building and HVAC system configurations on building energy consumption, waste heat released from HVAC systems, and outdoor air temperatures for the case study of Toulouse. Three different energy efficiency strategies are analyzed: shading devices, economizers, and heat recovery.

  4. Lidar-equipped uav for building information modelling

    NASA Astrophysics Data System (ADS)

    Roca, D.; Armesto, J.; Lagüela, S.; Díaz-Vilariño, L.

    2014-06-01

    The trend to minimize electronic devices in the last decades accounts for Unmanned Airborne Vehicles (UAVs) as well as for sensor technologies and imaging devices, resulting in a strong revolution in the surveying and mapping industries. However, only within the last few years the LIDAR sensor technology has achieved sufficiently reduction in terms of size and weight to be considered for UAV platforms. This paper presents an innovative solution to capture point cloud data from a Lidar-equipped UAV and further perform the 3D modelling of the whole envelope of buildings in BIM format. A mini-UAV platform is used (weigh less than 5 kg and up to 1.5 kg of sensor payload), and data from two different acquisition methodologies is processed and compared with the aim at finding the optimal configuration for the generation of 3D models of buildings for energy studies

  5. A model for simulating airflow and pollutant dispersion around buildings

    SciTech Connect

    Chan, S T; Lee, R L

    1999-02-24

    A three-dimensional, numerical mode1 for simulating airflow and pollutant dispersion around buildings is described. The model is based on an innovative finite element approach and fully implicit time integration techniques. Linear and nonlinear eddy viscosity/diffusivity submodels are provided for turbulence parameterization. Mode1 predictions for the flow-field and dispersion patterns around a surface-mounted cube are compared with measured data from laboratory experiments.

  6. FORTRAN M as a language for building earth system models

    SciTech Connect

    Foster, I.

    1992-12-31

    FORTRAN M is a small set of extensions to FORTRAN 77 that supports a modular or object-oriented approach to the development of parallel programs. In this paper, I discuss the use of FORTRAN M as a tool for building earth system models on massively parallel computers. I hypothesize that the use of FORTRAN M has software engineering advantages and outline experiments that we are conducting to investigate this hypothesis.

  7. FORTRAN M as a language for building earth system models

    SciTech Connect

    Foster, I.

    1992-01-01

    FORTRAN M is a small set of extensions to FORTRAN 77 that supports a modular or object-oriented approach to the development of parallel programs. In this paper, I discuss the use of FORTRAN M as a tool for building earth system models on massively parallel computers. I hypothesize that the use of FORTRAN M has software engineering advantages and outline experiments that we are conducting to investigate this hypothesis.

  8. Modeling and identification of multistory buildings with seismic recordings

    NASA Astrophysics Data System (ADS)

    Gargab, Lotfi O.

    This study proposes a continuous-discrete model for one-dimensional wave propagation in a multi-story building with seismic excitation and shows its applications in forward predicting analysis and inverse system identification. In particular, the building is modeled as a series of continuous shear-beams for columns/walls in inter-stories and discrete lumped-masses for floors. Wave response at one location of the building is then derived from an impulsive motion at another location in the time and frequency domains, termed here as wave-based or generalized impulse and frequency response functions (GIRF and GFRF). The GIRF and GFRF are fundamental in relating seismic wave responses at the two locations of a building structure subjected to seismic excitation that is not fully known due to the complicated soil-structure interaction. Additionally, they play a key role in characterizing seismic structural responses, as well as in identifying dynamic parameters and subsequently diagnosing local damage of the structure. For illustration, this study examines the ten-story Millikan Library in Pasadena, California with recordings of the Yorba Linda earthquake of September 3, 2002. With the use of the proposed continuous-discrete model as well as its degenerated ones, seismic wave responses are interpreted from the perspective of wave propagation, and more importantly, validated with the recordings and pertinent discrete-model-based results. Finally, a wave-based approach for system identification with a limited number of seismic recordings is presented, which can be used to evaluate structural integrity and detect damage in post-earthquake structural condition assessment.

  9. Simulation and Big Data Challenges in Tuning Building Energy Models

    SciTech Connect

    Sanyal, Jibonananda; New, Joshua Ryan

    2013-01-01

    EnergyPlus is the flagship building energy simulation software used to model whole building energy consumption for residential and commercial establishments. A typical input to the program often has hundreds, sometimes thousands of parameters which are typically tweaked by a buildings expert to get it right . This process can sometimes take months. Autotune is an ongoing research effort employing machine learning techniques to automate the tuning of the input parameters for an EnergyPlus input description of a building. Even with automation, the computational challenge faced to run the tuning simulation ensemble is daunting and requires the use of supercomputers to make it tractable in time. In this proposal, we describe the scope of the problem, the technical challenges faced and overcome, the machine learning techniques developed and employed, and the software infrastructure developed/in development when taking the EnergyPlus engine, which was primarily designed to run on desktops, and scaling it to run on shared memory supercomputers (Nautilus) and distributed memory supercomputers (Frost and Titan). The parametric simulations produce data in the order of tens to a couple of hundred terabytes.We describe the approaches employed to streamline and reduce bottlenecks in the workflow for this data, which is subsequently being made available for the tuning effort as well as made available publicly for open-science.

  10. Validation of Building Energy Modeling Tools Under Idealized and Realistic Conditions

    SciTech Connect

    Ryan, Emily M.; Sanquist, Thomas F.

    2012-04-02

    Building energy models provide valuable insight into the energy use of commercial and residential buildings based on the building architecture, materials and thermal loads. They are used in the design of new buildings and the retrofitting to increase the efficiency of older buildings. The accuracy of these models is crucial to reducing the energy use of the United States and building a sustainable energy future. In addition to the architecture and thermal loads of a building, building energy models also must account for the effects of the building's occupants on the energy use of the building. Traditionally simple schedule based methods have been used to account for the effects of the occupants. However, newer research has shown that these methods often result in large differences between the modeled and actual energy use of buildings. In this paper we discuss building energy models and their accuracy in predicting building energy use. In particular we focus on the different types of validation methods which have been used to investigate the accuracy of building energy models and how they account for (or do not account for) the effects of occupants. We also review some of the newer work on stochastic methods for estimating the effects of occupants on building energy use and discuss the improvements necessary to increase the accuracy of building energy models.

  11. Nutrient and nonnutrient components of legumes, and its chemopreventive activity: a review.

    PubMed

    Sánchez-Chino, Xariss; Jiménez-Martínez, Cristian; Dávila-Ortiz, Gloria; Álvarez-González, Isela; Madrigal-Bujaidar, Eduardo

    2015-01-01

    Legumes in combination with other products are the staple food for a large part of the world population, especially the low-income fragment, because their seeds provide valuable amounts of carbohydrates, fiber, and proteins, and have an important composition of essential amino acids, the sulphured amino acids being the limiting ones. Furthermore, legumes also have nonnutritional compounds that may decrease the absorption of nutrients or produce toxic effects; however, it has been reported that depending on the dose, these nonnutritional compounds also have different bioactivities as antioxidant, hypolipidemic, hypoglycemic, and anticarcinogenic agents, which have been proven in scientific studies. It has been observed that in countries with a high consumption of legumes, the incidence of colorectal cancer is lower. Some studies have shown that legume seeds are an alternative chemopreventive therapy against various cancers especially colon; this was verified in various animal models of induced by azoxymethane, a colon specific carcinogenic compound, in which a diet was supplemented with different concentrations of beans, lentils, chickpeas, or soybeans, mostly. These studies have proven the anticancer activity of legumes in early stages of carcinogenesis. Therefore, it is important to review the information available to elucidate the chemopreventive mechanisms of action of legume compounds.

  12. Comprehensive Comparative Genomic and Transcriptomic Analyses of the Legume Genes Controlling the Nodulation Process

    PubMed Central

    Qiao, Zhenzhen; Pingault, Lise; Nourbakhsh-Rey, Mehrnoush; Libault, Marc

    2016-01-01

    Nitrogen is one of the most essential plant nutrients and one of the major factors limiting crop productivity. Having the goal to perform a more sustainable agriculture, there is a need to maximize biological nitrogen fixation, a feature of legumes. To enhance our understanding of the molecular mechanisms controlling the interaction between legumes and rhizobia, the symbiotic partner fixing and assimilating the atmospheric nitrogen for the plant, researchers took advantage of genetic and genomic resources developed across different legume models (e.g., Medicago truncatula, Lotus japonicus, Glycine max, and Phaseolus vulgaris) to identify key regulatory protein coding genes of the nodulation process. In this study, we are presenting the results of a comprehensive comparative genomic analysis to highlight orthologous and paralogous relationships between the legume genes controlling nodulation. Mining large transcriptomic datasets, we also identified several orthologous and paralogous genes characterized by the induction of their expression during nodulation across legume plant species. This comprehensive study prompts new insights into the evolution of the nodulation process in legume plant and will benefit the scientific community interested in the transfer of functional genomic information between species. PMID:26858743

  13. Comprehensive Comparative Genomic and Transcriptomic Analyses of the Legume Genes Controlling the Nodulation Process.

    PubMed

    Qiao, Zhenzhen; Pingault, Lise; Nourbakhsh-Rey, Mehrnoush; Libault, Marc

    2016-01-01

    Nitrogen is one of the most essential plant nutrients and one of the major factors limiting crop productivity. Having the goal to perform a more sustainable agriculture, there is a need to maximize biological nitrogen fixation, a feature of legumes. To enhance our understanding of the molecular mechanisms controlling the interaction between legumes and rhizobia, the symbiotic partner fixing and assimilating the atmospheric nitrogen for the plant, researchers took advantage of genetic and genomic resources developed across different legume models (e.g., Medicago truncatula, Lotus japonicus, Glycine max, and Phaseolus vulgaris) to identify key regulatory protein coding genes of the nodulation process. In this study, we are presenting the results of a comprehensive comparative genomic analysis to highlight orthologous and paralogous relationships between the legume genes controlling nodulation. Mining large transcriptomic datasets, we also identified several orthologous and paralogous genes characterized by the induction of their expression during nodulation across legume plant species. This comprehensive study prompts new insights into the evolution of the nodulation process in legume plant and will benefit the scientific community interested in the transfer of functional genomic information between species.

  14. Building and testing models with extended Higgs sectors

    NASA Astrophysics Data System (ADS)

    Ivanov, Igor P.

    2017-07-01

    Models with non-minimal Higgs sectors represent a mainstream direction in theoretical exploration of physics opportunities beyond the Standard Model. Extended scalar sectors help alleviate difficulties of the Standard Model and lead to a rich spectrum of characteristic collider signatures and astroparticle consequences. In this review, we introduce the reader to the world of extended Higgs sectors. Not pretending to exhaustively cover the entire body of literature, we walk through a selection of the most popular examples: the two- and multi-Higgs-doublet models, as well as singlet and triplet extensions. We will show how one typically builds models with extended Higgs sectors, describe the main goals and the challenges which arise on the way, and mention some methods to overcome them. We will also describe how such models can be tested, what are the key observables one focuses on, and illustrate the general strategy with a subjective selection of results.

  15. Model building strategy for logistic regression: purposeful selection.

    PubMed

    Zhang, Zhongheng

    2016-03-01

    Logistic regression is one of the most commonly used models to account for confounders in medical literature. The article introduces how to perform purposeful selection model building strategy with R. I stress on the use of likelihood ratio test to see whether deleting a variable will have significant impact on model fit. A deleted variable should also be checked for whether it is an important adjustment of remaining covariates. Interaction should be checked to disentangle complex relationship between covariates and their synergistic effect on response variable. Model should be checked for the goodness-of-fit (GOF). In other words, how the fitted model reflects the real data. Hosmer-Lemeshow GOF test is the most widely used for logistic regression model.

  16. Leaf morphology in Cowpea [Vigna unguiculata (L.) Walp]: QTL analysis, physical mapping and identifying a candidate gene using synteny with model legume species.

    PubMed

    Pottorff, Marti; Ehlers, Jeffrey D; Fatokun, Christian; Roberts, Philip A; Close, Timothy J

    2012-06-12

    Cowpea [Vigna unguiculata (L.) Walp] exhibits a considerable variation in leaf shape. Although cowpea is mostly utilized as a dry grain and animal fodder crop, cowpea leaves are also used as a high-protein pot herb in many countries of Africa. Leaf morphology was studied in the cowpea RIL population, Sanzi (sub-globose leaf shape) x Vita 7 (hastate leaf shape). A QTL for leaf shape, Hls (hastate leaf shape), was identified on the Sanzi x Vita 7 genetic map spanning from 56.54 cM to 67.54 cM distance on linkage group 15. SNP marker 1_0910 was the most significant over the two experiments, accounting for 74.7% phenotypic variance (LOD 33.82) in a greenhouse experiment and 71.5% phenotypic variance (LOD 30.89) in a field experiment. The corresponding Hls locus was positioned on the cowpea consensus genetic map on linkage group 4, spanning from 25.57 to 35.96 cM. A marker-trait association of the Hls region identified SNP marker 1_0349 alleles co-segregating with either the hastate or sub-globose leaf phenotype. High co-linearity was observed for the syntenic Hls region in Medicago truncatula and Glycine max. One syntenic locus for Hls was identified on Medicago chromosome 7 while syntenic regions for Hls were identified on two soybean chromosomes, 3 and 19. In all three syntenic loci, an ortholog for the EZA1/SWINGER (AT4G02020.1) gene was observed and is the candidate gene for the Hls locus. The Hls locus was identified on the cowpea physical map via SNP markers 1_0910, 1_1013 and 1_0992 which were identified in three BAC contigs; contig926, contig821 and contig25. This study has demonstrated how integrated genomic resources can be utilized for a candidate gene approach. Identification of genes which control leaf morphology may be utilized to improve the quality of cowpea leaves for vegetable and or forage markets as well as contribute to more fundamental research understanding the control of leaf shape in legumes.

  17. Leaf morphology in Cowpea [Vigna unguiculata (L.) Walp]: QTL analysis, physical mapping and identifying a candidate gene using synteny with model legume species

    PubMed Central

    2012-01-01

    Background Cowpea [Vigna unguiculata (L.) Walp] exhibits a considerable variation in leaf shape. Although cowpea is mostly utilized as a dry grain and animal fodder crop, cowpea leaves are also used as a high-protein pot herb in many countries of Africa. Results Leaf morphology was studied in the cowpea RIL population, Sanzi (sub-globose leaf shape) x Vita 7 (hastate leaf shape). A QTL for leaf shape, Hls (hastate leaf shape), was identified on the Sanzi x Vita 7 genetic map spanning from 56.54 cM to 67.54 cM distance on linkage group 15. SNP marker 1_0910 was the most significant over the two experiments, accounting for 74.7% phenotypic variance (LOD 33.82) in a greenhouse experiment and 71.5% phenotypic variance (LOD 30.89) in a field experiment. The corresponding Hls locus was positioned on the cowpea consensus genetic map on linkage group 4, spanning from 25.57 to 35.96 cM. A marker-trait association of the Hls region identified SNP marker 1_0349 alleles co-segregating with either the hastate or sub-globose leaf phenotype. High co-linearity was observed for the syntenic Hls region in Medicago truncatula and Glycine max. One syntenic locus for Hls was identified on Medicago chromosome 7 while syntenic regions for Hls were identified on two soybean chromosomes, 3 and 19. In all three syntenic loci, an ortholog for the EZA1/SWINGER (AT4G02020.1) gene was observed and is the candidate gene for the Hls locus. The Hls locus was identified on the cowpea physical map via SNP markers 1_0910, 1_1013 and 1_0992 which were identified in three BAC contigs; contig926, contig821 and contig25. Conclusions This study has demonstrated how integrated genomic resources can be utilized for a candidate gene approach. Identification of genes which control leaf morphology may be utilized to improve the quality of cowpea leaves for vegetable and or forage markets as well as contribute to more fundamental research understanding the control of leaf shape in legumes. PMID:22691139

  18. Toward Accessing Spatial Structure from Building Information Models

    NASA Astrophysics Data System (ADS)

    Schultz, C.; Bhatt, M.

    2011-08-01

    Data about building designs and layouts is becoming increasingly more readily available. In the near future, service personal (such as maintenance staff or emergency rescue workers) arriving at a building site will have immediate real-time access to enormous amounts of data relating to structural properties, utilities, materials, temperature, and so on. The critical problem for users is the taxing and error prone task of interpreting such a large body of facts in order to extract salient information. This is necessary for comprehending a situation and deciding on a plan of action, and is a particularly serious issue in time-critical and safety-critical activities such as firefighting. Current unifying building models such as the Industry Foundation Classes (IFC), while being comprehensive, do not directly provide data structures that focus on spatial reasoning and spatial modalities that are required for high-level analytical tasks. The aim of the research presented in this paper is to provide computational tools for higher level querying and reasoning that shift the cognitive burden of dealing with enormous amounts of data away from the user. The user can then spend more energy and time in planning and decision making in order to accomplish the tasks at hand. We present an overview of our framework that provides users with an enhanced model of "built-up space". In order to test our approach using realistic design data (in terms of both scale and the nature of the building models) we describe how our system interfaces with IFC, and we conduct timing experiments to determine the practicality of our approach. We discuss general computational approaches for deriving higher-level spatial modalities by focusing on the example of route graphs. Finally, we present a firefighting scenario with alternative route graphs to motivate the application of our framework.

  19. An Evolving Model for Capacity Building with Earth Observation Imagery

    NASA Astrophysics Data System (ADS)

    Sylak-Glassman, E. J.

    2015-12-01

    For the first forty years of Earth observation satellite imagery, all imagery was collected by civilian or military governmental satellites. Over this timeframe, countries without observation satellite capabilities had very limited access to Earth observation data or imagery. In response to the limited access to Earth observation systems, capacity building efforts were focused on satellite manufacturing. Wood and Weigel (2012) describe the evolution of satellite programs in developing countries with a technology ladder. A country moves up the ladder as they move from producing satellites with training services to building satellites locally. While the ladder model may be appropriate if the goal is to develop autonomous satellite manufacturing capability, in the realm of Earth observation, the goal is generally to derive societal benefit from the use of Earth observation-derived information. In this case, the model for developing Earth observation capacity is more appropriately described by a hub-and-spoke model in which the use of Earth observation imagery is the "hub," and the "spokes" describe the various paths to achieving that imagery: the building of a satellite (either independently or with assistance), the purchase of a satellite, participation in a constellation of satellites, and the use of freely available or purchased satellite imagery. We discuss the different capacity-building activities that are conducted in each of these pathways, such as the "Know-How Transfer and Training" program developed by Surrey Satellite Technology Ltd. , Earth observation imagery training courses run by SERVIR in developing countries, and the use of national or regional remote sensing centers (such as those in Morocco, Malaysia, and Kenya) to disseminate imagery and training. In addition, we explore the factors that determine through which "spoke" a country arrives at the ability to use Earth observation imagery, and discuss best practices for achieving the capability to use

  20. Dynamic Metabolic Model Building Based on the Ensemble Modeling Approach

    SciTech Connect

    Liao, James C.

    2016-10-01

    Ensemble modeling of kinetic systems addresses the challenges of kinetic model construction, with respect to parameter value selection, and still allows for the rich insights possible from kinetic models. This project aimed to show that constructing, implementing, and analyzing such models is a useful tool for the metabolic engineering toolkit, and that they can result in actionable insights from models. Key concepts are developed and deliverable publications and results are presented.

  1. An Approach for Incorporating Context in Building Probabilistic Predictive Models

    PubMed Central

    Wu, Juan Anna; Hsu, William; Bui, Alex AT

    2016-01-01

    With the increasing amount of information collected through clinical practice and scientific experimentation, a growing challenge is how to utilize available resources to construct predictive models to facilitate clinical decision making. Clinicians often have questions related to the treatment and outcome of a medical problem for individual patients; however, few tools exist that leverage the large collection of patient data and scientific knowledge to answer these questions. Without appropriate context, existing data that have been collected for a specific task may not be suitable for creating new models that answer different questions. This paper presents an approach that leverages available structured or unstructured data to build a probabilistic predictive model that assists physicians with answering clinical questions on individual patients. Various challenges related to transforming available data to an end-user application are addressed: problem decomposition, variable selection, context representation, automated extraction of information from unstructured data sources, model generation, and development of an intuitive application to query the model and present the results. We describe our efforts towards building a model that predicts the risk of vasospasm in aneurysm patients. PMID:27617299

  2. An Approach for Incorporating Context in Building Probabilistic Predictive Models.

    PubMed

    Wu, Juan Anna; Hsu, William; Bui, Alex At

    2012-09-01

    With the increasing amount of information collected through clinical practice and scientific experimentation, a growing challenge is how to utilize available resources to construct predictive models to facilitate clinical decision making. Clinicians often have questions related to the treatment and outcome of a medical problem for individual patients; however, few tools exist that leverage the large collection of patient data and scientific knowledge to answer these questions. Without appropriate context, existing data that have been collected for a specific task may not be suitable for creating new models that answer different questions. This paper presents an approach that leverages available structured or unstructured data to build a probabilistic predictive model that assists physicians with answering clinical questions on individual patients. Various challenges related to transforming available data to an end-user application are addressed: problem decomposition, variable selection, context representation, automated extraction of information from unstructured data sources, model generation, and development of an intuitive application to query the model and present the results. We describe our efforts towards building a model that predicts the risk of vasospasm in aneurysm patients.

  3. A novel type of thioredoxin dedicated to symbiosis in legumes.

    PubMed

    Alkhalfioui, Fatima; Renard, Michelle; Frendo, Pierre; Keichinger, Corinne; Meyer, Yves; Gelhaye, Eric; Hirasawa, Masakazu; Knaff, David B; Ritzenthaler, Christophe; Montrichard, Françoise

    2008-09-01

    Thioredoxins (Trxs) constitute a family of small proteins in plants. This family has been extensively characterized in Arabidopsis (Arabidopsis thaliana), which contains six different Trx types: f, m, x, and y in chloroplasts, o in mitochondria, and h mainly in cytosol. A detailed study of this family in the model legume Medicago truncatula, realized here, has established the existence of two isoforms that do not belong to any of the types previously described. As no possible orthologs were further found in either rice (Oryza sativa) or poplar (Populus spp.), these novel isoforms may be specific for legumes. Nevertheless, on the basis of protein sequence and gene structure, they are both related to Trxs m and probably have evolved from Trxs m after the divergence of the higher plant families. They have redox potential values similar to those of the classical Trxs, and one of them can act as a substrate for the M. truncatula NADP-Trx reductase A. However, they differ from classical Trxs in that they possess an atypical putative catalytic site and lack disulfide reductase activity with insulin. Another important feature is the presence in both proteins of an N-terminal extension containing a putative signal peptide that targets them to the endoplasmic reticulum, as demonstrated by their transient expression in fusion with the green fluorescent protein in M. truncatula or Nicotiana benthamiana leaves. According to their pattern of expression, these novel isoforms function specifically in symbiotic interactions in legumes. They were therefore given the name of Trxs s, s for symbiosis.

  4. Contam airflow models of three large buildings: Model descriptions and validation

    SciTech Connect

    Black, Douglas R.; Price, Phillip N.

    2009-09-30

    Airflow and pollutant transport models are useful for several reasons, including protection from or response to biological terrorism. In recent years they have been used for deciding how many biological agent samplers are needed in a given building to detect the release of an agent; to figure out where those samplers should be located; to predict the number of people at risk in the event of a release of a given size and location; to devise response strategies in the event of a release; to determine optimal trade-offs between sampler characteristics (such as detection limit and response time); and so on. For some of these purposes it is necessary to model a specific building of interest: if you are trying to determine optimal sampling locations, you must have a model of your building and not some different building. But for many purposes generic or 'prototypical' building models would suffice. For example, for determining trade-offs between sampler characteristics, results from one building will carry over other, similar buildings. Prototypical building models are also useful for comparing or testing different algorithms or computational pproaches: different researchers can use the same models, thus allowing direct comparison of results in a way that is not otherwise possible. This document discusses prototypical building models developed by the Airflow and Pollutant Transport Group at Lawrence Berkeley National Laboratory. The models are implemented in the Contam v2.4c modeling program, available from the National Institutes for Standards and Technology. We present Contam airflow models of three virtual buildings: a convention center, an airport terminal, and a multi-story office building. All of the models are based to some extent on specific real buildings. Our goal is to produce models that are realistic, in terms of approximate magnitudes, directions, and speeds of airflow and pollutant transport. The three models vary substantially in detail. The airport model

  5. BUILD: a program generator for modelling experimental biological data.

    PubMed

    Rodriguez, F; Altibelli, A; Lopez, A

    1994-04-01

    BUILD is a program generator acting at source code level. The generated code corresponds to a whole application in order to model a biological process of interest using an iterative adjustment of experimental data. The program is designed to be executed in command line mode for processing of multiple data files with an individual execution control for each file. The results are completed by modular statistical and graphical functions. This approach has been shown to reduce the time and the amount of work needed for program development, debugging and maintenance. To date, BUILD has been successfully used in mathematical analysis of phenomenological approaches, but other fields of activity, such as educational software, are also conceivable.

  6. 3D Building Evacuation Route Modelling and Visualization

    NASA Astrophysics Data System (ADS)

    Chan, W.; Armenakis, C.

    2014-11-01

    The most common building evacuation approach currently applied is to have evacuation routes planned prior to these emergency events. These routes are usually the shortest and most practical path from each building room to the closest exit. The problem with this approach is that it is not adaptive. It is not responsively configurable relative to the type, intensity, or location of the emergency risk. Moreover, it does not provide any information to the affected persons or to the emergency responders while not allowing for the review of simulated hazard scenarios and alternative evacuation routes. In this paper we address two main tasks. The first is the modelling of the spatial risk caused by a hazardous event leading to choosing the optimal evacuation route for a set of options. The second is to generate a 3D visual representation of the model output. A multicriteria decision making (MCDM) approach is used to model the risk aiming at finding the optimal evacuation route. This is achieved by using the analytical hierarchy process (AHP) on the criteria describing the different alternative evacuation routes. The best route is then chosen to be the alternative with the least cost. The 3D visual representation of the model displays the building, the surrounding environment, the evacuee's location, the hazard location, the risk areas and the optimal evacuation pathway to the target safety location. The work has been performed using ESRI's ArcGIS. Using the developed models, the user can input the location of the hazard and the location of the evacuee. The system then determines the optimum evacuation route and displays it in 3D.

  7. Scalable tuning of building models to hourly data

    DOE PAGES

    Garrett, Aaron; New, Joshua Ryan

    2015-03-31

    Energy models of existing buildings are unreliable unless calibrated so they correlate well with actual energy usage. Manual tuning requires a skilled professional, is prohibitively expensive for small projects, imperfect, non-repeatable, non-transferable, and not scalable to the dozens of sensor channels that smart meters, smart appliances, and cheap/ubiquitous sensors are beginning to make available today. A scalable, automated methodology is needed to quickly and intelligently calibrate building energy models to all available data, increase the usefulness of those models, and facilitate speed-and-scale penetration of simulation-based capabilities into the marketplace for actualized energy savings. The "Autotune'' project is a novel, model-agnosticmore » methodology which leverages supercomputing, large simulation ensembles, and big data mining with multiple machine learning algorithms to allow automatic calibration of simulations that match measured experimental data in a way that is deployable on commodity hardware. This paper shares several methodologies employed to reduce the combinatorial complexity to a computationally tractable search problem for hundreds of input parameters. Furthermore, accuracy metrics are provided which quantify model error to measured data for either monthly or hourly electrical usage from a highly-instrumented, emulated-occupancy research home.« less

  8. Scalable tuning of building models to hourly data

    SciTech Connect

    Garrett, Aaron; New, Joshua Ryan

    2015-03-31

    Energy models of existing buildings are unreliable unless calibrated so they correlate well with actual energy usage. Manual tuning requires a skilled professional, is prohibitively expensive for small projects, imperfect, non-repeatable, non-transferable, and not scalable to the dozens of sensor channels that smart meters, smart appliances, and cheap/ubiquitous sensors are beginning to make available today. A scalable, automated methodology is needed to quickly and intelligently calibrate building energy models to all available data, increase the usefulness of those models, and facilitate speed-and-scale penetration of simulation-based capabilities into the marketplace for actualized energy savings. The "Autotune'' project is a novel, model-agnostic methodology which leverages supercomputing, large simulation ensembles, and big data mining with multiple machine learning algorithms to allow automatic calibration of simulations that match measured experimental data in a way that is deployable on commodity hardware. This paper shares several methodologies employed to reduce the combinatorial complexity to a computationally tractable search problem for hundreds of input parameters. Furthermore, accuracy metrics are provided which quantify model error to measured data for either monthly or hourly electrical usage from a highly-instrumented, emulated-occupancy research home.

  9. Automatic shape model building based on principal geodesic analysis bootstrapping.

    PubMed

    Dam, Erik B; Fletcher, P Thomas; Pizer, Stephen M

    2008-04-01

    We present a novel method for automatic shape model building from a collection of training shapes. The result is a shape model consisting of the mean model and the major modes of variation with a dense correspondence map between individual shapes. The framework consists of iterations where a medial shape representation is deformed into the training shapes followed by computation of the shape mean and modes of shape variation. In the first iteration, a generic shape model is used as starting point - in the following iterations in the bootstrap method, the resulting mean and modes from the previous iteration are used. Thereby, we gradually capture the shape variation in the training collection better and better. Convergence of the method is explicitly enforced. The method is evaluated on collections of artificial training shapes where the expected shape mean and modes of variation are known by design. Furthermore, collections of real prostates and cartilage sheets are used in the evaluation. The evaluation shows that the method is able to capture the training shapes close to the attainable accuracy already in the first iteration. Furthermore, the correspondence properties measured by generality, specificity, and compactness are improved during the shape model building iterations.

  10. Procedural Modeling for Rapid-Prototyping of Multiple Building Phases

    NASA Astrophysics Data System (ADS)

    Saldana, M.; Johanson, C.

    2013-02-01

    RomeLab is a multidisciplinary working group at UCLA that uses the city of Rome as a laboratory for the exploration of research approaches and dissemination practices centered on the intersection of space and time in antiquity. In this paper we present a multiplatform workflow for the rapid-prototyping of historical cityscapes through the use of geographic information systems, procedural modeling, and interactive game development. Our workflow begins by aggregating archaeological data in a GIS database. Next, 3D building models are generated from the ArcMap shapefiles in Esri CityEngine using procedural modeling techniques. A GIS-based terrain model is also adjusted in CityEngine to fit the building elevations. Finally, the terrain and city models are combined in Unity, a game engine which we used to produce web-based interactive environments which are linked to the GIS data using keyhole markup language (KML). The goal of our workflow is to demonstrate that knowledge generated within a first-person virtual world experience can inform the evaluation of data derived from textual and archaeological sources, and vice versa.

  11. Functional Testing Protocols for Commercial Building Efficiency Baseline Modeling Software

    SciTech Connect

    Jump, David; Price, Phillip N.; Granderson, Jessica; Sohn, Michael

    2013-09-06

    This document describes procedures for testing and validating proprietary baseline energy modeling software accuracy in predicting energy use over the period of interest, such as a month or a year. The procedures are designed according to the methodology used for public domain baselining software in another LBNL report that was (like the present report) prepared for Pacific Gas and Electric Company: ?Commercial Building Energy Baseline Modeling Software: Performance Metrics and Method Testing with Open Source Models and Implications for Proprietary Software Testing Protocols? (referred to here as the ?Model Analysis Report?). The test procedure focuses on the quality of the software?s predictions rather than on the specific algorithms used to predict energy use. In this way the software vendor is not required to divulge or share proprietary information about how their software works, while enabling stakeholders to assess its performance.

  12. Digital Learning Material for Student-Directed Model Building in Molecular Biology

    ERIC Educational Resources Information Center

    Aegerter-Wilmsen, Tinri; Coppens, Marjolijn; Janssen, Fred; Hartog, Rob; Bisseling, Ton

    2005-01-01

    The building of models to explain data and make predictions constitutes an important goal in molecular biology research. To give students the opportunity to practice such model building, two digital cases had previously been developed in which students are guided to build a model step by step. In this article, the development and initial…

  13. Introducing Molecular Life Science Students to Model Building Using Computer Simulations

    ERIC Educational Resources Information Center

    Aegerter-Wilmsen, Tinri; Kettenis, Dik; Sessink, Olivier; Hartog, Rob; Bisseling, Ton; Janssen, Fred

    2006-01-01

    Computer simulations can facilitate the building of models of natural phenomena in research, such as in the molecular life sciences. In order to introduce molecular life science students to the use of computer simulations for model building, a digital case was developed in which students build a model of a pattern formation process in…

  14. Introducing Molecular Life Science Students to Model Building Using Computer Simulations

    ERIC Educational Resources Information Center

    Aegerter-Wilmsen, Tinri; Kettenis, Dik; Sessink, Olivier; Hartog, Rob; Bisseling, Ton; Janssen, Fred

    2006-01-01

    Computer simulations can facilitate the building of models of natural phenomena in research, such as in the molecular life sciences. In order to introduce molecular life science students to the use of computer simulations for model building, a digital case was developed in which students build a model of a pattern formation process in…

  15. Digital Learning Material for Student-Directed Model Building in Molecular Biology

    ERIC Educational Resources Information Center

    Aegerter-Wilmsen, Tinri; Coppens, Marjolijn; Janssen, Fred; Hartog, Rob; Bisseling, Ton

    2005-01-01

    The building of models to explain data and make predictions constitutes an important goal in molecular biology research. To give students the opportunity to practice such model building, two digital cases had previously been developed in which students are guided to build a model step by step. In this article, the development and initial…

  16. Occupants' satisfaction toward building environmental quality: structural equation modeling approach.

    PubMed

    Kamaruzzaman, Syahrul Nizam; Egbu, C O; Zawawi, Emma Marinie Ahmad; Karim, Saipol Bari Abd; Woon, Chen Jia

    2015-05-01

    It is accepted that occupants who are more satisfied with their workplace's building internal environment are more productive. The main objective of the study was to measure the occupants' level of satisfaction and the perceived importance of the design or refurbishment on office conditions. The study also attempted to determine the factors affecting the occupants' satisfaction with their building or office conditions. Post-occupancy evaluations were conducted using a structured questionnaire developed by the Built Environment Research Group at the University of Manchester, UK. Our questionnaires incorporate 22 factors relating to the internal environment and rate these in terms of "user satisfaction" and "degree of importance." The questions were modified to reflect the specific setting of the study and take into consideration the local conditions and climate in Malaysia. The overall mean satisfaction of the occupants toward their office environment was 5.35. The results were measured by a single item of overall liking of office conditions in general. Occupants were more satisfied with their state of health in the workplace, but they were extremely dissatisfied with the distance away from a window. The factor analysis divided the variables into three groups, namely intrusion, air quality, and office appearance. Structural equation modeling (SEM) was then used to determine which factor had the most significant influence on occupants' satisfaction: appearance. The findings from the study suggest that continuous improvement in aspects of the building's appearance needs to be supported with effective and comprehensive maintenance to sustain the occupants' satisfaction.

  17. Structural equation modeling: building and evaluating causal models: Chapter 8

    USGS Publications Warehouse

    Grace, James B.; Scheiner, Samuel M.; Schoolmaster, Donald R.

    2015-01-01

    Scientists frequently wish to study hypotheses about causal relationships, rather than just statistical associations. This chapter addresses the question of how scientists might approach this ambitious task. Here we describe structural equation modeling (SEM), a general modeling framework for the study of causal hypotheses. Our goals are to (a) concisely describe the methodology, (b) illustrate its utility for investigating ecological systems, and (c) provide guidance for its application. Throughout our presentation, we rely on a study of the effects of human activities on wetland ecosystems to make our description of methodology more tangible. We begin by presenting the fundamental principles of SEM, including both its distinguishing characteristics and the requirements for modeling hypotheses about causal networks. We then illustrate SEM procedures and offer guidelines for conducting SEM analyses. Our focus in this presentation is on basic modeling objectives and core techniques. Pointers to additional modeling options are also given.

  18. Planetary Boundary-Layer Modelling and Tall Building Design

    NASA Astrophysics Data System (ADS)

    Simiu, Emil; Shi, Liang; Yeo, DongHun

    2016-04-01

    Characteristics of flow in the planetary boundary layer (PBL) strongly affect the design of tall structures. PBL modelling in building codes, based as it is on empirical data from the 1960s and 1970s, differs significantly from contemporary PBL models, which account for both "neutral" flows, and "conventionally neutral" flows. PBL heights estimated in these relatively sophisticated models are typically approximately half as large as those obtained using the classical asymptotic similarity approach, and are one order of magnitude larger than those specified in North American and Japanese building codes. A simple method is proposed for estimating the friction velocity and PBL height as functions of specified surface roughness and geostrophic wind speed. Based on published results, it is tentatively determined that, even at elevations as high as 800 m above the surface, the contribution to the resultant mean flow velocity of the component V normal to the surface stress is negligible and the veering angle is of the order of only 5°. This note aims to encourage dialogue between boundary-layer meteorologists and structural engineers.

  19. An instanton toolbox for F-theory model building

    NASA Astrophysics Data System (ADS)

    Marsano, Joseph; Saulina, Natalia; Schäfer-Nameki, Sakura

    2010-01-01

    Several dimensionful parameters needed for model building can be engineered in a certain class of SU(5) F-theory GUTs by adding extra singlet fields which are localized along pairwise intersections of D7-branes. The values of these parameters, however, depend on dynamics external to the GUT which causes the singlets to acquire suitable masses or expectation values. In this note, we demonstrate that D3-instantons which wrap one of the intersecting D7’s can provide precisely the needed dynamics to generate several important scales, including the supersymmetry-breaking scale and the right-handed neutrino mass. Furthermore, these instantons seem unable to directly generate the μ term suggesting that, at least in this class of models, it should perhaps be tied to one of the other scales in the problem. More specifically, we study the simple system consisting of a pair of D7-branes wrapping del Pezzo surfaces which intersect along a curve Σ of genus 0 or 1 and classify all instanton configurations which can potentially contribute to the superpotential. This allows one to formulate topological conditions which must be imposed on Σ for various model-building applications.

  20. Symbiosis specificity in the legume: rhizobial mutualism.

    PubMed

    Wang, Dong; Yang, Shengming; Tang, Fang; Zhu, Hongyan

    2012-03-01

    Legume plants are able to engage in root nodule symbiosis with nitrogen-fixing soil bacteria, collectively called rhizobia. This mutualistic association is highly specific, such that each rhizobial species/strain interacts with only a specific group of legumes, and vice versa. Symbiosis specificity can occur at multiple phases of the interaction, ranging from initial bacterial attachment and infection to late nodule development associated with nitrogen fixation. Genetic control of symbiosis specificity is complex, involving fine-tuned signal communication between the symbiotic partners. Here we review our current understanding of the mechanisms used by the host and bacteria to choose their symbiotic partners, with a special focus on the role that the host immunity plays in controlling the specificity of the legume - rhizobial symbiosis.

  1. Inflation model building with an accurate measure of e -folding

    NASA Astrophysics Data System (ADS)

    Chongchitnan, Sirichai

    2016-08-01

    It has become standard practice to take the logarithmic growth of the scale factor as a measure of the amount of inflation, despite the well-known fact that this is only an approximation for the true amount of inflation required to solve the horizon and flatness problems. The aim of this work is to show how this approximation can be completely avoided using an alternative framework for inflation model building. We show that using the inverse Hubble radius, H =a H , as the key dynamical parameter, the correct number of e -folding arises naturally as a measure of inflation. As an application, we present an interesting model in which the entire inflationary dynamics can be solved analytically and exactly, and, in special cases, reduces to the familiar class of power-law models.

  2. Neglecting legumes has compromised human health and sustainable food production.

    PubMed

    Foyer, Christine H; Lam, Hon-Ming; Nguyen, Henry T; Siddique, Kadambot H M; Varshney, Rajeev K; Colmer, Timothy D; Cowling, Wallace; Bramley, Helen; Mori, Trevor A; Hodgson, Jonathan M; Cooper, James W; Miller, Anthony J; Kunert, Karl; Vorster, Juan; Cullis, Christopher; Ozga, Jocelyn A; Wahlqvist, Mark L; Liang, Yan; Shou, Huixia; Shi, Kai; Yu, Jingquan; Fodor, Nandor; Kaiser, Brent N; Wong, Fuk-Ling; Valliyodan, Babu; Considine, Michael J

    2016-08-02

    The United Nations declared 2016 as the International Year of Pulses (grain legumes) under the banner 'nutritious seeds for a sustainable future'. A second green revolution is required to ensure food and nutritional security in the face of global climate change. Grain legumes provide an unparalleled solution to this problem because of their inherent capacity for symbiotic atmospheric nitrogen fixation, which provides economically sustainable advantages for farming. In addition, a legume-rich diet has health benefits for humans and livestock alike. However, grain legumes form only a minor part of most current human diets, and legume crops are greatly under-used. Food security and soil fertility could be significantly improved by greater grain legume usage and increased improvement of a range of grain legumes. The current lack of coordinated focus on grain legumes has compromised human health, nutritional security and sustainable food production.

  3. From neurons to nests: nest-building behaviour as a model in behavioural and comparative neuroscience.

    PubMed

    Hall, Zachary J; Meddle, Simone L; Healy, Susan D

    Despite centuries of observing the nest building of most extant bird species, we know surprisingly little about how birds build nests and, specifically, how the avian brain controls nest building. Here, we argue that nest building in birds may be a useful model behaviour in which to study how the brain controls behaviour. Specifically, we argue that nest building as a behavioural model provides a unique opportunity to study not only the mechanisms through which the brain controls behaviour within individuals of a single species but also how evolution may have shaped the brain to produce interspecific variation in nest-building behaviour. In this review, we outline the questions in both behavioural and comparative neuroscience that nest building could be used to address, summarize recent findings regarding the neurobiology of nest building in lab-reared zebra finches and across species building different nest structures, and suggest some future directions for the neurobiology of nest building.

  4. Toward Building a New Seismic Hazard Model for Mainland China

    NASA Astrophysics Data System (ADS)

    Rong, Y.; Xu, X.; Chen, G.; Cheng, J.; Magistrale, H.; Shen, Z.

    2015-12-01

    At present, the only publicly available seismic hazard model for mainland China was generated by Global Seismic Hazard Assessment Program in 1999. We are building a new seismic hazard model by integrating historical earthquake catalogs, geological faults, geodetic GPS data, and geology maps. To build the model, we construct an Mw-based homogeneous historical earthquake catalog spanning from 780 B.C. to present, create fault models from active fault data using the methodology recommended by Global Earthquake Model (GEM), and derive a strain rate map based on the most complete GPS measurements and a new strain derivation algorithm. We divide China and the surrounding regions into about 20 large seismic source zones based on seismotectonics. For each zone, we use the tapered Gutenberg-Richter (TGR) relationship to model the seismicity rates. We estimate the TGR a- and b-values from the historical earthquake data, and constrain corner magnitude using the seismic moment rate derived from the strain rate. From the TGR distributions, 10,000 to 100,000 years of synthetic earthquakes are simulated. Then, we distribute small and medium earthquakes according to locations and magnitudes of historical earthquakes. Some large earthquakes are distributed on active faults based on characteristics of the faults, including slip rate, fault length and width, and paleoseismic data, and the rest to the background based on the distributions of historical earthquakes and strain rate. We evaluate available ground motion prediction equations (GMPE) by comparison to observed ground motions. To apply appropriate GMPEs, we divide the region into active and stable tectonics. The seismic hazard will be calculated using the OpenQuake software developed by GEM. To account for site amplifications, we construct a site condition map based on geology maps. The resulting new seismic hazard map can be used for seismic risk analysis and management, and business and land-use planning.

  5. Vision-based building energy diagnostics and retrofit analysis using 3D thermography and building information modeling

    NASA Astrophysics Data System (ADS)

    Ham, Youngjib

    The emerging energy crisis in the building sector and the legislative measures on improving energy efficiency are steering the construction industry towards adopting new energy efficient design concepts and construction methods that decrease the overall energy loads. However, the problems of energy efficiency are not only limited to the design and construction of new buildings. Today, a significant amount of input energy in existing buildings is still being wasted during the operational phase. One primary source of the energy waste is attributed to unnecessary heat flows through building envelopes during hot and cold seasons. This inefficiency increases the operational frequency of heating and cooling systems to keep the desired thermal comfort of building occupants, and ultimately results in excessive energy use. Improving thermal performance of building envelopes can reduce the energy consumption required for space conditioning and in turn provide building occupants with an optimal thermal comfort at a lower energy cost. In this sense, energy diagnostics and retrofit analysis for existing building envelopes are key enablers for improving energy efficiency. Since proper retrofit decisions of existing buildings directly translate into energy cost saving in the future, building practitioners are increasingly interested in methods for reliable identification of potential performance problems so that they can take timely corrective actions. However, sensing what and where energy problems are emerging or are likely to emerge and then analyzing how the problems influence the energy consumption are not trivial tasks. The overarching goal of this dissertation focuses on understanding the gaps in knowledge in methods for building energy diagnostics and retrofit analysis, and filling these gaps by devising a new method for multi-modal visual sensing and analytics using thermography and Building Information Modeling (BIM). First, to address the challenges in scaling and

  6. Specificity in Legume-Rhizobia Symbioses.

    PubMed

    Andrews, Mitchell; Andrews, Morag E

    2017-03-26

    Most species in the Leguminosae (legume family) can fix atmospheric nitrogen (N₂) via symbiotic bacteria (rhizobia) in root nodules. Here, the literature on legume-rhizobia symbioses in field soils was reviewed and genotypically characterised rhizobia related to the taxonomy of the legumes from which they were isolated. The Leguminosae was divided into three sub-families, the Caesalpinioideae, Mimosoideae and Papilionoideae. Bradyrhizobium spp. were the exclusive rhizobial symbionts of species in the Caesalpinioideae, but data are limited. Generally, a range of rhizobia genera nodulated legume species across the two Mimosoideae tribes Ingeae and Mimoseae, but Mimosa spp. show specificity towards Burkholderia in central and southern Brazil, Rhizobium/Ensifer in central Mexico and Cupriavidus in southern Uruguay. These specific symbioses are likely to be at least in part related to the relative occurrence of the potential symbionts in soils of the different regions. Generally, Papilionoideae species were promiscuous in relation to rhizobial symbionts, but specificity for rhizobial genus appears to hold at the tribe level for the Fabeae (Rhizobium), the genus level for Cytisus (Bradyrhizobium), Lupinus (Bradyrhizobium) and the New Zealand native Sophora spp. (Mesorhizobium) and species level for Cicer arietinum (Mesorhizobium), Listia bainesii (Methylobacterium) and Listia angolensis (Microvirga). Specificity for rhizobial species/symbiovar appears to hold for Galega officinalis (Neorhizobium galegeae sv. officinalis), Galega orientalis (Neorhizobium galegeae sv. orientalis), Hedysarum coronarium (Rhizobium sullae), Medicago laciniata (Ensifer meliloti sv. medicaginis), Medicago rigiduloides (Ensifer meliloti sv. rigiduloides) and Trifolium ambiguum (Rhizobium leguminosarum sv. trifolii). Lateral gene transfer of specific symbiosis genes within rhizobial genera is an important mechanism allowing legumes to form symbioses with rhizobia adapted to particular soils

  7. Specificity in Legume-Rhizobia Symbioses

    PubMed Central

    Andrews, Mitchell; Andrews, Morag E.

    2017-01-01

    Most species in the Leguminosae (legume family) can fix atmospheric nitrogen (N2) via symbiotic bacteria (rhizobia) in root nodules. Here, the literature on legume-rhizobia symbioses in field soils was reviewed and genotypically characterised rhizobia related to the taxonomy of the legumes from which they were isolated. The Leguminosae was divided into three sub-families, the Caesalpinioideae, Mimosoideae and Papilionoideae. Bradyrhizobium spp. were the exclusive rhizobial symbionts of species in the Caesalpinioideae, but data are limited. Generally, a range of rhizobia genera nodulated legume species across the two Mimosoideae tribes Ingeae and Mimoseae, but Mimosa spp. show specificity towards Burkholderia in central and southern Brazil, Rhizobium/Ensifer in central Mexico and Cupriavidus in southern Uruguay. These specific symbioses are likely to be at least in part related to the relative occurrence of the potential symbionts in soils of the different regions. Generally, Papilionoideae species were promiscuous in relation to rhizobial symbionts, but specificity for rhizobial genus appears to hold at the tribe level for the Fabeae (Rhizobium), the genus level for Cytisus (Bradyrhizobium), Lupinus (Bradyrhizobium) and the New Zealand native Sophora spp. (Mesorhizobium) and species level for Cicer arietinum (Mesorhizobium), Listia bainesii (Methylobacterium) and Listia angolensis (Microvirga). Specificity for rhizobial species/symbiovar appears to hold for Galega officinalis (Neorhizobium galegeae sv. officinalis), Galega orientalis (Neorhizobium galegeae sv. orientalis), Hedysarum coronarium (Rhizobium sullae), Medicago laciniata (Ensifer meliloti sv. medicaginis), Medicago rigiduloides (Ensifer meliloti sv. rigiduloides) and Trifolium ambiguum (Rhizobium leguminosarum sv. trifolii). Lateral gene transfer of specific symbiosis genes within rhizobial genera is an important mechanism allowing legumes to form symbioses with rhizobia adapted to particular soils

  8. Emerging Challenges and Opportunities in Building Information Modeling for the US Army Installation Management Command

    DTIC Science & Technology

    2012-07-01

    Information Modeling ( BIM ) is the process of generating and managing building data during a facility’s entire life cycle. New BIM standards for...cycle Building Information Modeling ( BIM ) as a new standard for building information data repositories can serve as the foun- dation for automation and... Building Information Modeling ( BIM ) is defined as “a digital representa- tion of physical and functional

  9. Strategies for carbohydrate model building, refinement and validation.

    PubMed

    Agirre, Jon

    2017-02-01

    Sugars are the most stereochemically intricate family of biomolecules and present substantial challenges to anyone trying to understand their nomenclature, reactions or branched structures. Current crystallographic programs provide an abstraction layer allowing inexpert structural biologists to build complete protein or nucleic acid model components automatically either from scratch or with little manual intervention. This is, however, still not generally true for sugars. The need for carbohydrate-specific building and validation tools has been highlighted a number of times in the past, concomitantly with the introduction of a new generation of experimental methods that have been ramping up the production of protein-sugar complexes and glycoproteins for the past decade. While some incipient advances have been made to address these demands, correctly modelling and refining carbohydrates remains a challenge. This article will address many of the typical difficulties that a structural biologist may face when dealing with carbohydrates, with an emphasis on problem solving in the resolution range where X-ray crystallography and cryo-electron microscopy are expected to overlap in the next decade.

  10. Strategies for carbohydrate model building, refinement and validation

    PubMed Central

    2017-01-01

    Sugars are the most stereochemically intricate family of biomolecules and present substantial challenges to anyone trying to understand their nomenclature, reactions or branched structures. Current crystallographic programs provide an abstraction layer allowing inexpert structural biologists to build complete protein or nucleic acid model components automatically either from scratch or with little manual intervention. This is, however, still not generally true for sugars. The need for carbohydrate-specific building and validation tools has been highlighted a number of times in the past, concomitantly with the introduction of a new generation of experimental methods that have been ramping up the production of protein–sugar complexes and glycoproteins for the past decade. While some incipient advances have been made to address these demands, correctly modelling and refining carbohydrates remains a challenge. This article will address many of the typical difficulties that a structural biologist may face when dealing with carbohydrates, with an emphasis on problem solving in the resolution range where X-ray crystallography and cryo-electron microscopy are expected to overlap in the next decade. PMID:28177313

  11. Legume crops phylogeny and genetic diversity for science and breeding

    USDA-ARS?s Scientific Manuscript database

    Economically, legumes (Fabaceae) represent the second most important family of crop plants after the grass family, Poaceae. Grain legumes account for 27% of world crop production and provide 33% of the dietary protein consumed by humans, while pasture and forage legumes provide vital part of animal ...

  12. Legume genomics: where we have been, where are we going?

    USDA-ARS?s Scientific Manuscript database

    With the recognition in 2000 that several multi-institutional projects focusing on legume genomics were becoming a reality, the legume research community advocated for organization of an international meeting to address fundamental and applied aspects of legume genetic research. The purposes delinea...

  13. Competition between rhizobia under different environmental conditions affects the nodulation of a legume.

    PubMed

    Ji, Zhao Jun; Yan, Hui; Cui, Qing Guo; Wang, En Tao; Chen, Wen Feng; Chen, Wen Xin

    2017-03-01

    Mutualistic symbiosis and nitrogen fixation of legume rhizobia play a key role in ecological environments. Although many different rhizobial species can form nodules with a specific legume, there is often a dominant microsymbiont, which has the highest nodule occupancy rates, and they are often known as the "most favorable rhizobia". Shifts in the most favorable rhizobia for a legume in different geographical regions or soil types are not well understood. Therefore, in order to explore the shift model, an experiment was designed using successive inoculations of rhizobia on one legume. The plants were grown in either sterile vermiculite or a sandy soil. Results showed that, depending on the environment, a legume could select its preferential rhizobial partner in order to establish symbiosis. For perennial legumes, nodulation is a continuous and sequential process. In this study, when the most favorable rhizobial strain was available to infect the plant first, it was dominant in the nodules, regardless of the existence of other rhizobial strains in the rhizosphere. Other rhizobial strains had an opportunity to establish symbiosis with the plant when the most favorable rhizobial strain was not present in the rhizosphere. Nodule occupancy rates of the most favorable rhizobial strain depended on the competitiveness of other rhizobial strains in the rhizosphere and the environmental adaptability of the favorable rhizobial strain (in this case, to mild vermiculite or hostile sandy soil). To produce high nodulation and efficient nitrogen fixation, the most favorable rhizobial strain should be selected and inoculated into the rhizosphere of legume plants under optimum environmental conditions. Copyright © 2016 Elsevier GmbH. All rights reserved.

  14. Modelling of cosmic-ray muon exposure in building's interior.

    PubMed

    Fujitaka, K; Abe, S

    1984-06-01

    Physical parameters on the exposure indoors from cosmic ray muons were determined in order to undertake computer simulations. The hitherto known information was compiled, and the unknowns were newly calculated. Assumptions and approximations required in making a practical model were also described. The stopping power and the range of muons in a normal concrete as well as the air were calculated for the energy up to hundreds GeV. The consistency of those results with ready-made tables was found satisfactory although the comparisons were available only in the low energy tail. The scattering effect of cosmic ray muons in building's interior was examined numerically through very simple model calculations. It was revealed that the overall scattering effect would be ignored unless very small variations are wanted. The iron fraction in a reinforced concrete as well as the density of the concrete was also shown to be an ineffective factor.

  15. Modeling National Impacts for the Building America Program

    SciTech Connect

    Coughlin, Katie M.; McNeil, Michael A.

    2006-06-15

    In this paper we present a model to estimate the nationalenergy and economic impacts of the Department of Energy Building Americaprogram. The program goal is to improve energy performance in newresidential construction, by working with builders to design andconstruct energy-efficient homes at minimal cost. The model is anadaptation of the method used to calculate the national energy savingsfor appliance energy efficiency standards. The main difference is thatthe key decision here is not the consumer decision to buy anefficienthouse, but rather the builder decision to offer such a house inthe market. The builder decision is treated by developing a number ofscenarios in which the relative importance of first costs vs. energysavings is varied.

  16. Stereovision vibration measurement test of a masonry building model

    NASA Astrophysics Data System (ADS)

    Shan, Baohua; Gao, Yunli; Shen, Yu

    2016-04-01

    To monitor 3D deformations of structural vibration response, a stereovision-based 3D deformation measurement method is proposed in paper. The world coordinate system is established on structural surface, and 3D displacement equations of structural vibration response are acquired through coordinate transformation. The algorithms of edge detection, center fitting and matching constraint are developed for circular target. A shaking table test of a masonry building model under Taft and El Centro earthquake at different acceleration peak is performed in lab, 3D displacement time histories of the model are acquired by the integrated stereovision measurement system. In-plane displacement curves obtained by two methods show good agreement, this suggests that the proposed method is reliable for monitoring structural vibration response. Out-of-plane displacement curves indicate that the proposed method is feasible and useful for monitoring 3D deformations of vibration response.

  17. Compressive sensing as a paradigm for building physics models

    NASA Astrophysics Data System (ADS)

    Nelson, Lance J.; Hart, Gus L. W.; Zhou, Fei; Ozoliņš, Vidvuds

    2013-01-01

    The widely accepted intuition that the important properties of solids are determined by a few key variables underpins many methods in physics. Though this reductionist paradigm is applicable in many physical problems, its utility can be limited because the intuition for identifying the key variables often does not exist or is difficult to develop. Machine learning algorithms (genetic programming, neural networks, Bayesian methods, etc.) attempt to eliminate the a priori need for such intuition but often do so with increased computational burden and human time. A recently developed technique in the field of signal processing, compressive sensing (CS), provides a simple, general, and efficient way of finding the key descriptive variables. CS is a powerful paradigm for model building; we show that its models are more physical and predict more accurately than current state-of-the-art approaches and can be constructed at a fraction of the computational cost and user effort.

  18. A MODEL BUILDING CODE ARTICLE ON FALLOUT SHELTERS WITH RECOMMENDATIONS FOR INCLUSION OF REQUIREMENTS FOR FALLOUT SHELTER CONSTRUCTION IN FOUR NATIONAL MODEL BUILDING CODES.

    ERIC Educational Resources Information Center

    American Inst. of Architects, Washington, DC.

    A MODEL BUILDING CODE FOR FALLOUT SHELTERS WAS DRAWN UP FOR INCLUSION IN FOUR NATIONAL MODEL BUILDING CODES. DISCUSSION IS GIVEN OF FALLOUT SHELTERS WITH RESPECT TO--(1) NUCLEAR RADIATION, (2) NATIONAL POLICIES, AND (3) COMMUNITY PLANNING. FALLOUT SHELTER REQUIREMENTS FOR SHIELDING, SPACE, VENTILATION, CONSTRUCTION, AND SERVICES SUCH AS ELECTRICAL…

  19. Cross-allergic reactions to legumes in lupin and fenugreek-sensitized mice.

    PubMed

    Vinje, N E; Namork, E; Løvik, M

    2012-10-01

    Several legumes may induce allergy, and there is extensive serological cross-reactivity among legumes. This cross-reactivity has traditionally been regarded to have limited clinical relevance. However, the introduction of novel legumes to Western countries may have changed this pattern, and in some studies cross-allergy to lupin has been reported in more than 60% of peanut-allergic patients. We wanted to explore cross-reactions among legumes using two newly established mouse models of food allergy. Mice were immunized perorally with fenugreek or lupin with cholera toxin as adjuvant. The mice were challenged with high doses of fenugreek, lupin, peanut or soy, and signs of anaphylactic reactions were observed. Cross-allergic mechanisms were investigated using serum mouse mast cell protease-1 (MMCP-1), antibody responses, immunoblotting and ex vivo production of cytokines by spleen cells. Signs of cross-allergy were observed for all the tested legumes in both models. The cross-allergic symptoms were milder and affected fewer mice than the primary allergic responses. The cross-allergy was reflected to a certain extent in the antibody and T-cell responses, but not in serum MMCP-1 levels. Cross-allergy to peanut, soy, fenugreek and lupin was observed in lupin-sensitized and fenugreek-sensitized mice. Differences in serological responses between primary allergy and cross-allergy might be due to mediation through different immune mechanisms or reflect different epitope affinity to IgE. These differences need to be further investigated.

  20. Building Models from the Bottom Up: The HOBBES Project

    NASA Astrophysics Data System (ADS)

    Medellin-Azuara, J.; Sandoval Solis, S.; Lund, J. R.; Chu, W.

    2013-12-01

    Water problems are often bigger than technical and data challenges associated in representing a water system using a model. Controversy and complexity is inherent when water is to be allocated among different uses making difficult to maintain coherent and productive discussions on addressing water problems. Quantification of a water supply system through models has proven to be helpful to improve understanding, explore and develop adaptable solutions to water problems. However, models often become too large and complex and become hostages of endless discussions of the assumptions, their algorithms and their limitations. Data management organization and documentation keep model flexible and useful over time. The UC Davis HOBBES project is a new approach, building models from the bottom up. Reversing the traditional model development, where data are arranged around a model algorithm, in Hobbes the data structure, organization and documentation are established first, followed by application of simulation or optimization modeling algorithms for a particular problem at hand. The HOBBES project establishes standards for storing, documenting and sharing datasets on California water system. This allows models to be developed and modified more easily and transparently, with greater comparability. Elements in the database have a spatial definition and can aggregate several infrastructural elements into detailed to coarse representations of the water system. Elements in the database represent reservoirs, groundwater basins, pumping stations, hydropower and water treatment facilities, demand areas and conveyance infrastructure statewide. These elements also host time series, economic and other information from hydrologic, economic, climate and other models. This presentation provides an overview of the project HOBBES project, its applications and prospects for California and elsewhere. The HOBBES Project

  1. BUILDING ROBUST APPEARANCE MODELS USING ON-LINE FEATURE SELECTION

    SciTech Connect

    PORTER, REID B.; LOVELAND, ROHAN; ROSTEN, ED

    2007-01-29

    In many tracking applications, adapting the target appearance model over time can improve performance. This approach is most popular in high frame rate video applications where latent variables, related to the objects appearance (e.g., orientation and pose), vary slowly from one frame to the next. In these cases the appearance model and the tracking system are tightly integrated, and latent variables are often included as part of the tracking system's dynamic model. In this paper we describe our efforts to track cars in low frame rate data (1 frame/second) acquired from a highly unstable airborne platform. Due to the low frame rate, and poor image quality, the appearance of a particular vehicle varies greatly from one frame to the next. This leads us to a different problem: how can we build the best appearance model from all instances of a vehicle we have seen so far. The best appearance model should maximize the future performance of the tracking system, and maximize the chances of reacquiring the vehicle once it leaves the field of view. We propose an online feature selection approach to this problem and investigate the performance and computational trade-offs with a real-world dataset.

  2. Extrusion processing of main commercial legume pulses

    USDA-ARS?s Scientific Manuscript database

    Extrusion is used commercially to produce high value breakfast and snack foods based on cereals such as wheat or corn. However, this processing method is not being commercially used for legume pulses seeds due to the perception that they do not expand well in extrusion. The rise in consumer demand f...

  3. Grain legume genetic resources for allele mining

    USDA-ARS?s Scientific Manuscript database

    Sequencing capacities for higher throughput at significantly lower costs have enabled larger scale genotyping of plant genetic resources. One challenge to sequencing the USDA grain legume collections of pea, chickpea and lentil core accessions is the amount of heterogeneity in the landrace accessio...

  4. Grass vs. legume forages for dairy cattle

    USDA-ARS?s Scientific Manuscript database

    Alfalfa is the primary forage fed to lactating dairy cows; however, there is renewed interest in utilizing grass forages in lactating dairy cow diets particularly because of farm nutrient management issues. Yield and perceived quality is generally lower for grass species compared to legumes while ot...

  5. Early Design Energy Analysis Using Building Information Modeling Technology

    DTIC Science & Technology

    2011-11-01

    building, (a) floor plan and (b) 3D image. ....................................... 50 Figure 28. Comparison of different energy estimates...when they make the biggest impact on building life-cycle costs. Traditionally, most building energy analyses have been conducted late in design, by...complete energy analysis. This method enables project teams to make energy conscious decisions early in design when they impact building life-cycle

  6. NPR1 Protein Regulates Pathogenic and Symbiotic Interactions between Rhizobium and Legumes and Non-Legumes

    PubMed Central

    Peleg-Grossman, Smadar; Golani, Yael; Kaye, Yuval; Melamed-Book, Naomi; Levine, Alex

    2009-01-01

    Background Legumes are unique in their ability to establish symbiotic interaction with rhizobacteria from Rhizobium genus, which provide them with available nitrogen. Nodulation factors (NFs) produced by Rhizobium initiate legume root hair deformation and curling that entrap the bacteria, and allow it to grow inside the plant. In contrast, legumes and non-legumes activate defense responses when inoculated with pathogenic bacteria. One major defense pathway is mediated by salicylic acid (SA). SA is sensed and transduced to downstream defense components by a redox-regulated protein called NPR1. Methodology/Principal Findings We used Arabidopsis mutants in SA defense pathway to test the role of NPR1 in symbiotic interactions. Inoculation of Sinorhizobium meliloti or purified NF on Medicago truncatula or nim1/npr1 A. thaliana mutants induced root hair deformation and transcription of early and late nodulins. Application of S. meliloti or NF on M. truncatula or A. thaliana roots also induced a strong oxidative burst that lasted much longer than in plants inoculated with pathogenic or mutualistic bacteria. Transient overexpression of NPR1 in M. truncatula suppressed root hair curling, while inhibition of NPR1 expression by RNAi accelerated curling. Conclusions/Significance We show that, while NPR1 has a positive effect on pathogen resistance, it has a negative effect on symbiotic interactions, by inhibiting root hair deformation and nodulin expression. Our results also show that basic plant responses to Rhizobium inoculation are conserved in legumes and non-legumes. PMID:20027302

  7. BIM (Building Information Modeling) and TCO (Total Cost of Ownership)

    ERIC Educational Resources Information Center

    Christensen, Douglas K.

    2009-01-01

    There are some words in the building industry that seem to be clear and understandable to say, yet they need some help in understanding the depth of the meaning. When the term maintenance is talked about there seems to be some agreement that it does not mean building a new building. Maintenance as a term covers many areas and if not clarified…

  8. Building the 'Uncertainty Enabled Model Web'- lessons learned

    NASA Astrophysics Data System (ADS)

    Cornford, Dan; Stasch, Christoph; Pebesma, Edzer; Jones, Richard; Bastin, Lucy; Bigagli, Lorenzo

    2013-04-01

    particular we identify scalability, parallelisation, security and ease of use as key drivers for further developments. We also consider the particular challenges when managing uncertainty in such settings, including obtaining reliable uncertainty estimates, validation of probabilistic models and computational issues. Finally we also consider the practical aspects of building the uncertainty enabled model web, with some guidance to funding such initiatives, and practical recommendations identifying where we believe the best return on investment would be.

  9. Evaluation of Model Recognition for Grammar-Based Automatic 3d Building Model Reconstruction

    NASA Astrophysics Data System (ADS)

    Yu, Qian; Helmholz, Petra; Belton, David

    2016-06-01

    In recent years, 3D city models are in high demand by many public and private organisations, and the steadily growing capacity in both quality and quantity are increasing demand. The quality evaluation of these 3D models is a relevant issue both from the scientific and practical points of view. In this paper, we present a method for the quality evaluation of 3D building models which are reconstructed automatically from terrestrial laser scanning (TLS) data based on an attributed building grammar. The entire evaluation process has been performed in all the three dimensions in terms of completeness and correctness of the reconstruction. Six quality measures are introduced to apply on four datasets of reconstructed building models in order to describe the quality of the automatic reconstruction, and also are assessed on their validity from the evaluation point of view.

  10. Anti-inflammatory effects of phytochemicals from fruits, vegetables, and food legumes: A review.

    PubMed

    Zhu, Fengmei; Du, Bin; Xu, Baojun

    2017-06-12

    Inflammation is the first biological response of the immune system to infection, injury or irritation. Evidence suggests that the anti-inflammatory effect is mediated through the regulation of various inflammatory cytokines, such as nitric oxide, interleukins, tumor necrosis factor alpha-α, interferon gamma-γ as well as noncytokine mediator, prostaglandin E2. Fruits, vegetables, and food legumes contain high levels of phytochemicals that show anti-inflammatory effect, but their mechanisms of actions have not been completely identified. The aim of this paper was to summarize the recent investigations and findings regarding in vitro and animal model studies on the anti-inflammatory effects of fruits, vegetables, and food legumes. Specific cytokines released for specific type of physiological event might shed some light on the specific use of each source of phytochemicals that can benefit to counter the inflammatory response. As natural modulators of proinflammatory gene expressions, phytochemical from fruits, vegetables, and food legumes could be incorporated into novel bioactive anti-inflammatory formulations of various nutraceuticals and pharmaceuticals. Finally, these phytochemicals are discussed as the natural promotion strategy for the improvement of human health status. The phenolics and triterpenoids in fruits and vegetables showed higher anti-inflammatory activity than other compounds. In food legumes, lectins and peptides had anti-inflammatory activity in most cases. However, there are lack of human study data on the anti-inflammatory activity of phytochemicals from fruits, vegetables, and food legumes.

  11. Legume growth-promoting rhizobia: an overview on the Mesorhizobium genus.

    PubMed

    Laranjo, Marta; Alexandre, Ana; Oliveira, Solange

    2014-01-20

    The need for sustainable agricultural practices is revitalizing the interest in biological nitrogen fixation and rhizobia-legumes symbioses, particularly those involving economically important legume crops in terms of food and forage. The genus Mesorhizobium includes species with high geographical dispersion and able to nodulate a wide variety of legumes, including important crop species, like chickpea or biserrula. Some cases of legume-mesorhizobia inoculant introduction represent exceptional opportunities to study the rhizobia genomes evolution and the evolutionary relationships among species. Complete genome sequences revealed that mesorhizobia typically harbour chromosomal symbiosis islands. The phylogenies of symbiosis genes, such as nodC, are not congruent with the phylogenies based on core genes, reflecting rhizobial host range, rather than species affiliation. This agrees with studies showing that Mesorhizobium species are able to exchange symbiosis genes through lateral transfer of chromosomal symbiosis islands, thus acquiring the ability to nodulate new hosts. Phylogenetic analyses of the Mesorhizobium genus based on core and accessory genes reveal complex evolutionary relationships and a high genomic plasticity, rendering the Mesorhizobium genus as a good model to investigate rhizobia genome evolution and adaptation to different host plants. Further investigation of symbiosis genes as well as stress response genes will certainly contribute to understand mesorhizobia-legume symbiosis and to develop more effective mesorhizobia inoculants.

  12. Physical and JIT Model Based Hybrid Modeling Approach for Building Thermal Load Prediction

    NASA Astrophysics Data System (ADS)

    Iino, Yutaka; Murai, Masahiko; Murayama, Dai; Motoyama, Ichiro

    Energy conservation in building fields is one of the key issues in environmental point of view as well as that of industrial, transportation and residential fields. The half of the total energy consumption in a building is occupied by HVAC (Heating, Ventilating and Air Conditioning) systems. In order to realize energy conservation of HVAC system, a thermal load prediction model for building is required. This paper propose a hybrid modeling approach with physical and Just-in-Time (JIT) model for building thermal load prediction. The proposed method has features and benefits such as, (1) it is applicable to the case in which past operation data for load prediction model learning is poor, (2) it has a self checking function, which always supervises if the data driven load prediction and the physical based one are consistent or not, so it can find if something is wrong in load prediction procedure, (3) it has ability to adjust load prediction in real-time against sudden change of model parameters and environmental conditions. The proposed method is evaluated with real operation data of an existing building, and the improvement of load prediction performance is illustrated.

  13. A Suggested Model for Building Robust Biomedical Implants Registries.

    PubMed

    Aloufi, Bader; Alshagathrah, Fahad; Househ, Mowafa

    2017-01-01

    Registries are an essential source of information for clinical and non-clinical decision-makers; because they provide evidence for post-market clinical follow-up and early detection of safety signals for biomedical implants. Yet, many of todays biomedical implants registries are facing a variety of challenges relating to a poorly designed dataset, the reliability of inputted data and low clinician and patient participation. The purpose of this paper is to present a best practice model for the implementation and use of biomedical implants registries to monitor the safety and effectiveness of implantable medical devices. Based on a literature review and an analysis of multiple national relevant registries, we identified six factors that address contemporary challenges and are believed to be the keys for building a successful biomedical implants registry, which include: sustainable development, international comparability, data reliability, purposeful design, ease of patient participation, and collaborative development at the national level.

  14. Building a sustainable Academic Health Department: the South Carolina model.

    PubMed

    Smith, Lillian Upton; Waddell, Lisa; Kyle, Joseph; Hand, Gregory A

    2014-01-01

    Given the limited resources available to public health, it is critical that university programs complement the development needs of agencies. Unfortunately, academic and practice public health entities have long been challenged in building sustainable collaborations that support practice-based research, teaching, and service. The academic health department concept offers a promising solution. In South Carolina, the partners started their academic health department program with a small grant that expanded into a dynamic infrastructure that supports innovative professional exchange and development programs. This article provides a background and describes the key elements of the South Carolina model: joint leadership, a multicomponent memorandum of agreement, and a shared professional development mission. The combination of these elements allows the partners to leverage resources and deftly respond to challenges and opportunities, ultimately fostering the sustainability of the collaboration.

  15. Building Information Modelling for Cultural Heritage: A review

    NASA Astrophysics Data System (ADS)

    Logothetis, S.; Delinasiou, A.; Stylianidis, E.

    2015-08-01

    We discuss the evolution and state-of-the-art of the use of Building Information Modelling (BIM) in the field of culture heritage documentation. BIM is a hot theme involving different characteristics including principles, technology, even privacy rights for the cultural heritage objects. Modern documentation needs identified the potential of BIM in the recent years. Many architects, archaeologists, conservationists, engineers regard BIM as a disruptive force, changing the way professionals can document and manage a cultural heritage structure. The latest years, there are many developments in the BIM field while the developed technology and methods challenged the cultural heritage community in the documentation framework. In this review article, following a brief historic background for the BIM, we review the recent developments focusing in the cultural heritage documentation perspective.

  16. Building Simulation Modelers are we big-data ready?

    SciTech Connect

    Sanyal, Jibonananda; New, Joshua Ryan

    2014-01-01

    Recent advances in computing and sensor technologies have pushed the amount of data we collect or generate to limits previously unheard of. Sub-minute resolution data from dozens of channels is becoming increasingly common and is expected to increase with the prevalence of non-intrusive load monitoring. Experts are running larger building simulation experiments and are faced with an increasingly complex data set to analyze and derive meaningful insight. This paper focuses on the data management challenges that building modeling experts may face in data collected from a large array of sensors, or generated from running a large number of building energy/performance simulations. The paper highlights the technical difficulties that were encountered and overcome in order to run 3.5 million EnergyPlus simulations on supercomputers and generating over 200 TBs of simulation output. This extreme case involved development of technologies and insights that will be beneficial to modelers in the immediate future. The paper discusses different database technologies (including relational databases, columnar storage, and schema-less Hadoop) in order to contrast the advantages and disadvantages of employing each for storage of EnergyPlus output. Scalability, analysis requirements, and the adaptability of these database technologies are discussed. Additionally, unique attributes of EnergyPlus output are highlighted which make data-entry non-trivial for multiple simulations. Practical experience regarding cost-effective strategies for big-data storage is provided. The paper also discusses network performance issues when transferring large amounts of data across a network to different computing devices. Practical issues involving lag, bandwidth, and methods for synchronizing or transferring logical portions of the data are presented. A cornerstone of big-data is its use for analytics; data is useless unless information can be meaningfully derived from it. In addition to technical

  17. Verification of 3d Building Models Using Mutual Information in Airborne Oblique Images

    NASA Astrophysics Data System (ADS)

    Nyaruhuma, A. P.; Gerke, M.; Vosselman, G.

    2012-07-01

    This paper describes a method for automatic verification of 3D building models using airborne oblique images. The problem being tackled is identifying buildings that are demolished or changed since the models were constructed or identifying wrong models using the images. The models verified are of CityGML LOD2 or higher since their edges are expected to coincide with actual building edges. The verification approach is based on information theory. Corresponding variables between building models and oblique images are used for deriving mutual information for individual edges, faces or whole buildings, and combined for all perspective images available for the building. The wireframe model edges are projected to images and verified using low level image features - the image pixel gradient directions. A building part is only checked against images in which it may be visible. The method has been tested with models constructed using laser points against Pictometry images that are available for most cities of Europe and may be publically viewed in the so called Birds Eye view of the Microsoft Bing Maps. Results are that nearly all buildings are correctly categorised as existing or demolished. Because we now concentrate only on roofs we also used the method to test and compare results from nadir images. This comparison made clear that especially height errors in models can be more reliably detected in oblique images because of the tilted view. Besides overall building verification, results per individual edges can be used for improving the 3D building models.

  18. Hybrid Model-Based and Data-Driven Fault Detection and Diagnostics for Commercial Buildings: Preprint

    SciTech Connect

    Frank, Stephen; Heaney, Michael; Jin, Xin; Robertson, Joseph; Cheung, Howard; Elmore, Ryan; Henze, Gregor

    2016-08-01

    Commercial buildings often experience faults that produce undesirable behavior in building systems. Building faults waste energy, decrease occupants' comfort, and increase operating costs. Automated fault detection and diagnosis (FDD) tools for buildings help building owners discover and identify the root causes of faults in building systems, equipment, and controls. Proper implementation of FDD has the potential to simultaneously improve comfort, reduce energy use, and narrow the gap between actual and optimal building performance. However, conventional rule-based FDD requires expensive instrumentation and valuable engineering labor, which limit deployment opportunities. This paper presents a hybrid, automated FDD approach that combines building energy models and statistical learning tools to detect and diagnose faults noninvasively, using minimal sensors, with little customization. We compare and contrast the performance of several hybrid FDD algorithms for a small security building. Our results indicate that the algorithms can detect and diagnose several common faults, but more work is required to reduce false positive rates and improve diagnosis accuracy.

  19. Hybrid Model-Based and Data-Driven Fault Detection and Diagnostics for Commercial Buildings

    SciTech Connect

    Frank, Stephen; Heaney, Michael; Jin, Xin; Robertson, Joseph; Cheung, Howard; Elmore, Ryan; Henze, Gregor

    2016-08-26

    Commercial buildings often experience faults that produce undesirable behavior in building systems. Building faults waste energy, decrease occupants' comfort, and increase operating costs. Automated fault detection and diagnosis (FDD) tools for buildings help building owners discover and identify the root causes of faults in building systems, equipment, and controls. Proper implementation of FDD has the potential to simultaneously improve comfort, reduce energy use, and narrow the gap between actual and optimal building performance. However, conventional rule-based FDD requires expensive instrumentation and valuable engineering labor, which limit deployment opportunities. This paper presents a hybrid, automated FDD approach that combines building energy models and statistical learning tools to detect and diagnose faults noninvasively, using minimal sensors, with little customization. We compare and contrast the performance of several hybrid FDD algorithms for a small security building. Our results indicate that the algorithms can detect and diagnose several common faults, but more work is required to reduce false positive rates and improve diagnosis accuracy.

  20. Selection for cheating across disparate environments in the legume-rhizobium mutualism.

    PubMed

    Porter, Stephanie S; Simms, Ellen L

    2014-09-01

    The primary dilemma in evolutionarily stable mutualisms is that natural selection for cheating could overwhelm selection for cooperation. Cheating need not entail parasitism; selection favours cheating as a quantitative trait whenever less-cooperative partners are more fit than more-cooperative partners. Mutualisms might be stabilised by mechanisms that direct benefits to more-cooperative individuals, which counter selection for cheating; however, empirical evidence that natural selection favours cheating in mutualisms is sparse. We measured selection on cheating in single-partner pairings of wild legume and rhizobium lineages, which prevented legume choice. Across contrasting environments, selection consistently favoured cheating by rhizobia, but did not favour legumes that provided less benefit to rhizobium partners. This is the first simultaneous measurement of selection on cheating across both host and symbiont lineages from a natural population. We empirically confirm selection for cheating as a source of antagonistic coevolutionary pressure in mutualism and a biological dilemma for models of cooperation.

  1. Generation of 7137 non-redundant expressed sequence tags from a legume, Lotus japonicus.

    PubMed

    Asamizu, E; Nakamura, Y; Sato, S; Tabata, S

    2000-04-28

    For comprehensive analysis of genes expressed in a model legume, Lotus japonicus, a total of 22,983 5' end expressed sequence tags (ESTs) were accumulated from normalized and size-selected cDNA libraries constructed from young (2 weeks old) plants. The EST sequences were clustered into 7137 non-redundant groups. Similarity search against public non-redundant protein database indicated that 3302 groups showed similarity to genes of known function, 1143 groups to hypothetical genes, and 2692 were novel sequences. Homologues of 5 nodule-specific genes which have been reported in other legume species were contained in the collected ESTs, suggesting that the EST source generated in this study will become a useful tool for identification of genes related to legume-specific biological processes. The sequence data of individual ESTs are available at the web site: http://www.kazusa.or.jp/en/plant/lotus/EST/.

  2. A Model for Sustainable Building Energy Efficiency Retrofit (BEER) Using Energy Performance Contracting (EPC) Mechanism for Hotel Buildings in China

    NASA Astrophysics Data System (ADS)

    Xu, Pengpeng

    Hotel building is one of the high-energy-consuming building types, and retrofitting hotel buildings is an untapped solution to help cut carbon emissions contributing towards sustainable development. Energy Performance Contracting (EPC) has been promulgated as a market mechanism for the delivery of energy efficiency projects. EPC mechanism has been introduced into China relatively recently, and it has not been implemented successfully in building energy efficiency retrofit projects. The aim of this research is to develop a model for achieving the sustainability of Building Energy Efficiency Retrofit (BEER) in hotel buildings under the Energy Performance Contracting (EPC) mechanism. The objectives include: • To identify a set of Key Performance Indicators (KPIs) for measuring the sustainability of BEER in hotel buildings; • To identify Critical Success Factors (CSFs) under EPC mechanism that have a strong correlation with sustainable BEER project; • To develop a model explaining the relationships between the CSFs and the sustainability performance of BEER in hotel building. Literature reviews revealed the essence of sustainable BEER and EPC, which help to develop a conceptual framework for analyzing sustainable BEER under EPC mechanism in hotel buildings. 11 potential KPIs for sustainable BEER and 28 success factors of EPC were selected based on the developed framework. A questionnaire survey was conducted to ascertain the importance of selected performance indicators and success factors. Fuzzy set theory was adopted in identifying the KPIs. Six KPIs were identified from the 11 selected performance indicators. Through a questionnaire survey, out of the 28 success factors, 21 Critical Success Factors (CSFs) were also indentified. Using the factor analysis technique, the 21 identified CSFs in this study were grouped into six clusters to help explain project success of sustainable BEER. Finally, AHP/ANP approach was used in this research to develop a model to

  3. Digital learning material for student-directed model building in molecular biologyS.

    PubMed

    Aegerter-Wilmsen, Tinri; Coppens, Marjolijn; Janssen, Fred; Hartog, Rob; Bisseling, Ton

    2005-09-01

    The building of models to explain data and make predictions constitutes an important goal in molecular biology research. To give students the opportunity to practice such model building, two digital cases had previously been developed in which students are guided to build a model step by step. In this article, the development and initial evaluation of a third digital case is described. It concerns the selection of bristles during Drosophila development. To mimic a real research situation in a more realistic way, students are given much more freedom while building their models and can thus follow their own model-building approach. At the same time, however, students are provided with a sufficient amount of support to ensure that they can build their models without the requirement of intensive supervision.

  4. Relationship between legumes consumption and metabolic syndrome: Findings of the Isfahan Healthy Heart Program

    PubMed Central

    Sajjadi, Firouzeh; Gharipour, Mojgan; Mohammadifard, Noushin; Nouri, Fatemeh; Maghroun, Maryam; Alikhasi, Hasan

    2014-01-01

    BACKGROUND Epidemiologic studies have shown an inverse association between dietary fiber and metabolic syndrome (MetS). Therefore, the purpose of this study was to investigate the association between MetS and consumption of legumes in adults in Isfahan, Iran. METHODS This cross-sectional study was carried out on 2027 individuals who were a subsample of the 3rd phase of the Isfahan Healthy Heart Program (IHHP). Basic characteristics information such as age, sex, smoking status, and physical activity were collected using a questionnaire. A validated 48-item food frequency questionnaire was used to assess dietary behaviors. Blood pressure, waist circumference (WC), glucose, triacylglycerols, and high-density lipoprotein cholesterol were measured, and MetS was defined based on Adult Treatment Panel III guidelines. Multiple logistic regression models examined associations of frequency consumption of legumes with MetS occurrence and its components. RESULTS All MetS components were less prevalent among subjects with regular legume intake (P < 0.01). Legume intake was inversely associated with the risk of MetS, after adjustment for confounding factors in women. Life style adjusted odds ratio of Mets between highest and lowest tertile and no consumption (as reference category) of legume intake were 0.31 (0.13, 0.70), 0.38 (0.17, 0.87), respectively, in women (P = 0.01). CONCLUSION This study showed that age has a crucial role in MetS incidence; therefore, after further age adjustment to lifestyle adjusted model there was no significant difference in lower and higher tertile of legume intake and MetS. PMID:24963309

  5. Legume consumption and its association with fasting glucose, insulin resistance and type 2 diabetes in the Indian Migration Study.

    PubMed

    Dhillon, Preet K; Bowen, Liza; Kinra, Sanjay; Bharathi, Ankalmadugu Venkatsubbareddy; Agrawal, Sutapa; Prabhakaran, Dorairaj; Reddy, Kolli Srinath; Ebrahim, Shah

    2016-11-01

    Legume consumption is associated with lower fasting glucose (FG) and insulin levels in nutrition trials and lower CVD mortality in large-scale epidemiological studies. In India, legumes are widely consumed in various preparations, yet no epidemiological study has evaluated the association of legumes with FG levels, insulin resistance and diabetes risk. The present study aimed to fill this gap. Fasting blood samples, in-person interviews to obtain information on demographic/socio-economic factors, physical activity, alcohol and tobacco use, and anthropometric measurements were collected. Dietary intakes were assessed by an interviewer-administered, validated, semi-quantitative FFQ. Lucknow, Nagpur, Hyderabad and Bangalore, India. Men and women (n 6367) aged 15-76 years - urban residents, urban migrants and their rural siblings. In multivariate random-effects models adjusted for age, BMI, total energy intake, macronutrients, physical activity and rural/migration status, daily legume consumption was not associated with FG (P-for-trend=0·78), insulin resistance (homeostasis model assessment score; P-for-trend=0·73) or the prevalence of type 2 diabetes mellitus (P-for-trend=0·41). Stratified analyses by vegetarian diet and migration status did not change the findings. Inverse associations between legumes and FG emerged for participants with lower BMI and higher carbohydrate, protein, fat and sugar intakes. Although legumes are essential in traditional Indian diets, as well as in prudent and Mediterranean diets in the West, we did not find an association between legumes and markers of glycaemic control, insulin resistance or diabetes, except for subgroups based on BMI and macronutrient intake. The ubiquitous presence and complexity of legume preparations in Indian diets may contribute to these findings.

  6. Implicit Regularization for Reconstructing 3D Building Rooftop Models Using Airborne LiDAR Data.

    PubMed

    Jung, Jaewook; Jwa, Yoonseok; Sohn, Gunho

    2017-03-19

    With rapid urbanization, highly accurate and semantically rich virtualization of building assets in 3D become more critical for supporting various applications, including urban planning, emergency response and location-based services. Many research efforts have been conducted to automatically reconstruct building models at city-scale from remotely sensed data. However, developing a fully-automated photogrammetric computer vision system enabling the massive generation of highly accurate building models still remains a challenging task. One the most challenging task for 3D building model reconstruction is to regularize the noises introduced in the boundary of building object retrieved from a raw data with lack of knowledge on its true shape. This paper proposes a data-driven modeling approach to reconstruct 3D rooftop models at city-scale from airborne laser scanning (ALS) data. The focus of the proposed method is to implicitly derive the shape regularity of 3D building rooftops from given noisy information of building boundary in a progressive manner. This study covers a full chain of 3D building modeling from low level processing to realistic 3D building rooftop modeling. In the element clustering step, building-labeled point clouds are clustered into homogeneous groups by applying height similarity and plane similarity. Based on segmented clusters, linear modeling cues including outer boundaries, intersection lines, and step lines are extracted. Topology elements among the modeling cues are recovered by the Binary Space Partitioning (BSP) technique. The regularity of the building rooftop model is achieved by an implicit regularization process in the framework of Minimum Description Length (MDL) combined with Hypothesize and Test (HAT). The parameters governing the MDL optimization are automatically estimated based on Min-Max optimization and Entropy-based weighting method. The performance of the proposed method is tested over the International Society for

  7. Implicit Regularization for Reconstructing 3D Building Rooftop Models Using Airborne LiDAR Data

    PubMed Central

    Jung, Jaewook; Jwa, Yoonseok; Sohn, Gunho

    2017-01-01

    With rapid urbanization, highly accurate and semantically rich virtualization of building assets in 3D become more critical for supporting various applications, including urban planning, emergency response and location-based services. Many research efforts have been conducted to automatically reconstruct building models at city-scale from remotely sensed data. However, developing a fully-automated photogrammetric computer vision system enabling the massive generation of highly accurate building models still remains a challenging task. One the most challenging task for 3D building model reconstruction is to regularize the noises introduced in the boundary of building object retrieved from a raw data with lack of knowledge on its true shape. This paper proposes a data-driven modeling approach to reconstruct 3D rooftop models at city-scale from airborne laser scanning (ALS) data. The focus of the proposed method is to implicitly derive the shape regularity of 3D building rooftops from given noisy information of building boundary in a progressive manner. This study covers a full chain of 3D building modeling from low level processing to realistic 3D building rooftop modeling. In the element clustering step, building-labeled point clouds are clustered into homogeneous groups by applying height similarity and plane similarity. Based on segmented clusters, linear modeling cues including outer boundaries, intersection lines, and step lines are extracted. Topology elements among the modeling cues are recovered by the Binary Space Partitioning (BSP) technique. The regularity of the building rooftop model is achieved by an implicit regularization process in the framework of Minimum Description Length (MDL) combined with Hypothesize and Test (HAT). The parameters governing the MDL optimization are automatically estimated based on Min-Max optimization and Entropy-based weighting method. The performance of the proposed method is tested over the International Society for

  8. Combining Unsupervised and Supervised Classification to Build User Models for Exploratory Learning Environments

    ERIC Educational Resources Information Center

    Amershi, Saleema; Conati, Cristina

    2009-01-01

    In this paper, we present a data-based user modeling framework that uses both unsupervised and supervised classification to build student models for exploratory learning environments. We apply the framework to build student models for two different learning environments and using two different data sources (logged interface and eye-tracking data).…

  9. Combining Unsupervised and Supervised Classification to Build User Models for Exploratory Learning Environments

    ERIC Educational Resources Information Center

    Amershi, Saleema; Conati, Cristina

    2009-01-01

    In this paper, we present a data-based user modeling framework that uses both unsupervised and supervised classification to build student models for exploratory learning environments. We apply the framework to build student models for two different learning environments and using two different data sources (logged interface and eye-tracking data).…

  10. Legume Lectins: Proteins with Diverse Applications

    PubMed Central

    Lagarda-Diaz, Irlanda; Guzman-Partida, Ana Maria; Vazquez-Moreno, Luz

    2017-01-01

    Lectins are a diverse class of proteins distributed extensively in nature. Among these proteins; legume lectins display a variety of interesting features including antimicrobial; insecticidal and antitumor activities. Because lectins recognize and bind to specific glycoconjugates present on the surface of cells and intracellular structures; they can serve as potential target molecules for developing practical applications in the fields of food; agriculture; health and pharmaceutical research. This review presents the current knowledge of the main structural characteristics of legume lectins and the relationship of structure to the exhibited specificities; provides an overview of their particular antimicrobial; insecticidal and antitumor biological activities and describes possible applications based on the pattern of recognized glyco-targets. PMID:28604616

  11. The road plan model: Information model for planning road building activities

    NASA Technical Reports Server (NTRS)

    Azinhal, Rafaela K.; Moura-Pires, Fernando

    1994-01-01

    The general building contractor is presented with an information model as an approach for deriving a high-level work plan of construction activities applied to road building. Road construction activities are represented in a Road Plan Model (RPM), which is modeled in the ISO standard STEP/EXPRESS and adopts various concepts from the GARM notation. The integration with the preceding road design stage and the succeeding phase of resource scheduling is discussed within the framework of a Road Construction Model. Construction knowledge is applied to the road design and the terrain model of the surrounding road infrastructure for the instantiation of the RPM. Issues regarding the implementation of a road planner application supporting the RPM are discussed.

  12. Building Blocks for Building Skills: An Inventory of Adult Learning Models and Innovations

    ERIC Educational Resources Information Center

    Klein-Collins, Rebecca

    2006-01-01

    The skills of the workforce are an important contributor to the economic vitality of any region, leading economic developers to consider how to connect their efforts to workforce development and help to build the skills of adults generally. This report, produced for the U.S. Department of Labor's Workforce Innovation in Regional Economic…

  13. VOC sink behaviour on building materials--model evaluation

    EPA Science Inventory

    The event of 11 September 2001 underscored the need to study the vulnerability of buildings to weapons of mass destruction (WMD), including chemical, biological, physical, and radiological agents. Should these agents be released inside a building, they would interact with interio...

  14. VOC sink behaviour on building materials--model evaluation

    EPA Science Inventory

    The event of 11 September 2001 underscored the need to study the vulnerability of buildings to weapons of mass destruction (WMD), including chemical, biological, physical, and radiological agents. Should these agents be released inside a building, they would interact with interio...

  15. A research and evaluation capacity building model in Western Australia.

    PubMed

    Lobo, Roanna; Crawford, Gemma; Hallett, Jonathan; Laing, Sue; Mak, Donna B; Jancey, Jonine; Rowell, Sally; McCausland, Kahlia; Bastian, Lisa; Sorenson, Anne; Tilley, P J Matt; Yam, Simon; Comfort, Jude; Brennan, Sean; Doherty, Maryanne

    2016-12-27

    Evaluation of public health programs, services and policies is increasingly required to demonstrate effectiveness. Funding constraints necessitate that existing programs, services and policies be evaluated and their findings disseminated. Evidence-informed practice and policy is also desirable to maximise investments in public health. Partnerships between public health researchers, service providers and policymakers can help address evaluation knowledge and skills gaps. The Western Australian Sexual Health and Blood-borne Virus Applied Research and Evaluation Network (SiREN) aims to build research and evaluation capacity in the sexual health and blood-borne virus sector in Western Australia (WA). Partners' perspectives of the SiREN model after 2 years were explored. Qualitative written responses from service providers, policymakers and researchers about the SiREN model were analysed thematically. Service providers reported that participation in SiREN prompted them to consider evaluation earlier in the planning process and increased their appreciation of the value of evaluation. Policymakers noted benefits of the model in generating local evidence and highlighting local issues of importance for consideration at a national level. Researchers identified challenges communicating the services available through SiREN and the time investment needed to develop effective collaborative partnerships. Stronger engagement between public health researchers, service providers and policymakers through collaborative partnerships has the potential to improve evidence generation and evidence translation. These outcomes require long-term funding and commitment from all partners to develop and maintain partnerships. Ongoing monitoring and evaluation can ensure the partnership remains responsive to the needs of key stakeholders. The findings are applicable to many sectors.

  16. Late Embryogenesis Abundant (LEA) proteins in legumes.

    PubMed

    Battaglia, Marina; Covarrubias, Alejandra A

    2013-01-01

    Plants are exposed to different external conditions that affect growth, development, and productivity. Water deficit is one of these adverse conditions caused by drought, salinity, and extreme temperatures. Plants have developed different responses to prevent, ameliorate or repair the damage inflicted by these stressful environments. One of these responses is the activation of a set of genes encoding a group of hydrophilic proteins that typically accumulate to high levels during seed dehydration, at the last stage of embryogenesis, hence named Late Embryogenesis Abundant (LEA) proteins. LEA proteins also accumulate in response to water limitation in vegetative tissues, and have been classified in seven groups based on their amino acid sequence similarity and on the presence of distinctive conserved motifs. These proteins are widely distributed in the plant kingdom, from ferns to angiosperms, suggesting a relevant role in the plant response to this unfavorable environmental condition. In this review, we analyzed the LEA proteins from those legumes whose complete genomes have been sequenced such as Phaseolus vulgaris, Glycine max, Medicago truncatula, Lotus japonicus, Cajanus cajan, and Cicer arietinum. Considering their distinctive motifs, LEA proteins from the different groups were identified, and their sequence analysis allowed the recognition of novel legume specific motifs. Moreover, we compile their transcript accumulation patterns based on publicly available data. In spite of the limited information on these proteins in legumes, the analysis and data compiled here confirm the high correlation between their accumulation and water deficit, reinforcing their functional relevance under this detrimental conditions.

  17. Molecular mechanisms controlling legume autoregulation of nodulation

    PubMed Central

    Reid, Dugald E.; Ferguson, Brett J.; Hayashi, Satomi; Lin, Yu-Hsiang; Gresshoff, Peter M.

    2011-01-01

    Background High input costs and environmental pressures to reduce nitrogen use in agriculture have increased the competitive advantage of legume crops. The symbiotic relationship that legumes form with nitrogen-fixing soil bacteria in root nodules is central to this advantage. Scope Understanding how legume plants maintain control of nodulation to balance the nitrogen gains with their energy needs and developmental costs will assist in increasing their productivity and relative advantage. For this reason, the regulation of nodulation has been extensively studied since the first mutants exhibiting increased nodulation were isolated almost three decades ago. Conclusions Nodulation is regulated primarily via a systemic mechanism known as the autoregulation of nodulation (AON), which is controlled by a CLAVATA1-like receptor kinase. Multiple components sharing homology with the CLAVATA signalling pathway that maintains control of the shoot apical meristem in arabidopsis have now been identified in AON. This includes the recent identification of several CLE peptides capable of activating nodule inhibition responses, a low molecular weight shoot signal and a role for CLAVATA2 in AON. Efforts are now being focused on directly identifying the interactions of these components and to identify the form that long-distance transport molecules take. PMID:21856632

  18. Molecular mechanisms controlling legume autoregulation of nodulation.

    PubMed

    Reid, Dugald E; Ferguson, Brett J; Hayashi, Satomi; Lin, Yu-Hsiang; Gresshoff, Peter M

    2011-10-01

    High input costs and environmental pressures to reduce nitrogen use in agriculture have increased the competitive advantage of legume crops. The symbiotic relationship that legumes form with nitrogen-fixing soil bacteria in root nodules is central to this advantage. Understanding how legume plants maintain control of nodulation to balance the nitrogen gains with their energy needs and developmental costs will assist in increasing their productivity and relative advantage. For this reason, the regulation of nodulation has been extensively studied since the first mutants exhibiting increased nodulation were isolated almost three decades ago. Nodulation is regulated primarily via a systemic mechanism known as the autoregulation of nodulation (AON), which is controlled by a CLAVATA1-like receptor kinase. Multiple components sharing homology with the CLAVATA signalling pathway that maintains control of the shoot apical meristem in arabidopsis have now been identified in AON. This includes the recent identification of several CLE peptides capable of activating nodule inhibition responses, a low molecular weight shoot signal and a role for CLAVATA2 in AON. Efforts are now being focused on directly identifying the interactions of these components and to identify the form that long-distance transport molecules take.

  19. Late Embryogenesis Abundant (LEA) proteins in legumes

    PubMed Central

    Battaglia, Marina; Covarrubias, Alejandra A.

    2013-01-01

    Plants are exposed to different external conditions that affect growth, development, and productivity. Water deficit is one of these adverse conditions caused by drought, salinity, and extreme temperatures. Plants have developed different responses to prevent, ameliorate or repair the damage inflicted by these stressful environments. One of these responses is the activation of a set of genes encoding a group of hydrophilic proteins that typically accumulate to high levels during seed dehydration, at the last stage of embryogenesis, hence named Late Embryogenesis Abundant (LEA) proteins. LEA proteins also accumulate in response to water limitation in vegetative tissues, and have been classified in seven groups based on their amino acid sequence similarity and on the presence of distinctive conserved motifs. These proteins are widely distributed in the plant kingdom, from ferns to angiosperms, suggesting a relevant role in the plant response to this unfavorable environmental condition. In this review, we analyzed the LEA proteins from those legumes whose complete genomes have been sequenced such as Phaseolus vulgaris, Glycine max, Medicago truncatula, Lotus japonicus, Cajanus cajan, and Cicer arietinum. Considering their distinctive motifs, LEA proteins from the different groups were identified, and their sequence analysis allowed the recognition of novel legume specific motifs. Moreover, we compile their transcript accumulation patterns based on publicly available data. In spite of the limited information on these proteins in legumes, the analysis and data compiled here confirm the high correlation between their accumulation and water deficit, reinforcing their functional relevance under this detrimental conditions. PMID:23805145

  20. Development of improved Gaussian dispersion models for cases of downwash past wide buildings using three- dimensional fluid modeling

    NASA Astrophysics Data System (ADS)

    Flowe, Anita Coulter

    1997-08-01

    The objectives of this work were to show that a well- tested three dimensional turbulent kinetic energy/dissipation (k-ɛ) computational model, FLUENT, can be used to model the fluid flow fields and the dispersion effects in the flow fields generated by a variety of building shapes, and to use the data sets to develop parameterizations useful to air quality modeling needs. Once the appropriateness of the computational model was proven through comparisons with experimental results, and data generated for several ratios of building width to building heights, the flow field was examined to determine the length of the recirculation cavity as a function of the ratio of building width to building height both in front of and in the rear of the building. The dimensions of the recirculation cavity in the front of the building have previously not been included in regulatory models, so both the height and length of this front recirculation cavity was parameterized as a function of the ratio of building width to building height. The maximum downdraft was also parameterized as a function of the building width to building height ratio. The dispersive effects were then examined to determine useful parameters. The average concentration in the recirculation cavity was calculated and modeled as a function of ratio of the building width to building height. Finally, because Gaussian models are generally used for regulatory modeling of dispersion effects, the dispersive field was analyzed to find improved dispersion coefficients to use in Gaussian models. The vertical and horizontal dispersion coefficients were computed as a function of distance from the dispersive source for each of the ratios of building width to building height, and then these functions were made a function of the ratio of building width to building height. These new dispersion coefficients, which were a function of both the distance from the stack and the ratio of building width to building height, were then used

  1. [METHODS OF MODELING TEMPERATURE REGIMES IN TESTS OF POLYMER CONTAINING BUILDING MATERIALS AND FURNITURE FOR HOMES AND PUBLIC BUILDINGS].

    PubMed

    Dubova, G P; Chubirko, M I; Obolonskiy, M F; Khrapov, R Yu; Kamenev, V I

    2015-01-01

    This article is devoted to the modeling of temperature conditions in performance of research of polymer containing building materials and furniture. The authors draw attention to the different conditions of modeling used in the existing guidance documents, and provide a unified approach to this problem, namely in the performance of the study to use the temperature regime, which corresponds to the maximum value of the optimum temperature range for residential and industrial premises.

  2. Integration of a Generalised Building Model Into the Pose Estimation of Uas Images

    NASA Astrophysics Data System (ADS)

    Unger, J.; Rottensteiner, F.; Heipke, C.

    2016-06-01

    A hybrid bundle adjustment is presented that allows for the integration of a generalised building model into the pose estimation of image sequences. These images are captured by an Unmanned Aerial System (UAS) equipped with a camera flying in between the buildings. The relation between the building model and the images is described by distances between the object coordinates of the tie points and building model planes. Relations are found by a simple 3D distance criterion and are modelled as fictitious observations in a Gauss-Markov adjustment. The coordinates of model vertices are part of the adjustment as directly observed unknowns which allows for changes in the model. Results of first experiments using a synthetic and a real image sequence demonstrate improvements of the image orientation in comparison to an adjustment without the building model, but also reveal limitations of the current state of the method.

  3. Energy Savings Modeling and Inspection Guidelines for Commercial Building Federal Tax Deductions for Buildings in 2016 and Later

    SciTech Connect

    Deru, Michael; Field-Macumber, Kristin

    2016-09-01

    This document provides guidance for modeling and inspecting energy-efficient property in commercial buildings for certification of the energy and power cost savings related to Section 179D of the Internal Revenue Code (IRC) enacted in Section 1331 of the 2005 Energy Policy Act (EPAct) of 2005, noted in Internal Revenue Service (IRS) Notices 2006-52 (IRS 2006), 2008-40 (IRS 2008) and 2012-26 (IRS 2012), and updated by the Protecting Americans from Tax Hikes (PATH) Act of 2015. Specifically, Section 179D provides federal tax deductions for energy-efficient property related to a commercial building's envelope; interior lighting; heating, ventilating, and air conditioning (HVAC); and service hot water (SHW) systems. This document applies to buildings placed in service on or after January 1, 2016.

  4. Homology model building of the HMG-1 box structural domain.

    PubMed Central

    Baxevanis, A D; Bryant, S H; Landsman, D

    1995-01-01

    Nucleoproteins belonging to the HMG-1/2 family possess homologous domains approximately 75 amino acids in length. These domains, termed HMG-1 boxes, are highly structured, compact, and mediate the interaction between HMG-1 box-containing proteins and DNA in a variety of biological contexts. Homology model building experiments on HMG-1 box sequences 'threaded' through the 1H-NMR structure of an HMG-1 box from rat indicate that the domain does not have rigid sequence requirements for its formation. Energy calculations indicate that the structure of all HMG-1 box domains is stabilized primarily through hydrophobic interactions. We have found structural relationships in the absence of statistically significant sequence similarity, identifying several candidate proteins which could possibly assume the same three-dimensional conformation as the rat HMG-1 box motif. The threading technique provides a method by which significant structural similarities in a diverse protein family can be efficiently detected, and the 'structural alignment' derived by this method provides a rational basis through which phylogenetic relationships and the precise sites of interaction between HMG-1 box proteins and DNA can be deduced. Images PMID:7731789

  5. Coisotropic D8-branes and model-building

    NASA Astrophysics Data System (ADS)

    Font, Anamaría; Ibáñez, Luis E.; Marchesano, Fernando

    2006-09-01

    Up to now chiral type IIA vacua have been mostly based on intersecting D6-branes wrapping special Lagrangian 3-cycles on a CY3 manifold. We argue that there are additional BPS D-branes which have so far been neglected, and which seem to have interesting model-building features. They are coisotropic D8-branes, in the sense of Kapustin and Orlov. The D8-branes wrap 5-dimensional submanifolds of the CY3 which are trivial in homology, but contain a worldvolume flux that induces D6-brane charge on them. This induced D6-brane charge not only renders the D8-brane BPS, but also creates D = 4 chirality when two D8-branes intersect. We discuss in detail the case of a type IIA T6/(Bbb Z2 × Bbb Z2) orientifold, where we provide explicit examples of coisotropic D8-branes. We study the chiral spectrum, SUSY conditions, and effective field theory of different systems of D8-branes in this orientifold, and show how the magnetic fluxes generate a superpotential for untwisted Kähler moduli. Finally, using both D6-branes and coisotropic D8-branes we construct new examples of MSSM-like type IIA vacua.

  6. Processing heterogeneous biomass: overcoming the hurdles in model building.

    PubMed

    Buyel, Johannes F; Fischer, Rainer

    2013-01-01

    Plants have been developed as an alternative platform for the production of biopharmaceutical proteins, culminating recently with the FDA approval of the first plant-derived recombinant pharmaceutical enzyme for human use (ELELYSOÔ by Protalix Biotherapeutics). Among the many different plant-based technologies that have been proposed, transient expression mediated by Agrobacterium tumefaciens has proven to be particularly suitable for the rapid production of vaccines in response to emerging pandemics. However, one potential drawback of transient expression in whole plants is the large variation in recombinant protein expression levels among different leaves, which introduces a level of uncertainty in process design that can increase the regulatory burden and production costs. Transient expression is also used to test expression constructs prior to the longer and more expensive process of generating transgenic plants, and here the variation can produce misleading results leading to erroneous conclusions about the relative activity of different promoters and other regulatory elements. Such variation can be caused by loosely controlled environmental and process factors such incubation temperature, plant characteristics and the method and timing of harvesting. Here we discuss differences between transgenic plants and transient expression in intact plants, and their specific pitfalls for model building. We also highlight which aspects researchers should consider when using a DoE approach to investigate protein expression in plants, both for fundamental research and process development.

  7. Implementation of building information modeling in Malaysian construction industry

    NASA Astrophysics Data System (ADS)

    Memon, Aftab Hameed; Rahman, Ismail Abdul; Harman, Nur Melly Edora

    2014-10-01

    This study has assessed the implementation level of Building Information Modeling (BIM) in the construction industry of Malaysia. It also investigated several computer software packages facilitating BIM and challenges affecting its implementation. Data collection for this study was carried out using questionnaire survey among the construction practitioners. 95 completed forms of questionnaire received against 150 distributed questionnaire sets from consultant, contractor and client organizations were analyzed statistically. Analysis findings indicated that the level of implementation of BIM in the construction industry of Malaysia is very low. Average index method employed to assess the effectiveness of various software packages of BIM highlighted that Bentley construction, AutoCAD and ArchiCAD are three most popular and effective software packages. Major challenges to BIM implementation are it requires enhanced collaboration, add work to a designer, interoperability and needs enhanced collaboration. For improving the level of implementing BIM in Malaysian industry, it is recommended that a flexible training program of BIM for all practitioners must be created.

  8. A legume specific protein database (LegProt) improves the number of identified peptides, confidence scores and overall protein identification success rates for legume proteomics.

    PubMed

    Lei, Zhentian; Dai, Xinbin; Watson, Bonnie S; Zhao, Patrick X; Sumner, Lloyd W

    2011-07-01

    A legume specific protein database (LegProt) has been created containing sequences from seven legume species, i.e., Glycine max, Lotus japonicus, Medicago sativa, Medicago truncatula, Lupinusalbus, Phaseolus vulgaris, and Pisum sativum. The database consists of amino acid sequences translated from predicted gene models and 6-frame translations of tentative consensus (TC) sequences assembled from expressed sequence tags (ESTs) and singleton ESTs. This database was queried using mass spectral data for protein identification and identification success rates were compared to the NCBI nr database. Specifically, Mascot MS/MS ion searches of tandem nano-LC Q-TOFMS/MS mass spectral data showed that relative to the NCBI nr protein database, the LegProt database yielded a 54% increase in the average protein score (i.e., from NCBI nr 480 to LegProt 739) and a 50% increase in the average number of matched peptides (i.e., from NCBI nr 8 to LegProt 12). The overall identification success rate also increased from 88% (NCBI nr) to 93% (LegProt). Mascot peptide mass fingerprinting (PMF) searches of the LegProt database using MALDI-TOFMS data yielded a significant increase in the identification success rate from 19% (NCBI nr) to 34% (LegProt) while the average scores and average number of matched peptides showed insignificant changes. The results demonstrate that the LegProt database significantly increases legume protein identification success rates and the confidence levels compared to the commonly used NCBI nr. These improvements are primarily due to the presence of a large number of legume specific TC sequences in the LegProt database that were not found in NCBI nr. The LegProt database is freely available for download (http://bioinfo.noble.org/manuscript-support/legumedb) and will serve as a valuable resource for legume proteomics. Copyright © 2011 Elsevier Ltd. All rights reserved.

  9. Bowman-Birk inhibitors from legumes as colorectal chemopreventive agents

    PubMed Central

    Clemente, Alfonso; Arques, Maria del Carmen

    2014-01-01

    Aberrant functioning of serine proteases in inflammatory and carcinogenic processes within the gastrointestinal tract (GIT) has prompted scientists to investigate the potential of serine protease inhibitors, both natural and synthetic, as modulators of their proteolytic activities. Protease inhibitors of the Bowman-Birk type, a major protease inhibitor family in legume seeds, which inhibit potently and specifically trypsin- and chymotrypsin-like proteases, are currently being investigated as colorectal chemopreventive agents. Physiologically relevant amounts of Bowman-Birk inhibitors (BBI) can reach the large intestine in active form due to their extraordinary resistance to extreme conditions within the GIT. Studies in animal models have proven that dietary BBI from several legume sources, including soybean, pea, lentil and chickpea, can prevent or suppress carcinogenic and inflammatory processes within the GIT. Although the therapeutic targets and the action mechanism of BBI have not yet been elucidated, the emerging evidence suggests that BBI exert their preventive properties via protease inhibition; in this sense, serine proteases should be considered as primary targets in early stages of carcinogenesis. The validation of candidate serine proteases as therapeutic targets together with the identification, within the wide array of natural BBI variants, of the most potent and specific protease inhibitors, are necessary to better understand the potential of this protein family as colorectal chemopreventive agents. PMID:25132747

  10. TRUNCATULIX--a data warehouse for the legume community.

    PubMed

    Henckel, Kolja; Runte, Kai J; Bekel, Thomas; Dondrup, Michael; Jakobi, Tobias; Küster, Helge; Goesmann, Alexander

    2009-02-11

    Databases for either sequence, annotation, or microarray experiments data are extremely beneficial to the research community, as they centrally gather information from experiments performed by different scientists. However, data from different sources develop their full capacities only when combined. The idea of a data warehouse directly adresses this problem and solves it by integrating all required data into one single database - hence there are already many data warehouses available to genetics. For the model legume Medicago truncatula, there is currently no such single data warehouse that integrates all freely available gene sequences, the corresponding gene expression data, and annotation information. Thus, we created the data warehouse TRUNCATULIX, an integrative database of Medicago truncatula sequence and expression data. The TRUNCATULIX data warehouse integrates five public databases for gene sequences, and gene annotations, as well as a database for microarray expression data covering raw data, normalized datasets, and complete expression profiling experiments. It can be accessed via an AJAX-based web interface using a standard web browser. For the first time, users can now quickly search for specific genes and gene expression data in a huge database based on high-quality annotations. The results can be exported as Excel, HTML, or as csv files for further usage. The integration of sequence, annotation, and gene expression data from several Medicago truncatula databases in TRUNCATULIX provides the legume community with access to data and data mining capability not previously available. TRUNCATULIX is freely available at http://www.cebitec.uni-bielefeld.de/truncatulix/.

  11. [Sutural physical model building in the three-dimensional finite-element model of maxillofacial bones].

    PubMed

    Liu, Chang; Zhu, Xian-chun; Zhang, Xing; Tai, Yin-xia; Yan, Sen

    2011-02-01

    To build the physical model of four suturae which are related to the growth of maxilla in the three-dimensional finite-element model of maxillofacial bones. A 16 years old volunteer with individual normal occlusion, good periodontium health condition and without diseases of temporomandibular joint was chosen to be the material of modeling. The three-dimensional finite-element model of the volunteer's maxillofacial bones was built using the CT scan and the finite-element modeling method. Finally we built the physical model of four suturae which were related to the growth of maxilla in the model of maxillofacial bones. The model of maxillofacial bones with 86,575 nodes and 485,915 elements was generated. This model contained four suturae including sutura frontomaxillaris, sutura zygomaticomaxillaris, sutura temporozygomatica and sutura pterygopalatine. A three-dimensional finite-element model of maxillofacial bones with good biological similarity was developed.

  12. Building Restoration Operations Optimization Model Beta Version 1.0

    SciTech Connect

    2007-05-31

    The Building Restoration Operations Optimization Model (BROOM), developed by Sandia National Laboratories, is a software product designed to aid in the restoration of large facilities contaminated by a biological material. BROOM’s integrated data collection, data management, and visualization software improves the efficiency of cleanup operations, minimizes facility downtime, and provides a transparent basis for reopening the facility. Secure remote access to building floor plans Floor plan drawings and knowledge of the HVAC system are critical to the design and implementation of effective sampling plans. In large facilities, access to these data may be complicated by the sheer abundance and disorganized state they are often stored in. BROOM avoids potentially costly delays by providing a means of organizing and storing mechanical and floor plan drawings in a secure remote database that is easily accessed. Sampling design tools BROOM provides an array of tools to answer the question of where to sample and how many samples to take. In addition to simple judgmental and random sampling plans, the software includes two sophisticated methods of adaptively developing a sampling strategy. Both tools strive to choose sampling locations that best satisfy a specified objective (i.e. minimizing kriging variance) but use numerically different strategies to do so. Surface samples are collected early in the restoration process to characterize the extent of contamination and then again later to verify that the facility is safe to reenter. BROOM supports sample collection using a ruggedized PDA equipped with a barcode scanner and laser range finder. The PDA displays building floor drawings, sampling plans, and electronic forms for data entry. Barcodes are placed on sample containers for the purpose of tracking the specimen and linking acquisition data (i.e. location, surface type, texture) to laboratory results. Sample location is determined by activating the integrated laser

  13. Legume presence reduces the decomposition rate of non-legume roots, role of plant traits?

    NASA Astrophysics Data System (ADS)

    De Deyn, Gerlinde B.; Saar, Sirgi; Barel, Janna; Semchenko, Marina

    2016-04-01

    Plant litter traits are known to play an important role in the rate of litter decomposition and mineralization, both for aboveground and belowground litter. However also the biotic and abiotic environment in which the litter decomposes plays a significant role in the rate of decomposition. The presence of living plants may accelerate litter decomposition rates via a priming effects. The size of this effect is expected to be related to the traits of the litter. In this study we focus on root litter, given that roots and their link to ecosystem processes have received relatively little attention in trait-based research. To test the effect of a growing legume plant on root decomposition and the role of root traits in this we used dead roots of 7 different grassland species (comprising grasses, a forb and legumes), determined their C, N, P content and quantified litter mass loss after eight weeks of incubation in soil with and without white clover. We expected faster root decomposition with white clover, especially for root litter with low N content. In contrast we found slower decomposition of grass and forb roots which were poor in N (negative priming) in presence of white clover, while decomposition rates of legume roots were not affected by the presence of white clover. Overall we found that root decomposition can be slowed down in the presence of a living plant and that this effect depends on the traits of the decomposing roots, with a pronounced reduction in root litter poor in N and P, but not in the relatively nutrient-rich legume root litters. The negative priming effect of legume plants on non-legume litter decomposition may have resulted from preferential substrate utilisation by soil microbes.

  14. Hybrid LCA model for assessing the embodied environmental impacts of buildings in South Korea

    SciTech Connect

    Jang, Minho; Hong, Taehoon; Ji, Changyoon

    2015-01-15

    The assessment of the embodied environmental impacts of buildings can help decision-makers plan environment-friendly buildings and reduce environmental impacts. For a more comprehensive assessment of the embodied environmental impacts of buildings, a hybrid life cycle assessment model was developed in this study. The developed model can assess the embodied environmental impacts (global warming, ozone layer depletion, acidification, eutrophication, photochemical ozone creation, abiotic depletion, and human toxicity) generated directly and indirectly in the material manufacturing, transportation, and construction phases. To demonstrate the application and validity of the developed model, the environmental impacts of an elementary school building were assessed using the developed model and compared with the results of a previous model used in a case study. The embodied environmental impacts from the previous model were lower than those from the developed model by 4.6–25.2%. Particularly, human toxicity potential (13 kg C{sub 6}H{sub 6} eq.) calculated by the previous model was much lower (1965 kg C{sub 6}H{sub 6} eq.) than what was calculated by the developed model. The results indicated that the developed model can quantify the embodied environmental impacts of buildings more comprehensively, and can be used by decision-makers as a tool for selecting environment-friendly buildings. - Highlights: • The model was developed to assess the embodied environmental impacts of buildings. • The model evaluates GWP, ODP, AP, EP, POCP, ADP, and HTP as environmental impacts. • The model presents more comprehensive results than the previous model by 4.6–100%. • The model can present the HTP of buildings, which the previous models cannot do. • Decision-makers can use the model for selecting environment-friendly buildings.

  15. A Hierarchical Building Segmentation in Digital Surface Models for 3D Reconstruction

    PubMed Central

    Yan, Yiming; Gao, Fengjiao; Deng, Shupei; Su, Nan

    2017-01-01

    In this study, a hierarchical method for segmenting buildings in a digital surface model (DSM), which is used in a novel framework for 3D reconstruction, is proposed. Most 3D reconstructions of buildings are model-based. However, the limitations of these methods are overreliance on completeness of the offline-constructed models of buildings, and the completeness is not easily guaranteed since in modern cities buildings can be of a variety of types. Therefore, a model-free framework using high precision DSM and texture-images buildings was introduced. There are two key problems with this framework. The first one is how to accurately extract the buildings from the DSM. Most segmentation methods are limited by either the terrain factors or the difficult choice of parameter-settings. A level-set method are employed to roughly find the building regions in the DSM, and then a recently proposed ‘occlusions of random textures model’ are used to enhance the local segmentation of the buildings. The second problem is how to generate the facades of buildings. Synergizing with the corresponding texture-images, we propose a roof-contour guided interpolation of building facades. The 3D reconstruction results achieved by airborne-like images and satellites are compared. Experiments show that the segmentation method has good performance, and 3D reconstruction is easily performed by our framework, and better visualization results can be obtained by airborne-like images, which can be further replaced by UAV images. PMID:28125018

  16. The effect of simplifying the building description on the numerical modeling of its thermal performance

    SciTech Connect

    Stetiu, C.

    1993-07-01

    A thermal building simulation program is a numerical model that calculates the response of the building envelopes to weather and human activity, simulates dynamic heating and cooling loads, and heating and cooling distribution systems, and models building equipment operation. The scope of the research is to supply the users of such programs with information about the dangers and benefits of simplifying the input to their models. The Introduction describes the advantages of modeling the heat transfer mechanisms in a building. The programs that perform this type of modeling have, however, limitations. The user is therefore often put in the situation of simplifying the floor plans of the building under study, but not being able to check the effects that this approximation introduces in the results of the simulation. Chapter 1 is a description of methods. It also introduces the floor plans for the office building under study and the ``reasonable`` floor plans simplifications. Chapter 2 presents DOE-2, the thermal building simulation program used in the sensitivity study. The evaluation of the accuracy of the DOE-2 program itself is also presented. Chapter 3 contains the sensitivity study. The complicated nature of the process of interpreting the temperature profile inside a space leads to the necessity of defining different building modes. The study compares the results from the model of the detailed building description with the results from the models of the same building having simplified floor plans. The conclusion is reached that a study of the effects of simplifying the floor plans of a building is important mainly for defining the cases in which this approximation is acceptable. Different results are obtained for different air conditioning/load regimes of the building. 9 refs., 24 figs.

  17. Semantic Bim and GIS Modelling for Energy-Efficient Buildings Integrated in a Healthcare District

    NASA Astrophysics Data System (ADS)

    Sebastian, R.; Böhms, H. M.; Bonsma, P.; van den Helm, P. W.

    2013-09-01

    The subject of energy-efficient buildings (EeB) is among the most urgent research priorities in the European Union (EU). In order to achieve the broadest impact, innovative approaches to EeB need to resolve challenges at the neighbourhood level, instead of only focusing on improvements of individual buildings. For this purpose, the design phase of new building projects as well as building retrofitting projects is the crucial moment for integrating multi-scale EeB solutions. In EeB design process, clients, architects, technical designers, contractors, and end-users altogether need new methods and tools for designing energy-efficiency buildings integrated in their neighbourhoods. Since the scope of designing covers multiple dimensions, the new design methodology relies on the inter-operability between Building Information Modelling (BIM) and Geospatial Information Systems (GIS). Design for EeB optimisation needs to put attention on the inter-connections between the architectural systems and the MEP/HVAC systems, as well as on the relation of Product Lifecycle Modelling (PLM), Building Management Systems (BMS), BIM and GIS. This paper is descriptive and it presents an actual EU FP7 large-scale collaborative research project titled STREAMER. The research on the inter-operability between BIM and GIS for holistic design of energy-efficient buildings in neighbourhood scale is supported by real case studies of mixed-use healthcare districts. The new design methodology encompasses all scales and all lifecycle phases of the built environment, as well as the whole lifecycle of the information models that comprises: Building Information Model (BIM), Building Assembly Model (BAM), Building Energy Model (BEM), and Building Operation Optimisation Model (BOOM).

  18. Simplified floor-area-based energy-moisture-economic model for residential buildings

    NASA Astrophysics Data System (ADS)

    Martinez, Luis A.

    In the United States, 21% of all energy is used in residential buildings (40% of which is for heating and cooling homes). Promising improvements in residential building energy efficiency are underway such as the Building America Program and the Passive House Concept. The ability of improving energy efficiency in buildings is enhanced by building energy modeling tools, which are well advanced and established but lack generality (each building has to be modeled individually) and require high cost, which limits many residential buildings from taking advantage of such powerful tools. This dissertation attempts to develop guidelines based on a per-building-floor-area basis for designing residential buildings that achieve maximum energy efficiency and minimum life cycle cost. Energy and moisture-mass conservation principles were formulated for residential buildings on a per-building-floor-area basis. This includes thermal energy balance, moisture-mass conservation and life cycle cost. The analysis also includes the effects of day-lighting, initial cost estimation and escalation rates. The model was implemented on Excel so it is available for broader audiences and was validated using the standard BESTEST validation procedure for energy models yielding satisfactory results for different scenarios, within a 90% confidence interval. Using the model, parametric optimization studies were conducted in order to study how each variable affects energy and life cycle cost. An efficient whole-building optimization procedure was developed to determine the optimal design based on key design parameters. Whole-building optimization studies were conducted for 12 climate zones using four different criteria: minimum energy consumption, minimum life cycle cost (35 years) using constant energy costs and minimum life cycle cost (35 years) varying escalation rates (-5%, 10%). Conclusions and recommendations were inferred on how to design an optimal house, using each criterion and for all

  19. Evaluation of state-of-the-art parametric building wake models using computational fluid dynamics (CFD) computer codes, and development of building wake, plume rise, and dispersion models

    NASA Astrophysics Data System (ADS)

    Restrepo, Louis Fernando

    The close location of most DOE non-reactor nuclear facilities to site boundaries and the potential for having receptors in the proximity of such facilities makes it extremely important to accurately address the impact of plume rise and building wake effects on the consequences to such individuals. Unfortunately, there is no current single computer code or model that adequately address the consequences to receptors postulated to be located within the building wake of such facilities. Existing state-of-the-art models have relied on over- simplistic plume rise and parametric wake models that were developed based on very limited amount of data or assumptions, thus potentially leading to large errors in calculations. Building wake and plume rise models implemented in existing consequence computer codes have been identified and evaluated. These models come from an extensive literature review of dispersion, transport, and consequence modeling of airborne radioactive material releases that extends over 25 years. This dissertation focuses on the evaluation of existing state-of-the-art parametric building wake dispersion models by the use of computational fluid dynamic (CFD) codes, developing potential improvements to such models, and comparing the results of such improvements to those generated by CFD models and models implemented in state- of-the-art computer codes. This dissertation also presents new dispersion models and a new analytical parametric model to deal with transient releases that decay or transform during transport.

  20. Legume Plants Enhance the Resistance of Soil to Ecosystem Disturbance

    PubMed Central

    Gao, Dandan; Wang, Xiaoling; Fu, Shenglei; Zhao, Jie

    2017-01-01

    Cultivation of legume plants is well known to improve soil N level and net primary productivity; besides, it may deliver other ecosystem benefits such as increasing soil carbon sequestration and soil food web complexity. However, little is known about whether legumes can improve the resistance of soils to ecosystem disturbances. In the present study, we compared the resistance of soils to an ecosystem disturbance (understory removal) in the presence or absence of a legume species (Cassia alata) in mixed tree species plantations in southern China. Soil physico-chemical and biotic properties were employed to quantify the resistance of soils to understory removal. Our results showed that the resistance indices of soil water content, omnivorous-predacious nematode abundance and nematode channel index to understory removal were greater in the presence of legumes than those without legumes in wet season. The resistance indices of fungal to bacterial ratio, fungivorous nematode abundance and total arthropod abundance were greater in the presence of legume than those without legume species in dry season. Our results indicate that legumes may enhance the resistances of soil physico-chemical and biological properties to the ecosystem disturbance. Our findings could provide a better understanding of the myriad ways in which legumes can positively affect ecosystem functioning. PMID:28785277

  1. Legume Plants Enhance the Resistance of Soil to Ecosystem Disturbance.

    PubMed

    Gao, Dandan; Wang, Xiaoling; Fu, Shenglei; Zhao, Jie

    2017-01-01

    Cultivation of legume plants is well known to improve soil N level and net primary productivity; besides, it may deliver other ecosystem benefits such as increasing soil carbon sequestration and soil food web complexity. However, little is known about whether legumes can improve the resistance of soils to ecosystem disturbances. In the present study, we compared the resistance of soils to an ecosystem disturbance (understory removal) in the presence or absence of a legume species (Cassia alata) in mixed tree species plantations in southern China. Soil physico-chemical and biotic properties were employed to quantify the resistance of soils to understory removal. Our results showed that the resistance indices of soil water content, omnivorous-predacious nematode abundance and nematode channel index to understory removal were greater in the presence of legumes than those without legumes in wet season. The resistance indices of fungal to bacterial ratio, fungivorous nematode abundance and total arthropod abundance were greater in the presence of legume than those without legume species in dry season. Our results indicate that legumes may enhance the resistances of soil physico-chemical and biological properties to the ecosystem disturbance. Our findings could provide a better understanding of the myriad ways in which legumes can positively affect ecosystem functioning.

  2. Model for Naturally Ventilated Cavities on the Exteriors of Opaque Building Thermal Envelopes

    SciTech Connect

    Griffith, B.

    2006-11-01

    This paper describes a model for naturally ventilated cavities on the exterior of opaque building thermal envelopes that are formed by the presence of a lightweight baffle. The model can be used for building components that are slightly detached from the main envelope (but do not connect to the interior).

  3. Institutional Approaches to Innovation and Change: A Review of the Esman Model of Institution Building.

    ERIC Educational Resources Information Center

    Bhola, H. S.

    The definitional and conceptual structure of the Esman model of institution building is described in great detail, emphasizing its philosophic and process assumptions and its latent dynamics. The author systematically critiques the Esman model in terms of its (1) specificity to the universe of institution building, (2) generalizability across…

  4. Integrating Smartphone Images and Airborne LIDAR Data for Complete Urban Building Modelling

    NASA Astrophysics Data System (ADS)

    Zhang, Shenman; Shan, Jie; Zhang, Zhichao; Yan, Jixing; Hou, Yaolin

    2016-06-01

    A complete building model reconstruction needs data collected from both air and ground. The former often has sparse coverage on building façades, while the latter usually is unable to observe the building rooftops. Attempting to solve the missing data issues in building reconstruction from single data source, we describe an approach for complete building reconstruction that integrates airborne LiDAR data and ground smartphone imagery. First, by taking advantages of GPS and digital compass information embedded in the image metadata of smartphones, we are able to find airborne LiDAR point clouds for the corresponding buildings in the images. In the next step, Structure-from-Motion and dense multi-view stereo algorithms are applied to generate building point cloud from multiple ground images. The third step extracts building outlines respectively from the LiDAR point cloud and the ground image point cloud. An automated correspondence between these two sets of building outlines allows us to achieve a precise registration and combination of the two point clouds, which ultimately results in a complete and full resolution building model. The developed approach overcomes the problem of sparse points on building façades in airborne LiDAR and the deficiency of rooftops in ground images such that the merits of both datasets are utilized.

  5. Structural system identification of buildings by a wave method based on a layered Timoshenko beam model

    NASA Astrophysics Data System (ADS)

    Ebrahimian, Mahdi; Todorovska, Maria I.

    2014-03-01

    A layered Timoshenko beam (TB) model of a high-rise building is presented and applied to system identification of a full-scale building from recorded seismic response. This model is a new development in a wave method for earthquake damage detection and structural health monitoring being developed by the authors' research group. The method is based on monitoring changes in the wave properties of the structure, such as the velocity of wave propagation vertically through the structure. This model is an improvement over the previously used layered shear beam (SB) model because it accounts for wave dispersion caused by flexural deformation present in addition to shear. It also accounts for the rotatory inertia and the variation of the building properties with height. The case study is a 54-story steel frame building located in downtown Los Angeles. Recorded accelerations during the Northridge earthquake of 1994 are used for system identification of the NS response. The model parameters are identified by matching, in the least squares sense, the model and observed impulse response functions at all levels where motion was recorded. The model is then used to compute the building vertical phase and group velocities. Impulse responses computed by deconvolution of the recorded motions with the roof response are used, which represent the building response to a virtual source at the roof. The better match of transfer-function amplitudes of the fitted TB model than of previously fitted SB model indicates that the layered TB model is a better physical model for this building.

  6. Building Finite Element Models to Investigate Zebrafish Jaw Biomechanics

    PubMed Central

    Brunt, Lucy H.; Roddy, Karen A.; Rayfield, Emily J.; Hammond, Chrissy L.

    2016-01-01

    Skeletal morphogenesis occurs through tightly regulated cell behaviors during development; many cell types alter their behavior in response to mechanical strain. Skeletal joints are subjected to dynamic mechanical loading. Finite element analysis (FEA) is a computational method, frequently used in engineering that can predict how a material or structure will respond to mechanical input. By dividing a whole system (in this case the zebrafish jaw skeleton) into a mesh of smaller 'finite elements', FEA can be used to calculate the mechanical response of the structure to external loads. The results can be visualized in many ways including as a 'heat map' showing the position of maximum and minimum principal strains (a positive principal strain indicates tension while a negative indicates compression. The maximum and minimum refer the largest and smallest strain). These can be used to identify which regions of the jaw and therefore which cells are likely to be under particularly high tensional or compressional loads during jaw movement and can therefore be used to identify relationships between mechanical strain and cell behavior. This protocol describes the steps to generate Finite Element models from confocal image data on the musculoskeletal system, using the zebrafish lower jaw as a practical example. The protocol leads the reader through a series of steps: 1) staining of the musculoskeletal components, 2) imaging the musculoskeletal components, 3) building a 3 dimensional (3D) surface, 4) generating a mesh of Finite Elements, 5) solving the FEA and finally 6) validating the results by comparison to real displacements seen in movements of the fish jaw. PMID:28060270

  7. Review of development survey of phase change material models in building applications.

    PubMed

    Akeiber, Hussein J; Wahid, Mazlan A; Hussen, Hasanen M; Mohammad, Abdulrahman Th

    2014-01-01

    The application of phase change materials (PCMs) in green buildings has been increasing rapidly. PCM applications in green buildings include several development models. This paper briefly surveys the recent research and development activities of PCM technology in building applications. Firstly, a basic description of phase change and their principles is provided; the classification and applications of PCMs are also included. Secondly, PCM models in buildings are reviewed and discussed according to the wall, roof, floor, and cooling systems. Finally, conclusions are presented based on the collected data.

  8. Review of Development Survey of Phase Change Material Models in Building Applications

    PubMed Central

    Akeiber, Hussein J.; Wahid, Mazlan A.; Hussen, Hasanen M.; Mohammad, Abdulrahman Th.

    2014-01-01

    The application of phase change materials (PCMs) in green buildings has been increasing rapidly. PCM applications in green buildings include several development models. This paper briefly surveys the recent research and development activities of PCM technology in building applications. Firstly, a basic description of phase change and their principles is provided; the classification and applications of PCMs are also included. Secondly, PCM models in buildings are reviewed and discussed according to the wall, roof, floor, and cooling systems. Finally, conclusions are presented based on the collected data. PMID:25313367

  9. A geometry and texture coupled flexible generalization of urban building models

    NASA Astrophysics Data System (ADS)

    Zhang, Man; Zhang, Liqiang; Takis Mathiopoulos, P.; Xie, Wenqing; Ding, Yusi; Wang, Hao

    2012-06-01

    In the past, numerous research efforts have focused on generalization of city building models. However, a generic procedure for creating flexible generalization results supporting the fast and efficient update of original building models with various complexities is still an open problem. Moreover, building clusters created in previously published generalization methods are not flexible enough to meet the various requirements for both legible and realistic visualization. Motivated by these observations, this paper proposes a new method for generating a flexible generalization outcome which enables convenient updating of original building models. It also proposes a flexible preprocessing of this generalized information to render a legible and realistic urban scene. This is accomplished by introducing a novel component structure, termed as FEdge, particularly designed for efficiently managing the geometry and texture information in building cluster instances (both original building models and building clusters) during the generalization, visualization and updating processes. Furthermore, a multiple representation structure, referred to as Evolved Buffer-Tree (EBT), is also introduced. The purpose of the EBT is to organize building cluster instances and to employ more flexible LODs for both legible and realistic visualization of urban scenes. FEdge has an intuitive planar shape which can be effectively used in representing rough 3D facade composed by detailed continuous meshes. Each FEdge is given a unique identifier, referred to as FEdge Index. In the proposed generalization scheme, firstly each original building model treated as a building cluster instance is abstracted and presented as FEdge Indices. These FEdge Indices are then used for producing generalized building cluster instances in the EBT portably, and to support convenient model updating and flexible preprocessing of the generalization results for renderable building cluster instances. Secondly, to achieve

  10. Development of a 1D canopy module to couple mesoscale meteorogical model with building energy model

    NASA Astrophysics Data System (ADS)

    Mauree, Dasaraden; Kohler, Manon; Blond, Nadège; Clappier, Alain

    2013-04-01

    The actual global warming, highlighted by the scientific community, is due to the greenhouse gases emissions resulting from our energy consumption. This energy is mainly produced in cities (about 70% of the total energy use). Around 36% of this energy are used in buildings (residential/tertiary) and this accounts for about 20% of the greenhouse gases emissions. Moreover, the world population is more and more concentrated in urban areas, 50% of the actual world population already lives in cities and this ratio is expected to reach 70% by 2050. With the obviously increasing responsibility of cities in climate change in the future, it is of great importance to go toward more sustainable cities that would reduce the energy consumption in urban areas. The energy use inside buildings is driven by two factors: (1) the level of comfort wished by the inhabitants and (2) the urban climate. On the other hand, the urban climate is influenced by the presence of buildings. Indeed, artificial surfaces of urban areas modify the energy budget of the Earth's surface and furthermore, heat is released into the atmosphere due to the energy used by buildings. Modifications at the building scale (micro-scale) can thus have an influence on the climate of the urban areas and surroundings (meso-scale), and vice and versa. During the last decades, meso-scale models have been developed to simulate the atmospheric conditions for domain of 100-1000km wide with a resolution of few kilometers. Due to their low resolution, the effects of small obstacles (such as buildings, trees, ...) near the ground are not reproduced properly and parameterizations have been developed to represent such effects in meso-scale models. On the other side, micro-scale models have a higher resolution (around 1 meter) and consequently can better simulate the impact of obstacles on the atmospheric heat flux exchanges with the earth surface. However, only a smaller domain (less than 1km) can be simulated for the same

  11. Use of Energy and Other Monitored Data to Calibrate a Whole Building Energy Model

    NASA Astrophysics Data System (ADS)

    Reddy, David

    This thesis documents an approach to utilize energy and other measured data to improve the calibration of a whole building energy model. Each chapter documents important steps of the process, and provides building energy analysts with insight on how to use this information to improve modeling assumptions, and hence energy model predictions. Important components of the study included creation of a custom, annual simulation weather file, designing and implementing an electrical sub-metering system, and disaggregating electrical energy use by model zone and energy end-use. Data and information were aggregated to create a DOE-2.2 whole building energy model, and the incremental improvement in model calibration was demonstrated as input assumptions were refined. The results of this study show accurate description of dynamic model inputs, particularly inputs that describe occupant's manipulation of building systems, was the most influential factor affecting energy model calibration.

  12. ADDRESSING HUMAN EXPOSURES TO AIR POLLUTANTS AROUND BUILDINGS IN URBAN AREAS WITH COMPUTATIONAL FLUID DYNAMICS MODELS

    EPA Science Inventory

    This paper discusses the status and application of Computational Fluid Dynamics (CFD) models to address challenges for modeling human exposures to air pollutants around urban building microenvironments. There are challenges for more detailed understanding of air pollutant sour...

  13. ADDRESSING HUMAN EXPOSURES TO AIR POLLUTANTS AROUND BUILDINGS IN URBAN AREAS WITH COMPUTATIONAL FLUID DYNAMICS MODELS

    EPA Science Inventory

    This paper discusses the status and application of Computational Fluid Dynamics (CFD) models to address challenges for modeling human exposures to air pollutants around urban building microenvironments. There are challenges for more detailed understanding of air pollutant sour...

  14. A New Model for Building Digital Science Education Collections

    NASA Astrophysics Data System (ADS)

    Niepold, F.; McCaffrey, M.; Morrill, C.; Ganse, J.; Weston, T.

    2005-12-01

    The Polar Regions play an integral role in how our Earth system operates. However, the Polar Regions are marginally studied in the K-12 classroom in the United States. The International Polar Year's (IPY) coordinated campaign of polar observations, research, and analysis that will be multidisciplinary in scope and international in participation offers a powerful opportunity for K-12 classroom. The IPY's scientific objective to better understand the key roles of the Polar Regions in global processes will allow students a window into the poles and this unique regions role in the Earth system. IPY will produce careful, useful scientific information that will advance our understanding of the Polar Regions and their connections to the rest of the globe. The IPY is an opportunity to inspire the next generation of very young Earth system scientists. The IPY's draft education & outreach position paper asks a key question that must guide future educational projects; "Why is the polar regions and polar research important to all people on earth?" In efforts to coordinate educational activities and collaborate with international projects, United States national agencies, and other educational initiatives, it is the purpose of this session to explore potential partnerships, while primarily recommending a model for educational product development and review. During such a large international science endeavor, numerous educational activities and opportunities are developed, but these educational programs can suffer from too many unconnected options being available to teachers and students. Additionally, activities often are incompatible with each other making classroom implementation unnecessarily complex and prohibitively time consuming for teachers. A newly develop educational activity collection technique developed for DLESE offers an effective model for IPY product gap analysis and development. The Climate Change Collection developed as a pilot project for the Digital Library

  15. Automated 3D modelling of buildings from aerial and space imagery using image understanding techniques

    NASA Astrophysics Data System (ADS)

    Kim, Taejung

    The development of a fully automated mapping system is one of the fundamental goals in photogrammetry and remote sensing. As an approach towards this goal, this thesis describes the work carried out in the automated 3D modelling of buildings in urban scenes. The whole work is divided into three parts: the development of an automated height extraction system, the development of an automated building detection system, and the combination of these two systems. After an analysis of the key problems of urban-area imagery for stereo matching, buildings were found to create isolated regions and blunders. From these findings, an automated building height extraction system was developed. This stereoscopic system is based on a pyramidal (area-based) matching algorithm with automatic seed points and a tile-based control strategy. To remove possible blunders and extract buildings from other background objects, a series of "smart" operations using linear elements from buildings were also applied. A new monoscopic building detection system was developed based on a graph constructed from extracted lines and their relations. After extracting lines from a single image using low-level image processing techniques, line relations are searched for and a graph constructed. By finding closed loops in the graph, building hypotheses are generated. These are then merged and verified using shadow analysis and perspective geometry. After verification, each building hypothesis indicates either a building or a part of a building. By combining results from these two systems, 3D building roofs can be modelled automatically. The modelling is performed using height information obtained from the height extraction system and interpolation boundaries obtained from the building detection system. Other fusion techniques and the potential improvements due to these are also discussed. Quantitative analysis was performed for each algorithm presented in this thesis and the results support the newly

  16. Spatial arrangement, population density and legume species effect of yield of forage sorghum-legume intercropping

    USDA-ARS?s Scientific Manuscript database

    Sorghum (Sorghum bicolor) is a stress tolerant forage crop grown extensively in the Southern High Plains. However, sorghum forage quality is lower than that of corn. Intercropping sorghum with legumes can improve quality and productivity of forage. However, tall statured sorghum limits the resources...

  17. Urban weather data and building models for the inclusion of the urban heat island effect in building performance simulation.

    PubMed

    Palme, M; Inostroza, L; Villacreses, G; Lobato, A; Carrasco, C

    2017-10-01

    This data article presents files supporting calculation for urban heat island (UHI) inclusion in building performance simulation (BPS). Methodology is used in the research article "From urban climate to energy consumption. Enhancing building performance simulation by including the urban heat island effect" (Palme et al., 2017) [1]. In this research, a Geographical Information System (GIS) study is done in order to statistically represent the most important urban scenarios of four South-American cities (Guayaquil, Lima, Antofagasta and Valparaíso). Then, a Principal Component Analysis (PCA) is done to obtain reference Urban Tissues Categories (UTC) to be used in urban weather simulation. The urban weather files are generated by using the Urban Weather Generator (UWG) software (version 4.1 beta). Finally, BPS is run out with the Transient System Simulation (TRNSYS) software (version 17). In this data paper, four sets of data are presented: 1) PCA data (excel) to explain how to group different urban samples in representative UTC; 2) UWG data (text) to reproduce the Urban Weather Generation for the UTC used in the four cities (4 UTC in Lima, Guayaquil, Antofagasta and 5 UTC in Valparaíso); 3) weather data (text) with the resulting rural and urban weather; 4) BPS models (text) data containing the TRNSYS models (four building models).

  18. Principles of model building: an experimentation-aided approach to development of models for signaling networks.

    PubMed

    Ganesan, Ambhighainath; Levchenko, Andre

    2012-01-01

    Living cells continuously probe their environment and respond to a multitude of external cues. The information about the environment is carried by signaling cascades that act as "internal transducing and computing modules," coupled into complex and interconnected networks. A comprehensive understanding of how cells make decisions therefore necessitates a sound theoretical framework, which can be achieved through mathematical modeling of the signaling networks. In this chapter, we conceptually describe the typical workflow involved in building mathematical models that are motivated by and are developed in a tight integration with experimental analysis. In particular, we delineate the steps involved in a generic, iterative experimentation-driven model-building process, both through informal discussion and using a recently published study as an example. Experiments guide the initial development of mathematical models, including choice of appropriate template model and parameter revision. The model can then be used to generate and test hypotheses quickly and inexpensively, aiding in judicious design of future experiments. These experiments, in turn, are used to update the model. The model developed at the end of this exercise not only predicts functional behavior of the system under study but also provides insight into the biophysical underpinnings of signaling networks.

  19. Work-related illness in offices: A proposed model of the sick building syndrome

    SciTech Connect

    Hedge, A. ); Burge, P.S.; Robertson, A.S. ); Wilson, S. ); Harris-Bass, J. )

    1989-01-01

    A nationwide survey of 4,373 office workers at 47 office sites was conducted to assess the prevalence of the sick building syndrome and to investigate associated factors. The office buildings sampled included those ventilated by either natural, mechanical, or forced air, or by air conditioning or some form of comfort cooling, including fan-coil, induction, and constant or variable air volume systems. Results showed a higher prevalence of reports of work-related symptoms in air conditioned buildings than in unconditioned buildings. Symptom prevalence was higher in buildings ventilated with water-based cooling systems, e.g., fan-coil or induction systems, than in buildings with all-air systems. A significant relationship was found between the type of humidification used in air-conditioned buildings (none, evaporative/spray, or steam) and the prevalence of itchy eyes, stuffy nose, lethargy, breathing difficulty, and chest tightness. Results also suggest that the sick building syndrome is associated with a variety of individual characteristics (sex, age), occupational factors (job type, length of video display unit use, occupancy duration in building, job stress), architectural features (type of office, type of building ventilation system), and psychological processes (perceived environmental control, perceived ambient conditions, perceived environmental satisfaction). A path analytic model is presented that suggests that psychological processes mediate the association between individual, occupational, and environmental characteristics and reports of the sick building syndrome.

  20. Phytohormone regulation of legume-rhizobia interactions.

    PubMed

    Ferguson, Brett J; Mathesius, Ulrike

    2014-07-01

    The symbiosis between legumes and nitrogen fixing bacteria called rhizobia leads to the formation of root nodules. Nodules are highly organized root organs that form in response to Nod factors produced by rhizobia, and they provide rhizobia with a specialized niche to optimize nutrient exchange and nitrogen fixation. Nodule development and invasion by rhizobia is locally controlled by feedback between rhizobia and the plant host. In addition, the total number of nodules on a root system is controlled by a systemic mechanism termed 'autoregulation of nodulation'. Both the local and the systemic control of nodulation are regulated by phytohormones. There are two mechanisms by which phytohormone signalling is altered during nodulation: through direct synthesis by rhizobia and through indirect manipulation of the phytohormone balance in the plant, triggered by bacterial Nod factors. Recent genetic and physiological evidence points to a crucial role of Nod factor-induced changes in the host phytohormone balance as a prerequisite for successful nodule formation. Phytohormones synthesized by rhizobia enhance symbiosis effectiveness but do not appear to be necessary for nodule formation. This review provides an overview of recent advances in our understanding of the roles and interactions of phytohormones and signalling peptides in the regulation of nodule infection, initiation, positioning, development, and autoregulation. Future challenges remain to unify hormone-related findings across different legumes and to test whether hormone perception, response, or transport differences among different legumes could explain the variety of nodules types and the predisposition for nodule formation in this plant family. In addition, the molecular studies carried out under controlled conditions will need to be extended into the field to test whether and how phytohormone contributions by host and rhizobial partners affect the long term fitness of the host and the survival and

  1. Gene expression profiling of M. truncatula transcription factors identifies putative regulators of grain legume seed filling.

    PubMed

    Verdier, Jérôme; Kakar, Klementina; Gallardo, Karine; Le Signor, Christine; Aubert, Grégoire; Schlereth, Armin; Town, Christopher D; Udvardi, Michael K; Thompson, Richard D

    2008-08-01

    Legume seeds represent a major source of proteins for human and livestock diets. The model legume Medicago truncatula is characterized by a process of seed development very similar to that of other legumes, involving the interplay of sets of transcription factors (TFs). Here, we report the first expression profiling of over 700 M. truncatula genes encoding putative TFs throughout seven stages of seed development, obtained using real-time quantitative RT-PCR. A total of 169 TFs were selected which were expressed at late embryogenesis, seed filling or desiccation. The site of expression within the seed was examined for 41 highly expressed transcription factors out of the 169. To identify possible target genes for these TFs, the data were combined with a microarray-derived transcriptome dataset. This study identified 17 TFs preferentially expressed in individual seed tissues and 135 corresponding co-expressed genes, including possible targets. Certain of the TFs co-expressed with storage protein mRNAs correspond to those already known to regulate seed storage protein synthesis in Arabidopsis, whereas the timing of expression of others may be more specifically related to the delayed expression of the legumin-class storage proteins observed in legumes.

  2. Supercomputer Assisted Generation of Machine Learning Agents for the Calibration of Building Energy Models

    SciTech Connect

    Sanyal, Jibonananda; New, Joshua Ryan; Edwards, Richard

    2013-01-01

    Building Energy Modeling (BEM) is an approach to model the energy usage in buildings for design and retrot pur- poses. EnergyPlus is the agship Department of Energy software that performs BEM for dierent types of buildings. The input to EnergyPlus can often extend in the order of a few thousand parameters which have to be calibrated manu- ally by an expert for realistic energy modeling. This makes it challenging and expensive thereby making building en- ergy modeling unfeasible for smaller projects. In this paper, we describe the \\Autotune" research which employs machine learning algorithms to generate agents for the dierent kinds of standard reference buildings in the U.S. building stock. The parametric space and the variety of building locations and types make this a challenging computational problem necessitating the use of supercomputers. Millions of En- ergyPlus simulations are run on supercomputers which are subsequently used to train machine learning algorithms to generate agents. These agents, once created, can then run in a fraction of the time thereby allowing cost-eective cali- bration of building models.

  3. Legume Resources: MtDB and Medicago.Org.

    PubMed

    Retzel, Ernest F; Johnson, James E; Crow, John A; Lamblin, Anne F; Paule, Charles E

    2007-01-01

    To identify the genes and gene functions that underlie key aspects of legume biology, researchers have selected the cool season legume Medicago truncatula as a model system for legume research. The mission of the M. truncatula Consortium is to promote unrestricted sharing of data and information that are provided by Medicago research groups worldwide. Through integration of a variety of data and tools, the medicago.org site intends to facilitate progress in the fields of structural, comparative, and functional genomics. To this goal, and as a consortium partner, the Center for Computational Genomics and Bioinformatics (CCGB) at the University of Minnesota has developed MtDB2.0, the M. truncatula database version 2.0. The MtDB2.0 database is the first step toward the global integration of M. truncatula genomic, genetic, and biological information. MtDB2.0 is a relational database that integrates M. truncatula transcriptome data and provides a wide range of user-defined data mining options. The database is interrogated through a series of interfaces, with 58 options grouped into two filters. Sequence identifiers from all public M. truncatula sites [e.g., IDs from GenBank, CCGB, The Institute for Genomic Research (TIGR), National Center for Genome Resources (NCGR), and I'Institut National de la Recherche Agronomique (INRA)] are fully cross-referenced to facilitate comparisons between different sites, and hypertext links to the appropriate database records are provided for all queries' results. MtDB's goal is to provide researchers with the means to quickly and independently identify sequences that match specific research interests based on user-defined criteria. MtDB2.0 offers unrestricted access to advanced and powerful querying tools unmatched by any other public databases. Structurad Query Language (SQL)-encoded queries with a Java-based Web user interface, incorporate different filtering that allow sophisticated data mining of the expressed sequence tag sequencing

  4. Using Models to Provide Predicted Ranges for Building-Human Interfaces: Preprint

    SciTech Connect

    Long, N.; Scheib, J.; Pless, S.; Schott, M.

    2013-09-01

    Most building energy consumption dashboards provide only a snapshot of building performance; whereas some provide more detailed historic data with which to compare current usage. This paper will discuss the Building Agent(tm) platform, which has been developed and deployed in a campus setting at the National Renewable Energy Laboratory as part of an effort to maintain the aggressive energyperformance achieved in newly constructed office buildings and laboratories. The Building Agent(tm) provides aggregated and coherent access to building data, including electric energy, thermal energy, temperatures, humidity, and lighting levels, and occupant feedback, which are displayed in various manners for visitors, building occupants, facility managers, and researchers. This paper focuseson the development of visualizations for facility managers, or an energy performance assurance role, where metered data are used to generate models that provide live predicted ranges of building performance by end use. These predicted ranges provide simple, visual context for displayed performance data without requiring users to also assess historical information or trends. Several energymodelling techniques were explored including static lookup-based performance targets, reduced-order models derived from historical data using main effect variables such as solar radiance for lighting performance, and integrated energy models using a whole-building energy simulation program.

  5. Modeling Best Practice through Online Learning: Building Relationships

    ERIC Educational Resources Information Center

    Cerniglia, Ellen G.

    2011-01-01

    Students may fear that they will feel unsupported and isolated when engaged in online learning. They don't know how they will be able to build relationships with their teacher and classmates solely based on written words, without facial expressions, tone of voice, and other nonverbal communication cues. Traditionally, online learning required…

  6. Evaluating The Impact Of Building Information Modeling (BIM) On Construction

    DTIC Science & Technology

    2009-01-01

    Building Owners and Managers Association ASC Associated Schools of Construction AtoN Aids to Navigation (USCG) BEP Business Enterprise Priority...accountability (RPA) and recognized Real Property & Installations Lifecycle Management (RP&ILM) as a Business Enterprise Priority ( BEP .) In November 2003

  7. Exposure Modeling for Polychlorinated Biphenyls in School Buildings

    EPA Science Inventory

    There is limited research on characterizing exposures from PCB sources for occupants of school buildings. PCB measurement results from six schools were used to estimate potential exposure distributions for four age groups (4-5, 6-10, 11-14, 14-18 year-olds) using the Stochastic...

  8. Exposure Modeling for Polychlorinated Biphenyls in School Buildings

    EPA Science Inventory

    There is limited research on characterizing exposures from PCB sources for occupants of school buildings. PCB measurement results from six schools were used to estimate potential exposure distributions for four age groups (4-5, 6-10, 11-14, 14-18 year-olds) using the Stochastic...

  9. Modeling Best Practice through Online Learning: Building Relationships

    ERIC Educational Resources Information Center

    Cerniglia, Ellen G.

    2011-01-01

    Students may fear that they will feel unsupported and isolated when engaged in online learning. They don't know how they will be able to build relationships with their teacher and classmates solely based on written words, without facial expressions, tone of voice, and other nonverbal communication cues. Traditionally, online learning required…

  10. Improving germination and establishment of Great Basin legumes

    USDA-ARS?s Scientific Manuscript database

    As part of the Great Basin Native Plant Selection and Increase Project, we have collected and evaluated several native western legumes. Germplasm releases were made, but much work remains to be done concerning how to establish these legumes for seed production and on rangelands. We report herein h...

  11. Alignment of 3D Building Models and TIR Video Sequences with Line Tracking

    NASA Astrophysics Data System (ADS)

    Iwaszczuk, D.; Stilla, U.

    2014-11-01

    Thermal infrared imagery of urban areas became interesting for urban climate investigations and thermal building inspections. Using a flying platform such as UAV or a helicopter for the acquisition and combining the thermal data with the 3D building models via texturing delivers a valuable groundwork for large-area building inspections. However, such thermal textures are useful for further analysis if they are geometrically correctly extracted. This can be achieved with a good coregistrations between the 3D building models and thermal images, which cannot be achieved by direct georeferencing. Hence, this paper presents methodology for alignment of 3D building models and oblique TIR image sequences taken from a flying platform. In a single image line correspondences between model edges and image line segments are found using accumulator approach and based on these correspondences an optimal camera pose is calculated to ensure the best match between the projected model and the image structures. Among the sequence the linear features are tracked based on visibility prediction. The results of the proposed methodology are presented using a TIR image sequence taken from helicopter in a densely built-up urban area. The novelty of this work is given by employing the uncertainty of the 3D building models and by innovative tracking strategy based on a priori knowledge from the 3D building model and the visibility checking.

  12. A Framework for Building and Reasoning with Adaptive and Interoperable PMESII Models

    DTIC Science & Technology

    2007-11-01

    27 Figure 12: High-Level Core System Dynamics Model in Ptolemy ...models. The candidate PMESII graphical modeling paradigms reviewed during our investigations included Ptolemy models, causal graphs, concept...under the supervision of John Salerno building a system-dynamics model using the Ptolemy tool from the University of Berkeley. We received a sample

  13. ThreadedComposite: A Mechanism for Building Concurrent and Parallel Ptolemy II Models

    DTIC Science & Technology

    2008-12-07

    ThreadedComposite: A Mechanism for Building Concurrent and Parallel Ptolemy II Models Edward A. Lee Electrical Engineering and Computer Sciences...Concurrent and Parallel Ptolemy II Models 5a. CONTRACT NUMBER 5b. GRANT NUMBER 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR(S) 5d. PROJECT NUMBER 5e. TASK...Instruments, and Toyota. ThreadedComposite: A Mechanism for Building Concurrent and Parallel Ptolemy II Models ∗ Edward A. Lee UC Berkeley eal

  14. A Financing Model to Solve Financial Barriers for Implementing Green Building Projects

    PubMed Central

    Lee, Baekrae; Kim, Juhyung; Kim, Jaejun

    2013-01-01

    Along with the growing interest in greenhouse gas reduction, the effect of greenhouse gas energy reduction from implementing green buildings is gaining attention. The government of the Republic of Korea has set green growth as its paradigm for national development, and there is a growing interest in energy saving for green buildings. However, green buildings may have financial barriers that have high initial construction costs and uncertainties about future project value. Under the circumstances, governmental support to attract private funding is necessary to implement green building projects. The objective of this study is to suggest a financing model for facilitating green building projects with a governmental guarantee based on Certified Emission Reduction (CER). In this model, the government provides a guarantee for the increased costs of a green building project in return for CER. And this study presents the validation of the model as well as feasibility for implementing green building project. In addition, the suggested model assumed governmental guarantees for the increased cost, but private guarantees seem to be feasible as well because of the promising value of the guarantee from CER. To do this, certification of Clean Development Mechanisms (CDMs) for green buildings must be obtained. PMID:24376379

  15. A financing model to solve financial barriers for implementing green building projects.

    PubMed

    Lee, Sanghyo; Lee, Baekrae; Kim, Juhyung; Kim, Jaejun

    2013-01-01

    Along with the growing interest in greenhouse gas reduction, the effect of greenhouse gas energy reduction from implementing green buildings is gaining attention. The government of the Republic of Korea has set green growth as its paradigm for national development, and there is a growing interest in energy saving for green buildings. However, green buildings may have financial barriers that have high initial construction costs and uncertainties about future project value. Under the circumstances, governmental support to attract private funding is necessary to implement green building projects. The objective of this study is to suggest a financing model for facilitating green building projects with a governmental guarantee based on Certified Emission Reduction (CER). In this model, the government provides a guarantee for the increased costs of a green building project in return for CER. And this study presents the validation of the model as well as feasibility for implementing green building project. In addition, the suggested model assumed governmental guarantees for the increased cost, but private guarantees seem to be feasible as well because of the promising value of the guarantee from CER. To do this, certification of Clean Development Mechanisms (CDMs) for green buildings must be obtained.

  16. Building sector: state of the market and two models on how to reach it

    SciTech Connect

    Holtz, M. J.

    1980-08-30

    Two subjects related to marketing solar energy in the buildings sector are discussed: first, the market size defined in terms of number of housing units and square feet of commercial floor space and their energy use characteristics and, second, several models SERI has developed and is using to move solar energy/energy efficiency into the mainstream of residential and commercial building construction. (MHR)

  17. Modeling, research and development of the system for optimal heat consumption of a building

    NASA Astrophysics Data System (ADS)

    Kovalnogov, Vladislav N.; Chamchiyan, Yuri E.; Suranov, Dmitry V.

    2016-06-01

    The work sets out the technical, software and organizational and methodological solutions for automated management and optimization of a building's heat consumption. It shows the results of modeling and research on the effectiveness of the automated system of heat consumption control of the main building of Ulyanovsk State Technical University.

  18. Object-Oriented Database for Managing Building Modeling Components and Metadata: Preprint

    SciTech Connect

    Long, N.; Fleming, K.; Brackney, L.

    2011-12-01

    Building simulation enables users to explore and evaluate multiple building designs. When tools for optimization, parametrics, and uncertainty analysis are combined with analysis engines, the sheer number of discrete simulation datasets makes it difficult to keep track of the inputs. The integrity of the input data is critical to designers, engineers, and researchers for code compliance, validation, and building commissioning long after the simulations are finished. This paper discusses an application that stores inputs needed for building energy modeling in a searchable, indexable, flexible, and scalable database to help address the problem of managing simulation input data.

  19. [Examination and composition of some legume seeds (author's transl)].

    PubMed

    Nierle, W; el Wahab el Bayâ, A

    1977-05-26

    The chemical composition of some legume seeds is reviewed. It was found that soy (Glycine soja), field beans (Vicia faba), Vicia sativa and Lens culingris (red seeds) have the highest protein content. There were only minor differences in amino acid composition except for glutamic acid. The lysine content of legume seeds was high. Lysine is the most limiting essential amino acid in cereal proteins, therefore cereal products can be improved nutritionally by addition of legume seed flour. Examination of polar lipids by thin layer chromatography revealed that lecithin, phosphatidyl ethanolamine and phosphatidyl inositol were the major components. However, Lupinus angustifolius contained two unknown polar lipid classes.--In contrary to previous literature the ripe legume seeds contained only a very small amount of galactosyl diglycerides; however legume seeds contain higher amounts of the compounds. The conection between biosynthesis of linolenic acid and the presence of galactosyl diglycerides in higher plants is discussed.

  20. Legumes steam allergy in childhood: Update of the reported cases.

    PubMed

    Vitaliti, G; Pavone, P; Spataro, G; Giunta, L; Guglielmo, F; Falsaperla, R

    2015-01-01

    In the past few decades, the prevalence of allergic diseases has deeply increased, with a key role played by food allergies. Legumes seem to play a major role towards the overall increase in the scenario of food allergy, since they are an appreciated source, consumed worldwide, due to their high protein content, variable amounts of lipids and for the presence of vitamins. In literature there are numerous descriptions of adverse reactions after ingestion of uncooked and cooked legumes. Nevertheless, cases of allergic reactions induced by inhaling vapours from cooking legumes have rarely been described. Herein the authors report an update of the literature data on allergic reactions caused by legume steam inhalation, underlying the possible pathogenic mechanism of these atopic events and the knowledge of literature data in paediatric age. The importance of this review is the focus on the clinical aspects concerning legume vapour allergy, referring to literature data in childhood.

  1. Dendrimer building toolkit: model building and characterization of various dendrimer architectures.

    PubMed

    Maingi, Vishal; Jain, Vaibhav; Bharatam, Prasad V; Maiti, Prabal K

    2012-09-30

    We have developed a graphical user interface based dendrimer builder toolkit (DBT) which can be used to generate the dendrimer configuration of desired generation for various dendrimer architectures. The validation of structures generated by this tool was carried out by studying the structural properties of two well known classes of dendrimers: ethylenediamine cored poly(amidoamine) (PAMAM) dendrimer, diaminobutyl cored poly(propylene imine) (PPI) dendrimer. Using full atomistic molecular dynamics (MD) simulation we have calculated the radius of gyration, shape tensor and monomer density distribution for PAMAM and PPI dendrimer at neutral and high pH. A good agreement between the available simulation and experimental (small angle X-ray and neutron scattering; SAXS, SANS) results and calculated radius of gyration was observed. With this validation we have used DBT to build another new class of nitrogen cored poly(propyl ether imine) dendrimer and study it's structural features using all atomistic MD simulation. DBT is a versatile tool and can be easily used to generate other dendrimer structures with different chemistry and topology. The use of general amber force field to describe the intra-molecular interactions allows us to integrate this tool easily with the widely used molecular dynamics software AMBER. This makes our tool a very useful utility which can help to facilitate the study of dendrimer interaction with nucleic acids, protein and lipid bilayer for various biological applications.

  2. Stochastic Modeling of Overtime Occupancy and Its Application in Building Energy Simulation and Calibration

    SciTech Connect

    Sun, Kaiyu; Yan, Da; Hong, Tianzhen; Guo, Siyue

    2014-02-28

    Overtime is a common phenomenon around the world. Overtime drives both internal heat gains from occupants, lighting and plug-loads, and HVAC operation during overtime periods. Overtime leads to longer occupancy hours and extended operation of building services systems beyond normal working hours, thus overtime impacts total building energy use. Current literature lacks methods to model overtime occupancy because overtime is stochastic in nature and varies by individual occupants and by time. To address this gap in the literature, this study aims to develop a new stochastic model based on the statistical analysis of measured overtime occupancy data from an office building. A binomial distribution is used to represent the total number of occupants working overtime, while an exponential distribution is used to represent the duration of overtime periods. The overtime model is used to generate overtime occupancy schedules as an input to the energy model of a second office building. The measured and simulated cooling energy use during the overtime period is compared in order to validate the overtime model. A hybrid approach to energy model calibration is proposed and tested, which combines ASHRAE Guideline 14 for the calibration of the energy model during normal working hours, and a proposed KS test for the calibration of the energy model during overtime. The developed stochastic overtime model and the hybrid calibration approach can be used in building energy simulations to improve the accuracy of results, and better understand the characteristics of overtime in office buildings.

  3. Development and evaluation of a building energy model integrated in the TEB scheme

    NASA Astrophysics Data System (ADS)

    Bueno, B.; Pigeon, G.; Norford, L. K.; Zibouche, K.

    2011-11-01

    The use of air-conditioning systems is expected to increase as a consequence of global-scale and urban-scale climate warming. In order to represent future scenarios of urban climate and building energy consumption, the Town Energy Budget (TEB) scheme must be improved. This paper presents a new building energy model (BEM) that has been integrated in the TEB scheme. BEM-TEB makes it possible to represent the energy effects of buildings and building systems on the urban climate and to estimate the building energy consumption at city scale (~10 km) with a resolution of a neighbourhood (~100 m). The physical and geometric definition of buildings in BEM has been intentionally kept as simple as possible, while maintaining the required features of a comprehensive building energy model. The model considers a single thermal zone, where the thermal inertia of building materials associated with multiple levels is represented by a generic thermal mass. The model accounts for heat gains due to transmitted solar radiation, heat conduction through the enclosure, infiltration, ventilation, and internal heat gains. As a difference with respect to other building parameterizations used in urban climate, BEM includes specific models for real air-conditioning systems. It accounts for the dependence of the system capacity and efficiency on indoor and outdoor air temperatures and solves the dehumidification of the air passing through the system. Furthermore, BEM includes specific models for passive systems, such as window shadowing devices and natural ventilation. BEM has satisfactorily passed different evaluation processes, including testing its modelling assumptions, verifying that the chosen equations are solved correctly, and validating the model with field data.

  4. Global Synthesis of Drought Effects on Food Legume Production

    PubMed Central

    Daryanto, Stefani; Wang, Lixin; Jacinthe, Pierre-André

    2015-01-01

    Food legume crops play important roles in conservation farming systems and contribute to food security in the developing world. However, in many regions of the world, their production has been adversely affected by drought. Although water scarcity is a severe abiotic constraint of legume crops productivity, it remains unclear how the effects of drought co-vary with legume species, soil texture, agroclimatic region, and drought timing. To address these uncertainties, we collected literature data between 1980 and 2014 that reported monoculture legume yield responses to drought under field conditions, and analyzed this data set using meta-analysis techniques. Our results showed that the amount of water reduction was positively related with yield reduction, but the extent of the impact varied with legume species and the phenological state during which drought occurred. Overall, lentil (Lens culinaris), groundnut (Arachis hypogaea), and pigeon pea (Cajanus cajan) were found to experience lower drought-induced yield reduction compared to legumes such as cowpea (Vigna unguiculata) and green gram (Vigna radiate). Yield reduction was generally greater when legumes experienced drought during their reproductive stage compared to during their vegetative stage. Legumes grown in soil with medium texture also exhibited greater yield reduction compared to those planted on soil of either coarse or fine texture. In contrast, regions and their associated climatic factors did not significantly affect legume yield reduction. In the face of changing climate, our study provides useful information for agricultural planning and research directions for development of drought-resistant legume species to improve adaptation and resilience of agricultural systems in the drought-prone regions of the world. PMID:26061704

  5. Global Synthesis of Drought Effects on Food Legume Production.

    PubMed

    Daryanto, Stefani; Wang, Lixin; Jacinthe, Pierre-André

    2015-01-01

    Food legume crops play important roles in conservation farming systems and contribute to food security in the developing world. However, in many regions of the world, their production has been adversely affected by drought. Although water scarcity is a severe abiotic constraint of legume crops productivity, it remains unclear how the effects of drought co-vary with legume species, soil texture, agroclimatic region, and drought timing. To address these uncertainties, we collected literature data between 1980 and 2014 that reported monoculture legume yield responses to drought under field conditions, and analyzed this data set using meta-analysis techniques. Our results showed that the amount of water reduction was positively related with yield reduction, but the extent of the impact varied with legume species and the phenological state during which drought occurred. Overall, lentil (Lens culinaris), groundnut (Arachis hypogaea), and pigeon pea (Cajanus cajan) were found to experience lower drought-induced yield reduction compared to legumes such as cowpea (Vigna unguiculata) and green gram (Vigna radiate). Yield reduction was generally greater when legumes experienced drought during their reproductive stage compared to during their vegetative stage. Legumes grown in soil with medium texture also exhibited greater yield reduction compared to those planted on soil of either coarse or fine texture. In contrast, regions and their associated climatic factors did not significantly affect legume yield reduction. In the face of changing climate, our study provides useful information for agricultural planning and research directions for development of drought-resistant legume species to improve adaptation and resilience of agricultural systems in the drought-prone regions of the world.

  6. Building Energy Modeling and Control Methods for Optimization and Renewables Integration

    NASA Astrophysics Data System (ADS)

    Burger, Eric M.

    This dissertation presents techniques for the numerical modeling and control of building systems, with an emphasis on thermostatically controlled loads. The primary objective of this work is to address technical challenges related to the management of energy use in commercial and residential buildings. This work is motivated by the need to enhance the performance of building systems and by the potential for aggregated loads to perform load following and regulation ancillary services, thereby enabling the further adoption of intermittent renewable energy generation technologies. To increase the generalizability of the techniques, an emphasis is placed on recursive and adaptive methods which minimize the need for customization to specific buildings and applications. The techniques presented in this dissertation can be divided into two general categories: modeling and control. Modeling techniques encompass the processing of data streams from sensors and the training of numerical models. These models enable us to predict the energy use of a building and of sub-systems, such as a heating, ventilation, and air conditioning (HVAC) unit. Specifically, we first present an ensemble learning method for the short-term forecasting of total electricity demand in buildings. As the deployment of intermittent renewable energy resources continues to rise, the generation of accurate building-level electricity demand forecasts will be valuable to both grid operators and building energy management systems. Second, we present a recursive parameter estimation technique for identifying a thermostatically controlled load (TCL) model that is non-linear in the parameters. For TCLs to perform demand response services in real-time markets, online methods for parameter estimation are needed. Third, we develop a piecewise linear thermal model of a residential building and train the model using data collected from a custom-built thermostat. This model is capable of approximating unmodeled

  7. Building a sustainable comprehensive Women's Health Program: the Michigan model.

    PubMed

    Rogers, Juliet L; Johnson, Timothy R B; Warner, Patricia; Thorson, Jayne A; Punch, Margaret R

    2007-01-01

    The Women's Health Program at the University of Michigan was established in 1993 and has developed into a successful, federally supported program that links clinical research and education activities across the University. It has focused on human resource capacity building, sustainable financial support and infrastructure, and adaptability to change and opportunities. Widely accepted standards, demonstrated value, committed leaders/champions, and participatory culture have contributed to its success and are important to its future.

  8. Visual-SOLAR: Modeling and Visualization of Solar Radiation Potential on Individual Building Rooftops

    SciTech Connect

    2013-05-01

    We have developed a modeling framework for estimating solar radiation potentials on individual building rooftops that is suitable for utility-scale applications as well as building-specific applications. The framework uses light detection and ranging (LIDAR) data at approximately 1-meter horizontal resolution and 0.3-meter vertical resolution as input for modeling a large number of buildings quickly. One of the strengths of this framework is the ability to parallelize its implementation. Furthermore, the framework accounts for building specific characteristics, such as roof slope, roof aspect, and shadowing effects, that are critical to roof-mounted photovoltaic system. The resulting data has helped us to identify the so-called "solar panel sweet spots" on individual building rooftops and obtain accurate statistics of the variation in solar radiation as a function of time of year and geographical location.

  9. Modeling of Heat Transfer in Rooms in the Modelica "Buildings" Library

    SciTech Connect

    Wetter, Michael; Zuo, Wangda; Nouidui, Thierry Stephane

    2011-11-01

    This paper describes the implementation of the room heat transfer model in the free open-source Modelica \\Buildings" library. The model can be used as a single room or to compose a multizone building model. We discuss how the model is decomposed into submodels for the individual heat transfer phenomena. We also discuss the main physical assumptions. The room model can be parameterized to use different modeling assumptions, leading to linear or non-linear differential algebraic systems of equations. We present numerical experiments that show how these assumptions affect computing time and accuracy for selected cases of the ANSI/ASHRAE Standard 140- 2007 envelop validation tests.

  10. Evaluation of the Effective Moisture Penetration Depth Model for Estimating Moisture Buffering in Buildings

    SciTech Connect

    Woods, J.; Winkler, J.; Christensen, D.

    2013-01-01

    This study examines the effective moisture penetration depth (EMPD) model, and its suitability for building simulations. The EMPD model is a compromise between the simple, inaccurate effective capacitance approach and the complex, yet accurate, finite-difference approach. Two formulations of the EMPD model were examined, including the model used in the EnergyPlus building simulation software. An error in the EMPD model we uncovered was fixed with the release of EnergyPlus version 7.2, and the EMPD model in earlier versions of EnergyPlus should not be used.

  11. Evaluation of the Effective Moisture Penetration Depth Model for Estimating Moisture Buffering in Buildings

    SciTech Connect

    Woods, J.; Winkler, J.; Christensen, D.

    2013-01-01

    This study examines the effective moisture penetration depth (EMPD) model, and its suitability for building simulations. The EMPD model is a compromise between the simple, inaccurate effective capacitance approach and the complex, yet accurate, finite-difference approach. Two formulations of the EMPD model were examined, including the model used in the EnergyPlus building simulation software. An error in the EMPD model we uncovered was fixed with the release of EnergyPlus version 7.2, and the EMPD model in earlier versions of EnergyPlus should not be used.

  12. Integrated wetland management: an analysis with group model building based on system dynamics model.

    PubMed

    Chen, Hsin; Chang, Yang-Chi; Chen, Kung-Chen

    2014-12-15

    The wetland system possesses diverse functions such as preserving water sources, mediating flooding, providing habitats for wildlife and stabilizing coastlines. Nonetheless, rapid economic growth and the increasing population have significantly deteriorated the wetland environment. To secure the sustainability of the wetland, it is essential to introduce integrated and systematic management. This paper examines the resource management of the Jiading Wetland by applying group model building (GMB) and system dynamics (SD). We systematically identify local stakeholders' mental model regarding the impact brought by the yacht industry, and further establish a SD model to simulate the dynamic wetland environment. The GMB process improves the stakeholders' understanding about the interaction between the wetland environment and management policies. Differences between the stakeholders' perceptions and the behaviors shown by the SD model also suggest that our analysis would facilitate the stakeholders to broaden their horizons and achieve consensus on the wetland resource management.

  13. Effectiveness of Training Model Capacity Building for Entrepreneurship Women Based Empowerment Community

    ERIC Educational Resources Information Center

    Idawati; Mahmud, Alimuddin; Dirawan, Gufran Darma

    2016-01-01

    The purpose of this research was to determine the effectiveness of a training model for capacity building of women entrepreneurship community-based. Research type approach Research and Development Model, which refers to the model of development research that developed by Romiszowki (1996) combined with a model of development Sugiono (2011) it was…

  14. Implementing a Technology-Supported Model for Cross-Organisational Learning and Knowledge Building for Teachers

    ERIC Educational Resources Information Center

    Tammets, Kairit; Pata, Kai; Laanpere, Mart

    2012-01-01

    This study proposed using the elaborated learning and knowledge building model (LKB model) derived from Nonaka and Takeuchi's knowledge management model for supporting cross-organisational teacher development in the temporarily extended organisations composed of universities and schools. It investigated the main LKB model components in the context…

  15. Implementing a Technology-Supported Model for Cross-Organisational Learning and Knowledge Building for Teachers

    ERIC Educational Resources Information Center

    Tammets, Kairit; Pata, Kai; Laanpere, Mart

    2012-01-01

    This study proposed using the elaborated learning and knowledge building model (LKB model) derived from Nonaka and Takeuchi's knowledge management model for supporting cross-organisational teacher development in the temporarily extended organisations composed of universities and schools. It investigated the main LKB model components in the context…

  16. Semi-Automatic Building Models and FAÇADE Texture Mapping from Mobile Phone Images

    NASA Astrophysics Data System (ADS)

    Jeong, J.; Kim, T.

    2016-06-01

    Research on 3D urban modelling has been actively carried out for a long time. Recently the need of 3D urban modelling research is increased rapidly due to improved geo-web services and popularized smart devices. Nowadays 3D urban models provided by, for example, Google Earth use aerial photos for 3D urban modelling but there are some limitations: immediate update for the change of building models is difficult, many buildings are without 3D model and texture, and large resources for maintaining and updating are inevitable. To resolve the limitations mentioned above, we propose a method for semi-automatic building modelling and façade texture mapping from mobile phone images and analyze the result of modelling with actual measurements. Our method consists of camera geometry estimation step, image matching step, and façade mapping step. Models generated from this method were compared with actual measurement value of real buildings. Ratios of edge length of models and measurements were compared. Result showed 5.8% average error of length ratio. Through this method, we could generate a simple building model with fine façade textures without expensive dedicated tools and dataset.

  17. Comparative genomics and prediction of conditionally dispensable sequences in legume-infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectors.

    PubMed

    Williams, Angela H; Sharma, Mamta; Thatcher, Louise F; Azam, Sarwar; Hane, James K; Sperschneider, Jana; Kidd, Brendan N; Anderson, Jonathan P; Ghosh, Raju; Garg, Gagan; Lichtenzveig, Judith; Kistler, H Corby; Shea, Terrance; Young, Sarah; Buck, Sally-Anne G; Kamphuis, Lars G; Saxena, Rachit; Pande, Suresh; Ma, Li-Jun; Varshney, Rajeev K; Singh, Karam B

    2016-03-05

    Soil-borne fungi of the Fusarium oxysporum species complex cause devastating wilt disease on many crops including legumes that supply human dietary protein needs across many parts of the globe. We present and compare draft genome assemblies for three legume-infecting formae speciales (ff. spp.): F. oxysporum f. sp. ciceris (Foc-38-1) and f. sp. pisi (Fop-37622), significant pathogens of chickpea and pea respectively, the world's second and third most important grain legumes, and lastly f. sp. medicaginis (Fom-5190a) for which we developed a model legume pathosystem utilising Medicago truncatula. Focusing on the identification of pathogenicity gene content, we leveraged the reference genomes of Fusarium pathogens F. oxysporum f. sp. lycopersici (tomato-infecting) and F. solani (pea-infecting) and their well-characterised core and dispensable chromosomes to predict genomic organisation in the newly sequenced legume-infecting isolates. Dispensable chromosomes are not essential for growth and in Fusarium species are known to be enriched in host-specificity and pathogenicity-associated genes. Comparative genomics of the publicly available Fusarium species revealed differential patterns of sequence conservation across F. oxysporum formae speciales, with legume-pathogenic formae speciales not exhibiting greater sequence conservation between them relative to non-legume-infecting formae speciales, possibly indicating the lack of a common ancestral source for legume pathogenicity. Combining predicted dispensable gene content with in planta expression in the model legume-infecting isolate, we identified small conserved regions and candidate effectors, four of which shared greatest similarity to proteins from another legume-infecting ff. spp. We demonstrate that distinction of core and potential dispensable genomic regions of novel F. oxysporum genomes is an effective tool to facilitate effector discovery and the identification of gene content possibly linked to host

  18. Fire modeling for Building 221-T - T Plant Canyon Deck and Railroad Tunnel

    SciTech Connect

    Oar, D.L.

    1994-09-29

    This report was prepared by Hughes Associates, Inc. to document the results of fire models for building 221-T Canyon Deck and Railroad Tunnel. Backup data is contained in document No. WHC-SD-CP-ANAL-010, Rev. 0.

  19. Comparing EM Models to RCS Measurements for Building-Penetration Radar

    SciTech Connect

    Fasenfest, B; Ueberschaer, R

    2007-05-18

    For the DARPA VisiBuilding program, SRI International and Lawrence Livermore National Laboratory are using a variety of electromagnetic (EM) simulation codes and measurement techniques to analyze how radar pulses interact with building structures and materials. Of primary interest is how interior wall and corner reflections are delayed, attenuated, and dispersed by the exterior wall materials. In this paper, we compare microwave frequency-domain radar cross section (RCS) chamber measurements of scale models of simple buildings to finite-element and finite-difference full-wave time-domain and ray-tracing models. The ability to accurately reconstruct the building from these models is compared with the reconstruction from chamber measurements. We observe that careful attention to the spatial sampling in the EM models is essential to achieving good reconstruction at the higher frequencies.

  20. Automated Translation and Thermal Zoning of Digital Building Models for Energy Analysis

    SciTech Connect

    Jones, Nathaniel L.; McCrone, Colin J.; Walter, Bruce J.; Pratt, Kevin B.; Greenberg, Donald P.

    2013-08-26

    Building energy simulation is valuable during the early stages of design, when decisions can have the greatest impact on energy performance. However, preparing digital design models for building energy simulation typically requires tedious manual alteration. This paper describes a series of five automated steps to translate geometric data from an unzoned CAD model into a multi-zone building energy model. First, CAD input is interpreted as geometric surfaces with materials. Second, surface pairs defining walls of various thicknesses are identified. Third, normal directions of unpaired surfaces are determined. Fourth, space boundaries are defined. Fifth, optionally, settings from previous simulations are applied, and spaces are aggregated into a smaller number of thermal zones. Building energy models created quickly using this method can offer guidance throughout the design process.

  1. Model Standards and Techniques for Control of Radon in New Residential Buildings

    EPA Pesticide Factsheets

    This document is intended to serve as a model for use to develop and adopt building codes, appendices to codes, or standards specifically applicable to unique local or regional radon control requirements.

  2. Automated macromolecular model building for X-ray crystallography using ARP/wARP version 7.

    PubMed

    Langer, Gerrit; Cohen, Serge X; Lamzin, Victor S; Perrakis, Anastassis

    2008-01-01

    ARP/wARP is a software suite to build macromolecular models in X-ray crystallography electron density maps. Structural genomics initiatives and the study of complex macromolecular assemblies and membrane proteins all rely on advanced methods for 3D structure determination. ARP/wARP meets these needs by providing the tools to obtain a macromolecular model automatically, with a reproducible computational procedure. ARP/wARP 7.0 tackles several tasks: iterative protein model building including a high-level decision-making control module; fast construction of the secondary structure of a protein; building flexible loops in alternate conformations; fully automated placement of ligands, including a choice of the best-fitting ligand from a 'cocktail'; and finding ordered water molecules. All protocols are easy to handle by a nonexpert user through a graphical user interface or a command line. The time required is typically a few minutes although iterative model building may take a few hours.

  3. Evaluation of “Autotune” calibration against manual calibration of building energy models

    SciTech Connect

    Chaudhary, Gaurav; New, Joshua; Sanyal, Jibonananda; Im, Piljae; O’Neill, Zheng; Garg, Vishal

    2016-08-26

    Our paper demonstrates the application of Autotune, a methodology aimed at automatically producing calibrated building energy models using measured data, in two case studies. In the first case, a building model is de-tuned by deliberately injecting faults into more than 60 parameters. This model was then calibrated using Autotune and its accuracy with respect to the original model was evaluated in terms of the industry-standard normalized mean bias error and coefficient of variation of root mean squared error metrics set forth in ASHRAE Guideline 14. In addition to whole-building energy consumption, outputs including lighting, plug load profiles, HVAC energy consumption, zone temperatures, and other variables were analyzed. In the second case, Autotune calibration is compared directly to experts’ manual calibration of an emulated-occupancy, full-size residential building with comparable calibration results in much less time. Lastly, our paper concludes with a discussion of the key strengths and weaknesses of auto-calibration approaches.

  4. A Working Model of Protein Synthesis Using Lego(TM) Building Blocks.

    ERIC Educational Resources Information Center

    Templin, Mark A.; Fetters, Marcia K.

    2002-01-01

    Uses Lego building blocks to improve the effectiveness of teaching about protein synthesis. Provides diagrams and pictures for a 2-3 day student activity. Discusses mRNA, transfer RNA, and a protein synthesis model. (MVL)

  5. Evaluation of “Autotune” calibration against manual calibration of building energy models

    SciTech Connect

    Chaudhary, Gaurav; New, Joshua; Sanyal, Jibonananda; Im, Piljae; O’Neill, Zheng; Garg, Vishal

    2016-08-26

    Our paper demonstrates the application of Autotune, a methodology aimed at automatically producing calibrated building energy models using measured data, in two case studies. In the first case, a building model is de-tuned by deliberately injecting faults into more than 60 parameters. This model was then calibrated using Autotune and its accuracy with respect to the original model was evaluated in terms of the industry-standard normalized mean bias error and coefficient of variation of root mean squared error metrics set forth in ASHRAE Guideline 14. In addition to whole-building energy consumption, outputs including lighting, plug load profiles, HVAC energy consumption, zone temperatures, and other variables were analyzed. In the second case, Autotune calibration is compared directly to experts’ manual calibration of an emulated-occupancy, full-size residential building with comparable calibration results in much less time. Lastly, our paper concludes with a discussion of the key strengths and weaknesses of auto-calibration approaches.

  6. A Working Model of Protein Synthesis Using Lego(TM) Building Blocks.

    ERIC Educational Resources Information Center

    Templin, Mark A.; Fetters, Marcia K.

    2002-01-01

    Uses Lego building blocks to improve the effectiveness of teaching about protein synthesis. Provides diagrams and pictures for a 2-3 day student activity. Discusses mRNA, transfer RNA, and a protein synthesis model. (MVL)

  7. Seismic response modeling of multi-story buildings using neural networks

    NASA Astrophysics Data System (ADS)

    Conte, Joel P.; Durrani, Ahmad J.; Shelton, Robert O.

    1994-05-01

    A neural network based approach to model the seismic response of multi-story frame buildings is presented. The seismic response of frames is emulated using multi-layer feedforward neural networks with a backpropagation learning algorithm. Actual earthquake accelerograms and corresponding structural response obtained from analytical models of buildings are used in training the neural networks. The application of the neural network model is demonstrated by studying one to six story high building frames subjected to seismic base excitation. Furthermore, the learning ability of the network is examined for the case of multiple inputs where lateral forces at floor levels are included simultaneously with the base excitation. The effects of the network parameters on learning and accuracy of predictions are discussed. Based on this study, it is found that appropriately configured neural network models can successfully learn and simulate the linear elastic dynamic behavior of multi-story buildings.

  8. Legumes are different: Leaf nitrogen, photosynthesis, and water use efficiency.

    PubMed

    Adams, Mark Andrew; Turnbull, Tarryn L; Sprent, Janet I; Buchmann, Nina

    2016-04-12

    Using robust, pairwise comparisons and a global dataset, we show that nitrogen concentration per unit leaf mass for nitrogen-fixing plants (N2FP; mainly legumes plus some actinorhizal species) in nonagricultural ecosystems is universally greater (43-100%) than that for other plants (OP). This difference is maintained across Koppen climate zones and growth forms and strongest in the wet tropics and within deciduous angiosperms. N2FP mostly show a similar advantage over OP in nitrogen per leaf area (Narea), even in arid climates, despite diazotrophy being sensitive to drought. We also show that, for most N2FP, carbon fixation by photosynthesis (Asat) and stomatal conductance (gs) are not related to Narea-in distinct challenge to current theories that place the leaf nitrogen-Asat relationship at the center of explanations of plant fitness and competitive ability. Among N2FP, only forbs displayed an Narea-gs relationship similar to that for OP, whereas intrinsic water use efficiency (WUEi; Asat/gs) was positively related to Narea for woody N2FP. Enhanced foliar nitrogen (relative to OP) contributes strongly to other evolutionarily advantageous attributes of legumes, such as seed nitrogen and herbivore defense. These alternate explanations of clear differences in leaf N between N2FP and OP have significant implications (e.g., for global models of carbon fluxes based on relationships between leaf N and Asat). Combined, greater WUE and leaf nitrogen-in a variety of forms-enhance fitness and survival of genomes of N2FP, particularly in arid and semiarid climates.

  9. Function of glutathione peroxidases in legume root nodules

    PubMed Central

    Matamoros, Manuel A.; Saiz, Ana; Peñuelas, Maria; Bustos-Sanmamed, Pilar; Mulet, Jose M.; Barja, Maria V.; Rouhier, Nicolas; Moore, Marten; James, Euan K.; Dietz, Karl-Josef; Becana, Manuel

    2015-01-01

    Glutathione peroxidases (Gpxs) are antioxidant enzymes not studied so far in legume nodules, despite the fact that reactive oxygen species are produced at different steps of the symbiosis. The function of two Gpxs that are highly expressed in nodules of the model legume Lotus japonicus was examined. Gene expression analysis, enzymatic and nitrosylation assays, yeast cell complementation, in situ mRNA hybridization, immunoelectron microscopy, and LjGpx-green fluorescent protein (GFP) fusions were used to characterize the enzymes and to localize each transcript and isoform in nodules. The LjGpx1 and LjGpx3 genes encode thioredoxin-dependent phospholipid hydroperoxidases and are differentially regulated in response to nitric oxide (NO) and hormones. LjGpx1 and LjGpx3 are nitrosylated in vitro or in plants treated with S-nitrosoglutathione (GSNO). Consistent with the modification of the peroxidatic cysteine of LjGpx3, in vitro assays demonstrated that this modification results in enzyme inhibition. The enzymes are highly expressed in the infected zone, but the LjGpx3 mRNA is also detected in the cortex and vascular bundles. LjGpx1 is localized to the plastids and nuclei, and LjGpx3 to the cytosol and endoplasmic reticulum. Based on yeast complementation experiments, both enzymes protect against oxidative stress, salt stress, and membrane damage. It is concluded that both LjGpxs perform major antioxidative functions in nodules, preventing lipid peroxidation and other oxidative processes at different subcellular sites of vascular and infected cells. The enzymes are probably involved in hormone and NO signalling, and may be regulated through nitrosylation of the peroxidatic cysteine essential for catalytic function. PMID:25740929

  10. Function of glutathione peroxidases in legume root nodules.

    PubMed

    Matamoros, Manuel A; Saiz, Ana; Peñuelas, Maria; Bustos-Sanmamed, Pilar; Mulet, Jose M; Barja, Maria V; Rouhier, Nicolas; Moore, Marten; James, Euan K; Dietz, Karl-Josef; Becana, Manuel

    2015-05-01

    Glutathione peroxidases (Gpxs) are antioxidant enzymes not studied so far in legume nodules, despite the fact that reactive oxygen species are produced at different steps of the symbiosis. The function of two Gpxs that are highly expressed in nodules of the model legume Lotus japonicus was examined. Gene expression analysis, enzymatic and nitrosylation assays, yeast cell complementation, in situ mRNA hybridization, immunoelectron microscopy, and LjGpx-green fluorescent protein (GFP) fusions were used to characterize the enzymes and to localize each transcript and isoform in nodules. The LjGpx1 and LjGpx3 genes encode thioredoxin-dependent phospholipid hydroperoxidases and are differentially regulated in response to nitric oxide (NO) and hormones. LjGpx1 and LjGpx3 are nitrosylated in vitro or in plants treated with S-nitrosoglutathione (GSNO). Consistent with the modification of the peroxidatic cysteine of LjGpx3, in vitro assays demonstrated that this modification results in enzyme inhibition. The enzymes are highly expressed in the infected zone, but the LjGpx3 mRNA is also detected in the cortex and vascular bundles. LjGpx1 is localized to the plastids and nuclei, and LjGpx3 to the cytosol and endoplasmic reticulum. Based on yeast complementation experiments, both enzymes protect against oxidative stress, salt stress, and membrane damage. It is concluded that both LjGpxs perform major antioxidative functions in nodules, preventing lipid peroxidation and other oxidative processes at different subcellular sites of vascular and infected cells. The enzymes are probably involved in hormone and NO signalling, and may be regulated through nitrosylation of the peroxidatic cysteine essential for catalytic function.

  11. Legumes are different: Leaf nitrogen, photosynthesis, and water use efficiency

    PubMed Central

    Adams, Mark Andrew; Turnbull, Tarryn L.; Sprent, Janet I.; Buchmann, Nina

    2016-01-01

    Using robust, pairwise comparisons and a global dataset, we show that nitrogen concentration per unit leaf mass for nitrogen-fixing plants (N2FP; mainly legumes plus some actinorhizal species) in nonagricultural ecosystems is universally greater (43–100%) than that for other plants (OP). This difference is maintained across Koppen climate zones and growth forms and strongest in the wet tropics and within deciduous angiosperms. N2FP mostly show a similar advantage over OP in nitrogen per leaf area (Narea), even in arid climates, despite diazotrophy being sensitive to drought. We also show that, for most N2FP, carbon fixation by photosynthesis (Asat) and stomatal conductance (gs) are not related to Narea—in distinct challenge to current theories that place the leaf nitrogen–Asat relationship at the center of explanations of plant fitness and competitive ability. Among N2FP, only forbs displayed an Narea–gs relationship similar to that for OP, whereas intrinsic water use efficiency (WUEi; Asat/gs) was positively related to Narea for woody N2FP. Enhanced foliar nitrogen (relative to OP) contributes strongly to other evolutionarily advantageous attributes of legumes, such as seed nitrogen and herbivore defense. These alternate explanations of clear differences in leaf N between N2FP and OP have significant implications (e.g., for global models of carbon fluxes based on relationships between leaf N and Asat). Combined, greater WUE and leaf nitrogen—in a variety of forms—enhance fitness and survival of genomes of N2FP, particularly in arid and semiarid climates. PMID:27035971

  12. Modeling of two-storey precast school building using Ruaumoko 2D program

    SciTech Connect

    Hamid, N. H.; Tarmizi, L. H.; Ghani, K. D.

    2015-05-15

    The long-distant earthquake loading from Sumatra and Java Island had caused some slight damages to precast and reinforced concrete buildings in West Malaysia such as cracks on wall panels, columns and beams. Subsequently, the safety of existing precast concrete building is needed to be analyzed because these buildings were designed using BS 8110 which did not include the seismic loading in the design. Thus, this paper emphasizes on the seismic performance and dynamic behavior of precast school building constructed in Malaysia under three selected past earthquakes excitations ; El Centro 1940 North-South, El Centro East-West components and San Fernando 1971 using RUAUMOKO 2D program. This program is fully utilized by using prototype precast school model and dynamic non-linear time history analysis. From the results, it can be concluded that two-storey precast school building has experienced severe damage and partial collapse especially at beam-column joint under San Fernando and El Centro North-South Earthquake as its exceeds the allowable inter-storey drift and displacement as specified in Eurocode 8. The San Fernando earthquake has produced a massive destruction to the precast building under viscous damping, ξ = 5% and this building has generated maximum building displacement of 435mm, maximum building drift of 0.68% and maximum bending moment at 8458kNm.

  13. Modeling of two-storey precast school building using Ruaumoko 2D program

    NASA Astrophysics Data System (ADS)

    Hamid, N. H.; Tarmizi, L. H.; Ghani, K. D.

    2015-05-01

    The long-distant earthquake loading from Sumatra and Java Island had caused some slight damages to precast and reinforced concrete buildings in West Malaysia such as cracks on wall panels, columns and beams. Subsequently, the safety of existing precast concrete building is needed to be analyzed because these buildings were designed using BS 8110 which did not include the seismic loading in the design. Thus, this paper emphasizes on the seismic performance and dynamic behavior of precast school building constructed in Malaysia under three selected past earthquakes excitations ; El Centro 1940 North-South, El Centro East-West components and San Fernando 1971 using RUAUMOKO 2D program. This program is fully utilized by using prototype precast school model and dynamic non-linear time history analysis. From the results, it can be concluded that two-storey precast school building has experienced severe damage and partial collapse especially at beam-column joint under San Fernando and El Centro North-South Earthquake as its exceeds the allowable inter-storey drift and displacement as specified in Eurocode 8. The San Fernando earthquake has produced a massive destruction to the precast building under viscous damping, ξ = 5% and this building has generated maximum building displacement of 435mm, maximum building drift of 0.68% and maximum bending moment at 8458kNm.

  14. Automatic Topology Derivation from Ifc Building Model for In-Door Intelligent Navigation

    NASA Astrophysics Data System (ADS)

    Tang, S. J.; Zhu, Q.; Wang, W. W.; Zhang, Y. T.

    2015-05-01

    With the goal to achieve an accuracy navigation within the building environment, it is critical to explore a feasible way for building the connectivity relationships among 3D geographical features called in-building topology network. Traditional topology construction approaches for indoor space always based on 2D maps or pure geometry model, which remained information insufficient problem. Especially, an intelligent navigation for different applications depends mainly on the precise geometry and semantics of the navigation network. The trouble caused by existed topology construction approaches can be smoothed by employing IFC building model which contains detailed semantic and geometric information. In this paper, we present a method which combined a straight media axis transformation algorithm (S-MAT) with IFC building model to reconstruct indoor geometric topology network. This derived topology aimed at facilitating the decision making for different in-building navigation. In this work, we describe a multi-step deviation process including semantic cleaning, walkable features extraction, Multi-Storey 2D Mapping and S-MAT implementation to automatically generate topography information from existing indoor building model data given in IFC.

  15. Probabilistic modeling of the indoor climates of residential buildings using EnergyPlus

    DOE PAGES

    Buechler, Elizabeth D.; Pallin, Simon B.; Boudreaux, Philip R.; ...

    2017-04-25

    The indoor air temperature and relative humidity in residential buildings significantly affect material moisture durability, HVAC system performance, and occupant comfort. Therefore, indoor climate data is generally required to define boundary conditions in numerical models that evaluate envelope durability and equipment performance. However, indoor climate data obtained from field studies is influenced by weather, occupant behavior and internal loads, and is generally unrepresentative of the residential building stock. Likewise, whole-building simulation models typically neglect stochastic variables and yield deterministic results that are applicable to only a single home in a specific climate. The

  16. Simulation Speed Analysis and Improvements of Modelica Models for Building Energy Simulation

    SciTech Connect

    Jorissen, Filip; Wetter, Michael; Helsen, Lieve

    2015-09-21

    This paper presents an approach for speeding up Modelica models. Insight is provided into how Modelica models are solved and what determines the tool’s computational speed. Aspects such as algebraic loops, code efficiency and integrator choice are discussed. This is illustrated using simple building simulation examples and Dymola. The generality of the work is in some cases verified using OpenModelica. Using this approach, a medium sized office building including building envelope, heating ventilation and air conditioning (HVAC) systems and control strategy can be simulated at a speed five hundred times faster than real time.

  17. Towards a Very Low Energy Building Stock: Modeling the U.S. Commercial Building Sector to Support Policy and Innovation Planning

    SciTech Connect

    Coffey, Brian; Borgeson, Sam; Selkowitz, Stephen; Apte, Josh; Mathew, Paul; Haves, Philip

    2009-07-01

    This paper describes the origin, structure and continuing development of a model of time varying energy consumption in the US commercial building stock. The model is based on a flexible structure that disaggregates the stock into various categories (e.g. by building type, climate, vintage and life-cycle stage) and assigns attributes to each of these (e.g. floor area and energy use intensity by fuel type and end use), based on historical data and user-defined scenarios for future projections. In addition to supporting the interactive exploration of building stock dynamics, the model has been used to study the likely outcomes of specific policy and innovation scenarios targeting very low future energy consumption in the building stock. Model use has highlighted the scale of the challenge of meeting targets stated by various government and professional bodies, and the importance of considering both new construction and existing buildings.

  18. Development and evaluation of a building energy model integrated in the TEB scheme

    NASA Astrophysics Data System (ADS)

    Bueno, B.; Pigeon, G.; Norford, L. K.; Zibouche, K.; Marchadier, C.

    2012-03-01

    The use of air-conditioning systems is expected to increase as a consequence of global-scale and urban-scale climate warming. In order to represent future scenarios of urban climate and building energy consumption, the Town Energy Balance (TEB) scheme must be improved. This paper presents a new building energy model (BEM) that has been integrated in the TEB scheme. BEM-TEB makes it possible to represent the energy effects of buildings and building systems on the urban climate and to estimate the building energy consumption at city scale (~10 km) with a resolution of a neighbourhood (~100 m). The physical and geometric definition of buildings in BEM has been intentionally kept as simple as possible, while maintaining the required features of a comprehensive building energy model. The model considers a single thermal zone, where the thermal inertia of building materials associated with multiple levels is represented by a generic thermal mass. The model accounts for heat gains due to transmitted solar radiation, heat conduction through the enclosure, infiltration, ventilation, and internal heat gains. BEM allows for previously unavailable sophistication in the modelling of air-conditioning systems. It accounts for the dependence of the system capacity and efficiency on indoor and outdoor air temperatures and solves the dehumidification of the air passing through the system. Furthermore, BEM includes specific models for passive systems, such as window shadowing devices and natural ventilation. BEM has satisfactorily passed different evaluation processes, including testing its modelling assumptions, verifying that the chosen equations are solved correctly, and validating the model with field data.

  19. Response Surface Model Building and Multidisciplinary Optimization Using D-Optimal Designs

    NASA Technical Reports Server (NTRS)

    Unal, Resit; Lepsch, Roger A.; McMillin, Mark L.

    1998-01-01

    This paper discusses response surface methods for approximation model building and multidisciplinary design optimization. The response surface methods discussed are central composite designs, Bayesian methods and D-optimal designs. An over-determined D-optimal design is applied to a configuration design and optimization study of a wing-body, launch vehicle. Results suggest that over determined D-optimal designs may provide an efficient approach for approximation model building and for multidisciplinary design optimization.

  20. Mimosoid legume plastome evolution: IR expansion, tandem repeat expansions, and accelerated rate of evolution in clpP

    PubMed Central

    Dugas, Diana V.; Hernandez, David; Koenen, Erik J.M.; Schwarz, Erika; Straub, Shannon; Hughes, Colin E.; Jansen, Robert K.; Nageswara-Rao, Madhugiri; Staats, Martijn; Trujillo, Joshua T.; Hajrah, Nahid H.; Alharbi, Njud S.; Al-Malki, Abdulrahman L.; Sabir, Jamal S. M.; Bailey, C. Donovan

    2015-01-01

    The Leguminosae has emerged as a model for studying angiosperm plastome evolution because of its striking diversity of structural rearrangements and sequence variation. However, most of what is known about legume plastomes comes from few genera representing a subset of lineages in subfamily Papilionoideae. We investigate plastome evolution in subfamily Mimosoideae based on two newly sequenced plastomes (Inga and Leucaena) and two recently published plastomes (Acacia and Prosopis), and discuss the results in the context of other legume and rosid plastid genomes. Mimosoid plastomes have a typical angiosperm gene content and general organization as well as a generally slow rate of protein coding gene evolution, but they are the largest known among legumes. The increased length results from tandem repeat expansions and an unusual 13 kb IR-SSC boundary shift in Acacia and Inga. Mimosoid plastomes harbor additional interesting features, including loss of clpP intron1 in Inga, accelerated rates of evolution in clpP for Acacia and Inga, and dN/dS ratios consistent with neutral and positive selection for several genes. These new plastomes and results provide important resources for legume comparative genomics, plant breeding, and plastid genetic engineering, while shedding further light on the complexity of plastome evolution in legumes and angiosperms. PMID:26592928