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Sample records for cis-regulatory elements controlling

  1. Characterization of a putative cis-regulatory element that controls transcriptional activity of the pig uroplakin II gene promoter

    International Nuclear Information System (INIS)

    Kwon, Deug-Nam; Park, Mi-Ryung; Park, Jong-Yi; Cho, Ssang-Goo; Park, Chankyu; Oh, Jae-Wook; Song, Hyuk; Kim, Jae-Hwan; Kim, Jin-Hoi

    2011-01-01

    Highlights: → The sequences of -604 to -84 bp of the pUPII promoter contained the region of a putative negative cis-regulatory element. → The core promoter was located in the 5F-1. → Transcription factor HNF4 can directly bind in the pUPII core promoter region, which plays a critical role in controlling promoter activity. → These features of the pUPII promoter are fundamental to development of a target-specific vector. -- Abstract: Uroplakin II (UPII) is a one of the integral membrane proteins synthesized as a major differentiation product of mammalian urothelium. UPII gene expression is bladder specific and differentiation dependent, but little is known about its transcription response elements and molecular mechanism. To identify the cis-regulatory elements in the pig UPII (pUPII) gene promoter region, we constructed pUPII 5' upstream region deletion mutants and demonstrated that each of the deletion mutants participates in controlling the expression of the pUPII gene in human bladder carcinoma RT4 cells. We also identified a new core promoter region and putative negative cis-regulatory element within a minimal promoter region. In addition, we showed that hepatocyte nuclear factor 4 (HNF4) can directly bind in the pUPII core promoter (5F-1) region, which plays a critical role in controlling promoter activity. Transient cotransfection experiments showed that HNF4 positively regulates pUPII gene promoter activity. Thus, the binding element and its binding protein, HNF4 transcription factor, may be involved in the mechanism that specifically regulates pUPII gene transcription.

  2. Retinal Expression of the Drosophila eyes absent Gene Is Controlled by Several Cooperatively Acting Cis-regulatory Elements

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    Neuman, Sarah D.; Bashirullah, Arash; Kumar, Justin P.

    2016-01-01

    The eyes absent (eya) gene of the fruit fly, Drosophila melanogaster, is a member of an evolutionarily conserved gene regulatory network that controls eye formation in all seeing animals. The loss of eya leads to the complete elimination of the compound eye while forced expression of eya in non-retinal tissues is sufficient to induce ectopic eye formation. Within the developing retina eya is expressed in a dynamic pattern and is involved in tissue specification/determination, cell proliferation, apoptosis, and cell fate choice. In this report we explore the mechanisms by which eya expression is spatially and temporally governed in the developing eye. We demonstrate that multiple cis-regulatory elements function cooperatively to control eya transcription and that spacing between a pair of enhancer elements is important for maintaining correct gene expression. Lastly, we show that the loss of eya expression in sine oculis (so) mutants is the result of massive cell death and a progressive homeotic transformation of retinal progenitor cells into head epidermis. PMID:27930646

  3. Nutritional control of gene expression in Drosophila larvae via TOR, Myc and a novel cis-regulatory element

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    Grewal Savraj S

    2010-01-01

    Full Text Available Abstract Background Nutrient availability is a key determinant of eukaryotic cell growth. In unicellular organisms many signaling and transcriptional networks link nutrient availability to the expression of metabolic genes required for growth. However, less is known about the corresponding mechanisms that operate in metazoans. We used gene expression profiling to explore this issue in developing Drosophila larvae. Results We found that starvation for dietary amino acids (AA's leads to dynamic changes in transcript levels of many metabolic genes. The conserved insulin/PI3K and TOR signaling pathways mediate nutrition-dependent growth in Drosophila and other animals. We found that many AA starvation-responsive transcripts were also altered in TOR mutants. In contrast, although PI3K overexpression induced robust changes in the expression of many metabolic genes, these changes showed limited overlap with the AA starvation expression profile. We did however identify a strong overlap between genes regulated by the transcription factor, Myc, and AA starvation-responsive genes, particularly those involved in ribosome biogenesis, protein synthesis and mitochondrial function. The consensus Myc DNA binding site is enriched in promoters of these AA starvation genes, and we found that Myc overexpression could bypass dietary AA to induce expression of these genes. We also identified another sequence motif (Motif 1 enriched in the promoters of AA starvation-responsive genes. We showed that Motif 1 was both necessary and sufficient to mediate transcriptional responses to dietary AA in larvae. Conclusions Our data suggest that many of the transcriptional effects of amino acids are mediated via signaling through the TOR pathway in Drosophila larvae. We also find that these transcriptional effects are mediated through at least two mechanisms: via the transcription factor Myc, and via the Motif 1 cis-regulatory element. These studies begin to elucidate a nutrient

  4. Dynamic SPR monitoring of yeast nuclear protein binding to a cis-regulatory element

    International Nuclear Information System (INIS)

    Mao, Grace; Brody, James P.

    2007-01-01

    Gene expression is controlled by protein complexes binding to short specific sequences of DNA, called cis-regulatory elements. Expression of most eukaryotic genes is controlled by dozens of these elements. Comprehensive identification and monitoring of these elements is a major goal of genomics. In pursuit of this goal, we are developing a surface plasmon resonance (SPR) based assay to identify and monitor cis-regulatory elements. To test whether we could reliably monitor protein binding to a regulatory element, we immobilized a 16 bp region of Saccharomyces cerevisiae chromosome 5 onto a gold surface. This 16 bp region of DNA is known to bind several proteins and thought to control expression of the gene RNR1, which varies through the cell cycle. We synchronized yeast cell cultures, and then sampled these cultures at a regular interval. These samples were processed to purify nuclear lysate, which was then exposed to the sensor. We found that nuclear protein binds this particular element of DNA at a significantly higher rate (as compared to unsynchronized cells) during G1 phase. Other time points show levels of DNA-nuclear protein binding similar to the unsynchronized control. We also measured the apparent association complex of the binding to be 0.014 s -1 . We conclude that (1) SPR-based assays can monitor DNA-nuclear protein binding and that (2) for this particular cis-regulatory element, maximum DNA-nuclear protein binding occurs during G1 phase

  5. Changes in Cis-regulatory Elements during Morphological Evolution

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    Yu-Lee Paul

    2012-10-01

    Full Text Available How have animals evolved new body designs (morphological evolution? This requires explanations both for simple morphological changes, such as differences in pigmentation and hair patterns between different Drosophila populations and species, and also for more complex changes, such as differences in the forelimbs of mice and bats, and the necks of amphibians and reptiles. The genetic changes and pathways involved in these evolutionary steps require identification. Many, though not all, of these events occur by changes in cis-regulatory (enhancer elements within developmental genes. Enhancers are modular, each affecting expression in only one or a few tissues. Therefore it is possible to add, remove or alter an enhancer without producing changes in multiple tissues, and thereby avoid widespread (pleiotropic deleterious effects. Ideally, for a given step in morphological evolution it is necessary to identify (i the change in phenotype, (ii the changes in gene expression, (iii the DNA region, enhancer or otherwise, affected, (iv the mutation involved, (v the nature of the transcription or other factors that bind to this site. In practice these data are incomplete for most of the published studies upon morphological evolution. Here, the investigations are categorized according to how far these analyses have proceeded.

  6. Cis-regulatory RNA elements that regulate specialized ribosome activity.

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    Xue, Shifeng; Barna, Maria

    2015-01-01

    Recent evidence has shown that the ribosome itself can play a highly regulatory role in the specialized translation of specific subpools of mRNAs, in particular at the level of ribosomal proteins (RP). However, the mechanism(s) by which this selection takes place has remained poorly understood. In our recent study, we discovered a combination of unique RNA elements in the 5'UTRs of mRNAs that allows for such control by the ribosome. These mRNAs contain a Translation Inhibitory Element (TIE) that inhibits general cap-dependent translation, and an Internal Ribosome Entry Site (IRES) that relies on a specific RP for activation. The unique combination of an inhibitor of general translation and an activator of specialized translation is key to ribosome-mediated control of gene expression. Here we discuss how these RNA regulatory elements provide a new level of control to protein expression and their implications for gene expression, organismal development and evolution.

  7. Cis-regulatory elements in the primate brain: from functional specialization to neurodegeneration

    NARCIS (Netherlands)

    Vermunt, Marit W.

    2017-01-01

    Over the last decade, the noncoding part of the genome has been shown to harbour thousands of cis-regulatory elements, such as enhancers, that activate well-defined gene expression programs. Here, we charted active enhancers in a multiplicity of human brain regions to understand the role of

  8. Evolution of Cis-Regulatory Elements and Regulatory Networks in Duplicated Genes of Arabidopsis.

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    Arsovski, Andrej A; Pradinuk, Julian; Guo, Xu Qiu; Wang, Sishuo; Adams, Keith L

    2015-12-01

    Plant genomes contain large numbers of duplicated genes that contribute to the evolution of new functions. Following duplication, genes can exhibit divergence in their coding sequence and their expression patterns. Changes in the cis-regulatory element landscape can result in changes in gene expression patterns. High-throughput methods developed recently can identify potential cis-regulatory elements on a genome-wide scale. Here, we use a recent comprehensive data set of DNase I sequencing-identified cis-regulatory binding sites (footprints) at single-base-pair resolution to compare binding sites and network connectivity in duplicated gene pairs in Arabidopsis (Arabidopsis thaliana). We found that duplicated gene pairs vary greatly in their cis-regulatory element architecture, resulting in changes in regulatory network connectivity. Whole-genome duplicates (WGDs) have approximately twice as many footprints in their promoters left by potential regulatory proteins than do tandem duplicates (TDs). The WGDs have a greater average number of footprint differences between paralogs than TDs. The footprints, in turn, result in more regulatory network connections between WGDs and other genes, forming denser, more complex regulatory networks than shown by TDs. When comparing regulatory connections between duplicates, WGDs had more pairs in which the two genes are either partially or fully diverged in their network connections, but fewer genes with no network connections than the TDs. There is evidence of younger TDs and WGDs having fewer unique connections compared with older duplicates. This study provides insights into cis-regulatory element evolution and network divergence in duplicated genes. © 2015 American Society of Plant Biologists. All Rights Reserved.

  9. In silico modeling of epigenetic-induced changes in photoreceptor cis-regulatory elements.

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    Hossain, Reafa A; Dunham, Nicholas R; Enke, Raymond A; Berndsen, Christopher E

    2018-01-01

    DNA methylation is a well-characterized epigenetic repressor of mRNA transcription in many plant and vertebrate systems. However, the mechanism of this repression is not fully understood. The process of transcription is controlled by proteins that regulate recruitment and activity of RNA polymerase by binding to specific cis-regulatory sequences. Cone-rod homeobox (CRX) is a well-characterized mammalian transcription factor that controls photoreceptor cell-specific gene expression. Although much is known about the functions and DNA binding specificity of CRX, little is known about how DNA methylation modulates CRX binding affinity to genomic cis-regulatory elements. We used bisulfite pyrosequencing of human ocular tissues to measure DNA methylation levels of the regulatory regions of RHO , PDE6B, PAX6 , and LINE1 retrotransposon repeats. To describe the molecular mechanism of repression, we used molecular modeling to illustrate the effect of DNA methylation on human RHO regulatory sequences. In this study, we demonstrate an inverse correlation between DNA methylation in regulatory regions adjacent to the human RHO and PDE6B genes and their subsequent transcription in human ocular tissues. Docking of CRX to the DNA models shows that CRX interacts with the grooves of these sequences, suggesting changes in groove structure could regulate binding. Molecular dynamics simulations of the RHO promoter and enhancer regions show changes in the flexibility and groove width upon epigenetic modification. Models also demonstrate changes in the local dynamics of CRX binding sites within RHO regulatory sequences which may account for the repression of CRX-dependent transcription. Collectively, these data demonstrate epigenetic regulation of CRX binding sites in human retinal tissue and provide insight into the mechanism of this mode of epigenetic regulation to be tested in future experiments.

  10. BLSSpeller: exhaustive comparative discovery of conserved cis-regulatory elements.

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    De Witte, Dieter; Van de Velde, Jan; Decap, Dries; Van Bel, Michiel; Audenaert, Pieter; Demeester, Piet; Dhoedt, Bart; Vandepoele, Klaas; Fostier, Jan

    2015-12-01

    The accurate discovery and annotation of regulatory elements remains a challenging problem. The growing number of sequenced genomes creates new opportunities for comparative approaches to motif discovery. Putative binding sites are then considered to be functional if they are conserved in orthologous promoter sequences of multiple related species. Existing methods for comparative motif discovery usually rely on pregenerated multiple sequence alignments, which are difficult to obtain for more diverged species such as plants. As a consequence, misaligned regulatory elements often remain undetected. We present a novel algorithm that supports both alignment-free and alignment-based motif discovery in the promoter sequences of related species. Putative motifs are exhaustively enumerated as words over the IUPAC alphabet and screened for conservation using the branch length score. Additionally, a confidence score is established in a genome-wide fashion. In order to take advantage of a cloud computing infrastructure, the MapReduce programming model is adopted. The method is applied to four monocotyledon plant species and it is shown that high-scoring motifs are significantly enriched for open chromatin regions in Oryza sativa and for transcription factor binding sites inferred through protein-binding microarrays in O.sativa and Zea mays. Furthermore, the method is shown to recover experimentally profiled ga2ox1-like KN1 binding sites in Z.mays. BLSSpeller was written in Java. Source code and manual are available at http://bioinformatics.intec.ugent.be/blsspeller Klaas.Vandepoele@psb.vib-ugent.be or jan.fostier@intec.ugent.be. Supplementary data are available at Bioinformatics online. © The Author 2015. Published by Oxford University Press.

  11. A HLA class I cis-regulatory element whose activity can be modulated by hormones.

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    Sim, B C; Hui, K M

    1994-12-01

    To elucidate the basis of the down-regulation in major histocompatibility complex (MHC) class I gene expression and to identify possible DNA-binding regulatory elements that have the potential to interact with class I MHC genes, we have studied the transcriptional regulation of class I HLA genes in human breast carcinoma cells. A 9 base pair (bp) negative cis-regulatory element (NRE) has been identified using band-shift assays employing DNA sequences derived from the 5'-flanking region of HLA class I genes. This 9-bp element, GTCATGGCG, located within exon I of the HLA class I gene, can potently inhibit the expression of a heterologous thymidine kinase (TK) gene promoter and the HLA enhancer element. Furthermore, this regulatory element can exert its suppressive function in either the sense or anti-sense orientation. More interestingly, NRE can suppress dexamethasone-mediated gene activation in the context of the reported glucocorticoid-responsive element (GRE) in MCF-7 cells but has no influence on the estrogen-mediated transcriptional activation of MCF-7 cells in the context of the reported estrogen-responsive element (ERE). Furthermore, the presence of such a regulatory element within the HLA class I gene whose activity can be modulated by hormones correlates well with our observation that the level of HLA class I gene expression can be down-regulated by hormones in human breast carcinoma cells. Such interactions between negative regulatory elements and specific hormone trans-activators are novel and suggest a versatile form of transcriptional control.

  12. Bounded search for de novo identification of degenerate cis-regulatory elements

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    Khetani Radhika S

    2006-05-01

    Full Text Available Abstract Background The identification of statistically overrepresented sequences in the upstream regions of coregulated genes should theoretically permit the identification of potential cis-regulatory elements. However, in practice many cis-regulatory elements are highly degenerate, precluding the use of an exhaustive word-counting strategy for their identification. While numerous methods exist for inferring base distributions using a position weight matrix, recent studies suggest that the independence assumptions inherent in the model, as well as the inability to reach a global optimum, limit this approach. Results In this paper, we report PRISM, a degenerate motif finder that leverages the relationship between the statistical significance of a set of binding sites and that of the individual binding sites. PRISM first identifies overrepresented, non-degenerate consensus motifs, then iteratively relaxes each one into a high-scoring degenerate motif. This approach requires no tunable parameters, thereby lending itself to unbiased performance comparisons. We therefore compare PRISM's performance against nine popular motif finders on 28 well-characterized S. cerevisiae regulons. PRISM consistently outperforms all other programs. Finally, we use PRISM to predict the binding sites of uncharacterized regulons. Our results support a proposed mechanism of action for the yeast cell-cycle transcription factor Stb1, whose binding site has not been determined experimentally. Conclusion The relationship between statistical measures of the binding sites and the set as a whole leads to a simple means of identifying the diverse range of cis-regulatory elements to which a protein binds. This approach leverages the advantages of word-counting, in that position dependencies are implicitly accounted for and local optima are more easily avoided. While we sacrifice guaranteed optimality to prevent the exponential blowup of exhaustive search, we prove that the error

  13. Multiple cis-regulatory elements are involved in the complex regulation of the sieve element-specific MtSEO-F1 promoter from Medicago truncatula.

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    Bucsenez, M; Rüping, B; Behrens, S; Twyman, R M; Noll, G A; Prüfer, D

    2012-09-01

    The sieve element occlusion (SEO) gene family includes several members that are expressed specifically in immature sieve elements (SEs) in the developing phloem of dicotyledonous plants. To determine how this restricted expression profile is achieved, we analysed the SE-specific Medicago truncatula SEO-F1 promoter (PMtSEO-F1) by constructing deletion, substitution and hybrid constructs and testing them in transgenic tobacco plants using green fluorescent protein as a reporter. This revealed four promoter regions, each containing cis-regulatory elements that activate transcription in SEs. One of these segments also contained sufficient information to suppress PMtSEO-F1 transcription in the phloem companion cells (CCs). Subsequent in silico analysis revealed several candidate cis-regulatory elements that PMtSEO-F1 shares with other SEO promoters. These putative sieve element boxes (PSE boxes) are promising candidates for cis-regulatory elements controlling the SE-specific expression of PMtSEO-F1. © 2012 German Botanical Society and The Royal Botanical Society of the Netherlands.

  14. Identification of putative cis-regulatory elements in Cryptosporidium parvum by de novo pattern finding

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    Kissinger Jessica C

    2007-01-01

    Full Text Available Abstract Background Cryptosporidium parvum is a unicellular eukaryote in the phylum Apicomplexa. It is an obligate intracellular parasite that causes diarrhea and is a significant AIDS-related pathogen. Cryptosporidium parvum is not amenable to long-term laboratory cultivation or classical molecular genetic analysis. The parasite exhibits a complex life cycle, a broad host range, and fundamental mechanisms of gene regulation remain unknown. We have used data from the recently sequenced genome of this organism to uncover clues about gene regulation in C. parvum. We have applied two pattern finding algorithms MEME and AlignACE to identify conserved, over-represented motifs in the 5' upstream regions of genes in C. parvum. To support our findings, we have established comparative real-time -PCR expression profiles for the groups of genes examined computationally. Results We find that groups of genes that share a function or belong to a common pathway share upstream motifs. Different motifs are conserved upstream of different groups of genes. Comparative real-time PCR studies show co-expression of genes within each group (in sub-sets during the life cycle of the parasite, suggesting co-regulation of these genes may be driven by the use of conserved upstream motifs. Conclusion This is one of the first attempts to characterize cis-regulatory elements in the absence of any previously characterized elements and with very limited expression data (seven genes only. Using de novo pattern finding algorithms, we have identified specific DNA motifs that are conserved upstream of genes belonging to the same metabolic pathway or gene family. We have demonstrated the co-expression of these genes (often in subsets using comparative real-time-PCR experiments thus establishing evidence for these conserved motifs as putative cis-regulatory elements. Given the lack of prior information concerning expression patterns and organization of promoters in C. parvum we

  15. [Analysis of cis-regulatory element distribution in gene promoters of Gossypium raimondii and Arabidopsis thaliana].

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    Sun, Gao-Fei; He, Shou-Pu; Du, Xiong-Ming

    2013-10-01

    Cotton genomic studies have boomed since the release of Gossypium raimondii draft genome. In this study, cis-regulatory element (CRE) in 1 kb length sequence upstream 5' UTR of annotated genes were selected and scanned in the Arabidopsis thaliana (At) and Gossypium raimondii (Gr) genomes, based on the database of PLACE (Plant cis-acting Regulatory DNA Elements). According to the definition of this study, 44 (12.3%) and 57 (15.5%) CREs presented "peak-like" distribution in the 1 kb selected sequences of both genomes, respectively. Thirty-four of them were peak-like distributed in both genomes, which could be further categorized into 4 types based on their core sequences. The coincidence of TATABOX peak position and their actual position ((-) -30 bp) indicated that the position of a common CRE was conservative in different genes, which suggested that the peak position of these CREs was their possible actual position of transcription factors. The position of a common CRE was also different between the two genomes due to stronger length variation of 5' UTR in Gr than At. Furthermore, most of the peak-like CREs were located in the region of -110 bp-0 bp, which suggested that concentrated distribution might be conductive to the interaction of transcription factors, and then regulate the gene expression in downstream.

  16. Characterization of Putative cis-Regulatory Elements in Genes Preferentially Expressed in Arabidopsis Male Meiocytes

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    Junhua Li

    2014-01-01

    Full Text Available Meiosis is essential for plant reproduction because it is the process during which homologous chromosome pairing, synapsis, and meiotic recombination occur. The meiotic transcriptome is difficult to investigate because of the size of meiocytes and the confines of anther lobes. The recent development of isolation techniques has enabled the characterization of transcriptional profiles in male meiocytes of Arabidopsis. Gene expression in male meiocytes shows unique features. The direct interaction of transcription factors (TFs with DNA regulatory sequences forms the basis for the specificity of transcriptional regulation. Here, we identified putative cis-regulatory elements (CREs associated with male meiocyte-expressed genes using in silico tools. The upstream regions (1 kb of the top 50 genes preferentially expressed in Arabidopsis meiocytes possessed conserved motifs. These motifs are putative binding sites of TFs, some of which share common functions, such as roles in cell division. In combination with cell-type-specific analysis, our findings could be a substantial aid for the identification and experimental verification of the protein-DNA interactions for the specific TFs that drive gene expression in meiocytes.

  17. BET Bromodomain Inhibition Releases the Mediator Complex from Select cis-Regulatory Elements.

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    Bhagwat, Anand S; Roe, Jae-Seok; Mok, Beverly Y L; Hohmann, Anja F; Shi, Junwei; Vakoc, Christopher R

    2016-04-19

    The bromodomain and extraterminal (BET) protein BRD4 can physically interact with the Mediator complex, but the relevance of this association to the therapeutic effects of BET inhibitors in cancer is unclear. Here, we show that BET inhibition causes a rapid release of Mediator from a subset of cis-regulatory elements in the genome of acute myeloid leukemia (AML) cells. These sites of Mediator eviction were highly correlated with transcriptional suppression of neighboring genes, which are enriched for targets of the transcription factor MYB and for functions related to leukemogenesis. A shRNA screen of Mediator in AML cells identified the MED12, MED13, MED23, and MED24 subunits as performing a similar regulatory function to BRD4 in this context, including a shared role in sustaining a block in myeloid maturation. These findings suggest that the interaction between BRD4 and Mediator has functional importance for gene-specific transcriptional activation and for AML maintenance. Copyright © 2016 The Authors. Published by Elsevier Inc. All rights reserved.

  18. Comparative genomics of metabolic capacities of regulons controlled by cis-regulatory RNA motifs in bacteria.

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    Sun, Eric I; Leyn, Semen A; Kazanov, Marat D; Saier, Milton H; Novichkov, Pavel S; Rodionov, Dmitry A

    2013-09-02

    In silico comparative genomics approaches have been efficiently used for functional prediction and reconstruction of metabolic and regulatory networks. Riboswitches are metabolite-sensing structures often found in bacterial mRNA leaders controlling gene expression on transcriptional or translational levels.An increasing number of riboswitches and other cis-regulatory RNAs have been recently classified into numerous RNA families in the Rfam database. High conservation of these RNA motifs provides a unique advantage for their genomic identification and comparative analysis. A comparative genomics approach implemented in the RegPredict tool was used for reconstruction and functional annotation of regulons controlled by RNAs from 43 Rfam families in diverse taxonomic groups of Bacteria. The inferred regulons include ~5200 cis-regulatory RNAs and more than 12000 target genes in 255 microbial genomes. All predicted RNA-regulated genes were classified into specific and overall functional categories. Analysis of taxonomic distribution of these categories allowed us to establish major functional preferences for each analyzed cis-regulatory RNA motif family. Overall, most RNA motif regulons showed predictable functional content in accordance with their experimentally established effector ligands. Our results suggest that some RNA motifs (including thiamin pyrophosphate and cobalamin riboswitches that control the cofactor metabolism) are widespread and likely originated from the last common ancestor of all bacteria. However, many more analyzed RNA motifs are restricted to a narrow taxonomic group of bacteria and likely represent more recent evolutionary innovations. The reconstructed regulatory networks for major known RNA motifs substantially expand the existing knowledge of transcriptional regulation in bacteria. The inferred regulons can be used for genetic experiments, functional annotations of genes, metabolic reconstruction and evolutionary analysis. The obtained genome

  19. Nomadic enhancers: tissue-specific cis-regulatory elements of yellow have divergent genomic positions among Drosophila species.

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    Gizem Kalay

    2010-11-01

    Full Text Available cis-regulatory DNA sequences known as enhancers control gene expression in space and time. They are central to metazoan development and are often responsible for changes in gene regulation that contribute to phenotypic evolution. Here, we examine the sequence, function, and genomic location of enhancers controlling tissue- and cell-type specific expression of the yellow gene in six Drosophila species. yellow is required for the production of dark pigment, and its expression has evolved largely in concert with divergent pigment patterns. Using Drosophila melanogaster as a transgenic host, we examined the expression of reporter genes in which either 5' intergenic or intronic sequences of yellow from each species controlled the expression of Green Fluorescent Protein. Surprisingly, we found that sequences controlling expression in the wing veins, as well as sequences controlling expression in epidermal cells of the abdomen, thorax, and wing, were located in different genomic regions in different species. By contrast, sequences controlling expression in bristle-associated cells were located in the intron of all species. Differences in the precise pattern of spatial expression within the developing epidermis of D. melanogaster transformants usually correlated with adult pigmentation in the species from which the cis-regulatory sequences were derived, which is consistent with cis-regulatory evolution affecting yellow expression playing a central role in Drosophila pigmentation divergence. Sequence comparisons among species favored a model in which sequential nucleotide substitutions were responsible for the observed changes in cis-regulatory architecture. Taken together, these data demonstrate frequent changes in yellow cis-regulatory architecture among Drosophila species. Similar analyses of other genes, combining in vivo functional tests of enhancer activity with in silico comparative genomics, are needed to determine whether the pattern of

  20. Deciphering Cis-Regulatory Element Mediated Combinatorial Regulation in Rice under Blast Infected Condition.

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    Arindam Deb

    Full Text Available Combinations of cis-regulatory elements (CREs present at the promoters facilitate the binding of several transcription factors (TFs, thereby altering the consequent gene expressions. Due to the eminent complexity of the regulatory mechanism, the combinatorics of CRE-mediated transcriptional regulation has been elusive. In this work, we have developed a new methodology that quantifies the co-occurrence tendencies of CREs present in a set of promoter sequences; these co-occurrence scores are filtered in three consecutive steps to test their statistical significance; and the significantly co-occurring CRE pairs are presented as networks. These networks of co-occurring CREs are further transformed to derive higher order of regulatory combinatorics. We have further applied this methodology on the differentially up-regulated gene-sets of rice tissues under fungal (Magnaporthe infected conditions to demonstrate how it helps to understand the CRE-mediated combinatorial gene regulation. Our analysis includes a wide spectrum of biologically important results. The CRE pairs having a strong tendency to co-occur often exhibit very similar joint distribution patterns at the promoters of rice. We couple the network approach with experimental results of plant gene regulation and defense mechanisms and find evidences of auto and cross regulation among TF families, cross-talk among multiple hormone signaling pathways, similarities and dissimilarities in regulatory combinatorics between different tissues, etc. Our analyses have pointed a highly distributed nature of the combinatorial gene regulation facilitating an efficient alteration in response to fungal attack. All together, our proposed methodology could be an important approach in understanding the combinatorial gene regulation. It can be further applied to unravel the tissue and/or condition specific combinatorial gene regulation in other eukaryotic systems with the availability of annotated genomic

  1. Changes in cis-regulatory elements of a key floral regulator are associated with divergence of inflorescence architectures.

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    Kusters, Elske; Della Pina, Serena; Castel, Rob; Souer, Erik; Koes, Ronald

    2015-08-15

    Higher plant species diverged extensively with regard to the moment (flowering time) and position (inflorescence architecture) at which flowers are formed. This seems largely caused by variation in the expression patterns of conserved genes that specify floral meristem identity (FMI), rather than changes in the encoded proteins. Here, we report a functional comparison of the promoters of homologous FMI genes from Arabidopsis, petunia, tomato and Antirrhinum. Analysis of promoter-reporter constructs in petunia and Arabidopsis, as well as complementation experiments, showed that the divergent expression of leafy (LFY) and the petunia homolog aberrant leaf and flower (ALF) results from alterations in the upstream regulatory network rather than cis-regulatory changes. The divergent expression of unusual floral organs (UFO) from Arabidopsis, and the petunia homolog double top (DOT), however, is caused by the loss or gain of cis-regulatory promoter elements, which respond to trans-acting factors that are expressed in similar patterns in both species. Introduction of pUFO:UFO causes no obvious defects in Arabidopsis, but in petunia it causes the precocious and ectopic formation of flowers. This provides an example of how a change in a cis-regulatory region can account for a change in the plant body plan. © 2015. Published by The Company of Biologists Ltd.

  2. Implications of duplicated cis-regulatory elements in the evolution of metazoans: the DDI model or how simplicity begets novelty.

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    Jiménez-Delgado, Senda; Pascual-Anaya, Juan; Garcia-Fernàndez, Jordi

    2009-07-01

    The discovery that most regulatory genes were conserved among animals from distant phyla challenged the ideas that gene duplication and divergence of homologous coding sequences were the basis for major morphological changes in metazoan evolution. In recent years, however, the interest for the roles, conservation and changes of non-coding sequences grew-up in parallel with genome sequencing projects. Presently, many independent studies are highlighting the importance that subtle changes in cis-regulatory regions had in the evolution of morphology trough the Animal Kingdom. Here we will show and discuss some of these studies, and underscore the future of cis-Evo-Devo research. Nevertheless, we would also explore how gene duplication, which includes duplication of regulatory regions, may have been critical for spatial or temporal co-option of new regulatory networks, causing the deployment of new transcriptome scenarios, and how these induced morphological changes were critical for the evolution of new forms. Forty years after Susumu Ohno famous sentence 'natural selection merely modifies, while redundancy creates', we suggest the alternative: 'natural selection modifies, while redundancy of cis-regulatory elements innovates', and propose the Duplication-Degeneration-Innovation model to explain the increased evolvability of duplicated cis-regulatory regions. Paradoxically, making regulation simpler by subfunctionalization paved the path for future complexity or, in other words, 'to make it simple to make it complex'.

  3. Identification of a cis-regulatory element by transient analysis of co-ordinately regulated genes

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    Allan Andrew C

    2008-07-01

    Full Text Available Abstract Background Transcription factors (TFs co-ordinately regulate target genes that are dispersed throughout the genome. This co-ordinate regulation is achieved, in part, through the interaction of transcription factors with conserved cis-regulatory motifs that are in close proximity to the target genes. While much is known about the families of transcription factors that regulate gene expression in plants, there are few well characterised cis-regulatory motifs. In Arabidopsis, over-expression of the MYB transcription factor PAP1 (PRODUCTION OF ANTHOCYANIN PIGMENT 1 leads to transgenic plants with elevated anthocyanin levels due to the co-ordinated up-regulation of genes in the anthocyanin biosynthetic pathway. In addition to the anthocyanin biosynthetic genes, there are a number of un-associated genes that also change in expression level. This may be a direct or indirect consequence of the over-expression of PAP1. Results Oligo array analysis of PAP1 over-expression Arabidopsis plants identified genes co-ordinately up-regulated in response to the elevated expression of this transcription factor. Transient assays on the promoter regions of 33 of these up-regulated genes identified eight promoter fragments that were transactivated by PAP1. Bioinformatic analysis on these promoters revealed a common cis-regulatory motif that we showed is required for PAP1 dependent transactivation. Conclusion Co-ordinated gene regulation by individual transcription factors is a complex collection of both direct and indirect effects. Transient transactivation assays provide a rapid method to identify direct target genes from indirect target genes. Bioinformatic analysis of the promoters of these direct target genes is able to locate motifs that are common to this sub-set of promoters, which is impossible to identify with the larger set of direct and indirect target genes. While this type of analysis does not prove a direct interaction between protein and DNA

  4. Microevolution of cis-regulatory elements: an example from the pair-rule segmentation gene fushi tarazu in the Drosophila melanogaster subgroup.

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    Mohammed Bakkali

    Full Text Available The importance of non-coding DNAs that control transcription is ever noticeable, but the characterization and analysis of the evolution of such DNAs presents challenges not found in the analysis of coding sequences. In this study of the cis-regulatory elements of the pair rule segmentation gene fushi tarazu (ftz I report the DNA sequences of ftz's zebra element (promoter and a region containing the proximal enhancer from a total of 45 fly lines belonging to several populations of the species Drosophila melanogaster, D. simulans, D. sechellia, D. mauritiana, D. yakuba, D. teissieri, D. orena and D. erecta. Both elements evolve at slower rate than ftz synonymous sites, thus reflecting their functional importance. The promoter evolves more slowly than the average for ftz's coding sequence while, on average, the enhancer evolves more rapidly, suggesting more functional constraint and effective purifying selection on the former. Comparative analysis of the number and nature of base substitutions failed to detect significant evidence for positive/adaptive selection in transcription-factor-binding sites. These seem to evolve at similar rates to regions not known to bind transcription factors. Although this result reflects the evolutionary flexibility of the transcription factor binding sites, it also suggests a complex and still not completely understood nature of even the characterized cis-regulatory sequences. The latter seem to contain more functional parts than those currently identified, some of which probably transcription factor binding. This study illustrates ways in which functional assignments of sequences within cis-acting sequences can be used in the search for adaptive evolution, but also highlights difficulties in how such functional assignment and analysis can be carried out.

  5. Conserved cis-regulatory regions in a large genomic landscape control SHH and BMP-regulated Gremlin1 expression in mouse limb buds

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    Zuniga Aimée

    2012-08-01

    Full Text Available Abstract Background Mouse limb bud is a prime model to study the regulatory interactions that control vertebrate organogenesis. Major aspects of limb bud development are controlled by feedback loops that define a self-regulatory signalling system. The SHH/GREM1/AER-FGF feedback loop forms the core of this signalling system that operates between the posterior mesenchymal organiser and the ectodermal signalling centre. The BMP antagonist Gremlin1 (GREM1 is a critical node in this system, whose dynamic expression is controlled by BMP, SHH, and FGF signalling and key to normal progression of limb bud development. Previous analysis identified a distant cis-regulatory landscape within the neighbouring Formin1 (Fmn1 locus that is required for Grem1 expression, reminiscent of the genomic landscapes controlling HoxD and Shh expression in limb buds. Results Three highly conserved regions (HMCO1-3 were identified within the previously defined critical genomic region and tested for their ability to regulate Grem1 expression in mouse limb buds. Using a combination of BAC and conventional transgenic approaches, a 9 kb region located ~70 kb downstream of the Grem1 transcription unit was identified. This region, termed Grem1 Regulatory Sequence 1 (GRS1, is able to recapitulate major aspects of Grem1 expression, as it drives expression of a LacZ reporter into the posterior and, to a lesser extent, in the distal-anterior mesenchyme. Crossing the GRS1 transgene into embryos with alterations in the SHH and BMP pathways established that GRS1 depends on SHH and is modulated by BMP signalling, i.e. integrates inputs from these pathways. Chromatin immunoprecipitation revealed interaction of endogenous GLI3 proteins with the core cis-regulatory elements in the GRS1 region. As GLI3 is a mediator of SHH signal transduction, these results indicated that SHH directly controls Grem1 expression through the GRS1 region. Finally, all cis-regulatory regions within the Grem1

  6. Identification of choriogenin cis-regulatory elements and production of estrogen-inducible, liver-specific transgenic Medaka.

    Science.gov (United States)

    Ueno, Tetsuro; Yasumasu, Shigeki; Hayashi, Shinji; Iuchi, Ichiro

    2004-07-01

    Choriogenins (chg-H, chg-L) are precursor proteins of egg envelope of medaka and synthesized in the spawning female liver in response to estrogen. We linked a gene construct chg-L1.5 kb/GFP (a 1.5 kb 5'-upstream region of the chg-L gene fused with a green fluorescence protein (GFP) gene) to another construct emgb/RFP (a cis-regulatory region of embryonic globin gene fused with an RFP gene), injected the double fusion gene construct into 1- or 2-cell-stage embryos, and selected embryos expressing the RFP in erythroid cells. From the embryos, we established two lines of chg-L1.5 kb/GFP-emgb/RFP-transgenic medaka. The 3-month-old spawning females and estradiol-17beta (E2)-exposed males displayed the liver-specific GFP expression. The E2-dependent GFP expression was detected in the differentiating liver of the stage 37-38 embryos. In addition, RT-PCR and whole-mount in situ hybridization showed that the E2-dependent chg expression was found in the liver of the stage 34 embryos of wild medaka, suggesting that such E2-dependency is achieved shortly after differentiation of the liver. Analysis using serial deletion mutants fused with GFP showed that the region -426 to -284 of the chg-L gene or the region -364 to -265 of the chg-H gene had the ability to promote the E2-dependent liver-specific GFP expression of its downstream gene. Further analyses suggested that an estrogen response element (ERE) at -309, an ERE half-site at -330 and a binding site for C/EBP at -363 of the chg-L gene played important roles in its downstream chg-L gene expression. In addition, this transgenic medaka may be useful as one of the test animals for detecting environmental estrogenic steroids.

  7. Integrative modeling of eQTLs and cis-regulatory elements suggests mechanisms underlying cell type specificity of eQTLs.

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    Christopher D Brown

    Full Text Available Genetic variants in cis-regulatory elements or trans-acting regulators frequently influence the quantity and spatiotemporal distribution of gene transcription. Recent interest in expression quantitative trait locus (eQTL mapping has paralleled the adoption of genome-wide association studies (GWAS for the analysis of complex traits and disease in humans. Under the hypothesis that many GWAS associations tag non-coding SNPs with small effects, and that these SNPs exert phenotypic control by modifying gene expression, it has become common to interpret GWAS associations using eQTL data. To fully exploit the mechanistic interpretability of eQTL-GWAS comparisons, an improved understanding of the genetic architecture and causal mechanisms of cell type specificity of eQTLs is required. We address this need by performing an eQTL analysis in three parts: first we identified eQTLs from eleven studies on seven cell types; then we integrated eQTL data with cis-regulatory element (CRE data from the ENCODE project; finally we built a set of classifiers to predict the cell type specificity of eQTLs. The cell type specificity of eQTLs is associated with eQTL SNP overlap with hundreds of cell type specific CRE classes, including enhancer, promoter, and repressive chromatin marks, regions of open chromatin, and many classes of DNA binding proteins. These associations provide insight into the molecular mechanisms generating the cell type specificity of eQTLs and the mode of regulation of corresponding eQTLs. Using a random forest classifier with cell specific CRE-SNP overlap as features, we demonstrate the feasibility of predicting the cell type specificity of eQTLs. We then demonstrate that CREs from a trait-associated cell type can be used to annotate GWAS associations in the absence of eQTL data for that cell type. We anticipate that such integrative, predictive modeling of cell specificity will improve our ability to understand the mechanistic basis of human

  8. Cis-regulatory element based targeted gene finding: genome-wide identification of abscisic acid- and abiotic stress-responsive genes in Arabidopsis thaliana.

    Science.gov (United States)

    Zhang, Weixiong; Ruan, Jianhua; Ho, Tuan-Hua David; You, Youngsook; Yu, Taotao; Quatrano, Ralph S

    2005-07-15

    A fundamental problem of computational genomics is identifying the genes that respond to certain endogenous cues and environmental stimuli. This problem can be referred to as targeted gene finding. Since gene regulation is mainly determined by the binding of transcription factors and cis-regulatory DNA sequences, most existing gene annotation methods, which exploit the conservation of open reading frames, are not effective in finding target genes. A viable approach to targeted gene finding is to exploit the cis-regulatory elements that are known to be responsible for the transcription of target genes. Given such cis-elements, putative target genes whose promoters contain the elements can be identified. As a case study, we apply the above approach to predict the genes in model plant Arabidopsis thaliana which are inducible by a phytohormone, abscisic acid (ABA), and abiotic stress, such as drought, cold and salinity. We first construct and analyze two ABA specific cis-elements, ABA-responsive element (ABRE) and its coupling element (CE), in A.thaliana, based on their conservation in rice and other cereal plants. We then use the ABRE-CE module to identify putative ABA-responsive genes in A.thaliana. Based on RT-PCR verification and the results from literature, this method has an accuracy rate of 67.5% for the top 40 predictions. The cis-element based targeted gene finding approach is expected to be widely applicable since a large number of cis-elements in many species are available.

  9. Identification of sparsely distributed clusters of cis-regulatory elements in sets of co-expressed genes

    OpenAIRE

    Kreiman, Gabriel

    2004-01-01

    Sequence information and high‐throughput methods to measure gene expression levels open the door to explore transcriptional regulation using computational tools. Combinatorial regulation and sparseness of regulatory elements throughout the genome allow organisms to control the spatial and temporal patterns of gene expression. Here we study the organization of cis‐regulatory elements in sets of co‐regulated genes. We build an algorithm to search for combinations of transcription factor binding...

  10. Distinct cis regulatory elements govern the expression of TAG1 in embryonic sensory ganglia and spinal cord.

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    Yoav Hadas

    Full Text Available Cell fate commitment of spinal progenitor neurons is initiated by long-range, midline-derived, morphogens that regulate an array of transcription factors that, in turn, act sequentially or in parallel to control neuronal differentiation. Included among these are transcription factors that regulate the expression of receptors for guidance cues, thereby determining axonal trajectories. The Ig/FNIII superfamily molecules TAG1/Axonin1/CNTN2 (TAG1 and Neurofascin (Nfasc are co-expressed in numerous neuronal cell types in the CNS and PNS - for example motor, DRG and interneurons - both promote neurite outgrowth and both are required for the architecture and function of nodes of Ranvier. The genes encoding TAG1 and Nfasc are adjacent in the genome, an arrangement which is evolutionarily conserved. To study the transcriptional network that governs TAG1 and Nfasc expression in spinal motor and commissural neurons, we set out to identify cis elements that regulate their expression. Two evolutionarily conserved DNA modules, one located between the Nfasc and TAG1 genes and the second directly 5' to the first exon and encompassing the first intron of TAG1, were identified that direct complementary expression to the CNS and PNS, respectively, of the embryonic hindbrain and spinal cord. Sequential deletions and point mutations of the CNS enhancer element revealed a 130bp element containing three conserved E-boxes required for motor neuron expression. In combination, these two elements appear to recapitulate a major part of the pattern of TAG1 expression in the embryonic nervous system.

  11. Functional dissection of the promoter of the pollen-specific gene NTP303 reveals a novel pollen-specific, and conserved cis-regulatory element.

    Science.gov (United States)

    Weterings, K; Schrauwen, J; Wullems, G; Twell, D

    1995-07-01

    Regulatory elements within the promoter of the pollen-specific NTP303 gene from tobacco were analysed by transient and stable expression analyses. Analysis of precisely targeted mutations showed that the NTP303 promoter is not regulated by any of the previously described pollen-specific cis-regulatory elements. However, two adjacent regions from -103 to -86 bp and from -86 to -59 bp were shown to contain sequences which positively regulated the NTP303 promoter. Both of these regions were capable of driving pollen-specific expression from a heterologous promoter, independent of orientation and in an additive manner. The boundaries of the minimal, functional NTP303 promoter were determined to lie within the region -86 to -51 bp. The sequence AAATGA localized from -94 to -89 bp was identified as a novel cis-acting element, of which the TGA triplet was shown to comprise an active part. This element was shown to be completely conserved in the similarly regulated promoter of the Bp 10 gene from Brassica napus encoding a homologue of the NTP303 gene.

  12. Properties of non-coding DNA and identification of putative cis-regulatory elements in Theileria parva

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    Guo Xiang

    2008-12-01

    Full Text Available Abstract Background Parasites in the genus Theileria cause lymphoproliferative diseases in cattle, resulting in enormous socio-economic losses. The availability of the genome sequences and annotation for T. parva and T. annulata has facilitated the study of parasite biology and their relationship with host cell transformation and tropism. However, the mechanism of transcriptional regulation in this genus, which may be key to understanding fundamental aspects of its parasitology, remains poorly understood. In this study, we analyze the evolution of non-coding sequences in the Theileria genome and identify conserved sequence elements that may be involved in gene regulation of these parasitic species. Results Intergenic regions and introns in Theileria are short, and their length distributions are considerably right-skewed. Intergenic regions flanked by genes in 5'-5' orientation tend to be longer and slightly more AT-rich than those flanked by two stop codons; intergenic regions flanked by genes in 3'-5' orientation have intermediate values of length and AT composition. Intron position is negatively correlated with intron length, and positively correlated with GC content. Using stringent criteria, we identified a set of high-quality orthologous non-coding sequences between T. parva and T. annulata, and determined the distribution of selective constraints across regions, which are shown to be higher close to translation start sites. A positive correlation between constraint and length in both intergenic regions and introns suggests a tight control over length expansion of non-coding regions. Genome-wide searches for functional elements revealed several conserved motifs in intergenic regions of Theileria genomes. Two such motifs are preferentially located within the first 60 base pairs upstream of transcription start sites in T. parva, are preferentially associated with specific protein functional categories, and have significant similarity to know

  13. PlantPAN: Plant promoter analysis navigator, for identifying combinatorial cis-regulatory elements with distance constraint in plant gene groups

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    Huang Hsien-Da

    2008-11-01

    Full Text Available Abstract Background The elucidation of transcriptional regulation in plant genes is important area of research for plant scientists, following the mapping of various plant genomes, such as A. thaliana, O. sativa and Z. mays. A variety of bioinformatic servers or databases of plant promoters have been established, although most have been focused only on annotating transcription factor binding sites in a single gene and have neglected some important regulatory elements (tandem repeats and CpG/CpNpG islands in promoter regions. Additionally, the combinatorial interaction of transcription factors (TFs is important in regulating the gene group that is associated with the same expression pattern. Therefore, a tool for detecting the co-regulation of transcription factors in a group of gene promoters is required. Results This study develops a database-assisted system, PlantPAN (Plant Promoter Analysis Navigator, for recognizing combinatorial cis-regulatory elements with a distance constraint in sets of plant genes. The system collects the plant transcription factor binding profiles from PLACE, TRANSFAC (public release 7.0, AGRIS, and JASPER databases and allows users to input a group of gene IDs or promoter sequences, enabling the co-occurrence of combinatorial transcription factor binding sites (TFBSs within a defined distance (20 bp to 200 bp to be identified. Furthermore, the new resource enables other regulatory features in a plant promoter, such as CpG/CpNpG islands and tandem repeats, to be displayed. The regulatory elements in the conserved regions of the promoters across homologous genes are detected and presented. Conclusion In addition to providing a user-friendly input/output interface, PlantPAN has numerous advantages in the analysis of a plant promoter. Several case studies have established the effectiveness of PlantPAN. This novel analytical resource is now freely available at http://PlantPAN.mbc.nctu.edu.tw.

  14. Identification of Predictive Cis-Regulatory Elements Using a Discriminative Objective Function and a Dynamic Search Space.

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    Rahul Karnik

    Full Text Available The generation of genomic binding or accessibility data from massively parallel sequencing technologies such as ChIP-seq and DNase-seq continues to accelerate. Yet state-of-the-art computational approaches for the identification of DNA binding motifs often yield motifs of weak predictive power. Here we present a novel computational algorithm called MotifSpec, designed to find predictive motifs, in contrast to over-represented sequence elements. The key distinguishing feature of this algorithm is that it uses a dynamic search space and a learned threshold to find discriminative motifs in combination with the modeling of motifs using a full PWM (position weight matrix rather than k-mer words or regular expressions. We demonstrate that our approach finds motifs corresponding to known binding specificities in several mammalian ChIP-seq datasets, and that our PWMs classify the ChIP-seq signals with accuracy comparable to, or marginally better than motifs from the best existing algorithms. In other datasets, our algorithm identifies novel motifs where other methods fail. Finally, we apply this algorithm to detect motifs from expression datasets in C. elegans using a dynamic expression similarity metric rather than fixed expression clusters, and find novel predictive motifs.

  15. CRX ChIP-seq reveals the cis-regulatory architecture of mouse photoreceptors

    NARCIS (Netherlands)

    J.C. Corbo (Joseph); K.A. Lawrence (Karen); M. Karlstetter (Marcus); C.A. Myers (Connie); M. Abdelaziz (Musa); W. Dirkes (William); K. Weigelt (Karin); M. Seifert (Martin); V. Benes (Vladimir); L.G. Fritsche (Lars); B.H.F. Weber (Bernhard); T. Langmann (Thomas)

    2010-01-01

    textabstractApproximately 98% of mammalian DNA is noncoding, yet we understand relatively little about the function of this enigmatic portion of the genome. The cis-regulatory elements that control gene expression reside in noncoding regions and can be identified by mapping the binding sites of

  16. Cis-regulatory control of the nuclear receptor Coup-TF gene in the sea urchin Paracentrotus lividus embryo.

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    Lamprini G Kalampoki

    Full Text Available Coup-TF, an orphan member of the nuclear receptor super family, has a fundamental role in the development of metazoan embryos. The study of the gene's regulatory circuit in the sea urchin embryo will facilitate the placement of this transcription factor in the well-studied embryonic Gene Regulatory Network (GRN. The Paracentrotus lividus Coup-TF gene (PlCoup-TF is expressed throughout embryonic development preferentially in the oral ectoderm of the gastrula and the ciliary band of the pluteus stage. Two overlapping λ genomic clones, containing three exons and upstream sequences of PlCoup-TF, were isolated from a genomic library. The transcription initiation site was determined and 5' deletions and individual segments of a 1930 bp upstream region were placed ahead of a GFP reporter cassette and injected into fertilized P.lividus eggs. Module a (-532 to -232, was necessary and sufficient to confer ciliary band expression to the reporter. Comparison of P.lividus and Strongylocentrotus purpuratus upstream Coup-TF sequences, revealed considerable conservation, but none within module a. 5' and internal deletions into module a, defined a smaller region that confers ciliary band specific expression. Putative regulatory cis-acting elements (RE1, RE2 and RE3 within module a, were specifically bound by proteins in sea urchin embryonic nuclear extracts. Site-specific mutagenesis of these elements resulted in loss of reporter activity (RE1 or ectopic expression (RE2, RE3. It is proposed that sea urchin transcription factors, which bind these three regulatory sites, are necessary for spatial and quantitative regulation of the PlCoup-TF gene at pluteus stage sea urchin embryos. These findings lead to the future identification of these factors and to the hierarchical positioning of PlCoup-TF within the embryonic GRN.

  17. Genome-wide prediction of cis-regulatory regions using supervised deep learning methods.

    Science.gov (United States)

    Li, Yifeng; Shi, Wenqiang; Wasserman, Wyeth W

    2018-05-31

    In the human genome, 98% of DNA sequences are non-protein-coding regions that were previously disregarded as junk DNA. In fact, non-coding regions host a variety of cis-regulatory regions which precisely control the expression of genes. Thus, Identifying active cis-regulatory regions in the human genome is critical for understanding gene regulation and assessing the impact of genetic variation on phenotype. The developments of high-throughput sequencing and machine learning technologies make it possible to predict cis-regulatory regions genome wide. Based on rich data resources such as the Encyclopedia of DNA Elements (ENCODE) and the Functional Annotation of the Mammalian Genome (FANTOM) projects, we introduce DECRES based on supervised deep learning approaches for the identification of enhancer and promoter regions in the human genome. Due to their ability to discover patterns in large and complex data, the introduction of deep learning methods enables a significant advance in our knowledge of the genomic locations of cis-regulatory regions. Using models for well-characterized cell lines, we identify key experimental features that contribute to the predictive performance. Applying DECRES, we delineate locations of 300,000 candidate enhancers genome wide (6.8% of the genome, of which 40,000 are supported by bidirectional transcription data), and 26,000 candidate promoters (0.6% of the genome). The predicted annotations of cis-regulatory regions will provide broad utility for genome interpretation from functional genomics to clinical applications. The DECRES model demonstrates potentials of deep learning technologies when combined with high-throughput sequencing data, and inspires the development of other advanced neural network models for further improvement of genome annotations.

  18. Two potential hookworm DAF-16 target genes, SNR-3 and LPP-1: gene structure, expression profile, and implications of a cis-regulatory element in the regulation of gene expression.

    Science.gov (United States)

    Gao, Xin; Goggin, Kevin; Dowling, Camille; Qian, Jason; Hawdon, John M

    2015-01-08

    Hookworms infect nearly 700 million people, causing anemia and developmental stunting in heavy infections. Little is known about the genomic structure or gene regulation in hookworms, although recent publication of draft genome assemblies has allowed the first investigations of these topics to be undertaken. The transcription factor DAF-16 mediates multiple developmental pathways in the free living nematode Caenorhabditis elegans, and is involved in the recovery from the developmentally arrested L3 in hookworms. Identification of downstream targets of DAF-16 will provide a better understanding of the molecular mechanism of hookworm infection. Genomic Fragment 2.23 containing a DAF-16 binding element (DBE) was used to identify overlapping complementary expressed sequence tags (ESTs). These sequences were used to search a draft assembly of the Ancylostoma caninum genome, and identified two neighboring genes, snr-3 and lpp-1, in a tail-to-tail orientation. Expression patterns of both genes during parasitic development were determined by qRT-PCR. DAF-16 dependent cis-regulatory activity of fragment 2.23 was investigated using an in vitro reporter system. The snr-3 gene spans approximately 5.6 kb in the genome and contains 3 exons and 2 introns, and contains the DBE in its 3' untranslated region. Downstream from snr-3 in a tail-to-tail arrangement is the gene lpp-1. The lpp-1 gene spans more than 6 kb and contains 10 exons and 9 introns. The A. caninum genome contains 2 apparent splice variants, but there are 7 splice variants in the A. ceylanicum genome. While the gene order is similar, the gene structures of the hookworm genes differ from their C. elegans orthologs. Both genes show peak expression in the late L4 stage. Using a cell culture based expression system, fragment 2.23 was found to have both DAF-16-dependent promoter and enhancer activity that required an intact DBE. Two putative DAF-16 targets were identified by genome wide screening for DAF-16 binding

  19. Statistical significance of cis-regulatory modules

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    Smith Andrew D

    2007-01-01

    Full Text Available Abstract Background It is becoming increasingly important for researchers to be able to scan through large genomic regions for transcription factor binding sites or clusters of binding sites forming cis-regulatory modules. Correspondingly, there has been a push to develop algorithms for the rapid detection and assessment of cis-regulatory modules. While various algorithms for this purpose have been introduced, most are not well suited for rapid, genome scale scanning. Results We introduce methods designed for the detection and statistical evaluation of cis-regulatory modules, modeled as either clusters of individual binding sites or as combinations of sites with constrained organization. In order to determine the statistical significance of module sites, we first need a method to determine the statistical significance of single transcription factor binding site matches. We introduce a straightforward method of estimating the statistical significance of single site matches using a database of known promoters to produce data structures that can be used to estimate p-values for binding site matches. We next introduce a technique to calculate the statistical significance of the arrangement of binding sites within a module using a max-gap model. If the module scanned for has defined organizational parameters, the probability of the module is corrected to account for organizational constraints. The statistical significance of single site matches and the architecture of sites within the module can be combined to provide an overall estimation of statistical significance of cis-regulatory module sites. Conclusion The methods introduced in this paper allow for the detection and statistical evaluation of single transcription factor binding sites and cis-regulatory modules. The features described are implemented in the Search Tool for Occurrences of Regulatory Motifs (STORM and MODSTORM software.

  20. Identification and characterization of promoters and cis-regulatory elements of genes involved in secondary metabolites production in hop (Humulus lupulus. L)

    Czech Academy of Sciences Publication Activity Database

    Duraisamy, Ganesh Selvaraj; Mishra, Ajay Kumar; Kocábek, Tomáš; Matoušek, Jaroslav

    2016-01-01

    Roč. 84, October (2016), s. 346-352 ISSN 1476-9271 R&D Projects: GA ČR GA13-03037S Institutional support: RVO:60077344 Keywords : Cis-acting elements * Gene regulation * Humulus lupulus Subject RIV: EB - Genetics ; Molecular Biology Impact factor: 1.331, year: 2016

  1. Dissection of cis-regulatory element architecture of the rice oleosin gene promoters to assess abscisic acid responsiveness in suspension-cultured rice cells.

    Science.gov (United States)

    Kim, Sol; Lee, Soo-Bin; Han, Chae-Seong; Lim, Mi-Na; Lee, Sung-Eun; Yoon, In Sun; Hwang, Yong-Sic

    2017-08-01

    Oleosins are the most abundant proteins in the monolipid layer surrounding neutral storage lipids that form oil bodies in plants. Several lines of evidence indicate that they are physiologically important for the maintenance of oil body structure and for mobilization of the lipids stored inside. Rice has six oleosin genes in its genome, the expression of all of which was found to be responsive to abscisic acid (ABA) in our examination of mature embryo and aleurone tissues. The 5'-flanking region of OsOle5 was initially characterized for its responsiveness to ABA through a transient expression assay system using the protoplasts from suspension-cultured rice cells. A series of successive deletions and site-directed mutations identified five regions critical for the hormonal induction of its promoter activity. A search for cis-acting elements in these regions deposited in a public database revealed that they contain various promoter elements previously reported to be involved in the ABA response of various genes. A gain-of-function experiment indicated that multiple copies of all five regions were sufficient to provide the minimal promoter with a distinct ABA responsiveness. Comparative sequence analysis of the short, but still ABA-responsive, promoters of OsOle genes revealed no common modular architecture shared by them, indicating that various distinct promoter elements and independent trans-acting factors are involved in the ABA responsiveness of rice oleosin multigenes. Copyright © 2017 Elsevier GmbH. All rights reserved.

  2. The cis-regulatory element CCACGTGG is involved in ABA and water-stress responses of the maize gene rab28.

    Science.gov (United States)

    Pla, M; Vilardell, J; Guiltinan, M J; Marcotte, W R; Niogret, M F; Quatrano, R S; Pagès, M

    1993-01-01

    The maize gene rab28 has been identified as ABA-inducible in embryos and vegetative tissues. It is also induced by water stress in young leaves. The proximal promoter region contains the conserved cis-acting element CCACGTGG (ABRE) reported for ABA induction in other plant genes. Transient expression assays in rice protoplasts indicate that a 134 bp fragment (-194 to -60 containing the ABRE) fused to a truncated cauliflower mosaic virus promoter (35S) is sufficient to confer ABA-responsiveness upon the GUS reporter gene. Gel retardation experiments indicate that nuclear proteins from tissues in which the rab28 gene is expressed can interact specifically with this 134 bp DNA fragment. Nuclear protein extracts from embryo and water-stressed leaves generate specific complexes of different electrophoretic mobility which are stable in the presence of detergent and high salt. However, by DMS footprinting the same guanine-specific contacts with the ABRE in both the embryo and leaf binding activities were detected. These results indicate that the rab28 promoter sequence CCACGTGG is a functional ABA-responsive element, and suggest that distinct regulatory factors with apparent similar affinity for the ABRE sequence may be involved in the hormone action during embryo development and in vegetative tissues subjected to osmotic stress.

  3. Preaxial polydactyly/triphalangeal thumb is associated with changed transcription factor-binding affinity in a family with a novel point mutation in the long-range cis-regulatory element ZRS

    DEFF Research Database (Denmark)

    Farooq, Muhammad; Troelsen, Jesper T; Boyd, Mette

    2010-01-01

    A cis-regulatory sequence also known as zone of polarizing activity (ZPA) regulatory sequence (ZRS) located in intron 5 of LMBR1 is essential for expression of sonic hedgehog (SHH) in the developing posterior limb bud mesenchyme. Even though many point mutations causing preaxial duplication defects...... demonstrated a marked difference between wild-type and the mutant probe, which uniquely bound one or several transcription factors extracted from Caco-2 cells. This finding supports a model in which ectopic anterior SHH expression in the developing limb results from abnormal binding of one or more...

  4. Cis-regulatory somatic mutations and gene-expression alteration in B-cell lymphomas.

    Science.gov (United States)

    Mathelier, Anthony; Lefebvre, Calvin; Zhang, Allen W; Arenillas, David J; Ding, Jiarui; Wasserman, Wyeth W; Shah, Sohrab P

    2015-04-23

    With the rapid increase of whole-genome sequencing of human cancers, an important opportunity to analyze and characterize somatic mutations lying within cis-regulatory regions has emerged. A focus on protein-coding regions to identify nonsense or missense mutations disruptive to protein structure and/or function has led to important insights; however, the impact on gene expression of mutations lying within cis-regulatory regions remains under-explored. We analyzed somatic mutations from 84 matched tumor-normal whole genomes from B-cell lymphomas with accompanying gene expression measurements to elucidate the extent to which these cancers are disrupted by cis-regulatory mutations. We characterize mutations overlapping a high quality set of well-annotated transcription factor binding sites (TFBSs), covering a similar portion of the genome as protein-coding exons. Our results indicate that cis-regulatory mutations overlapping predicted TFBSs are enriched in promoter regions of genes involved in apoptosis or growth/proliferation. By integrating gene expression data with mutation data, our computational approach culminates with identification of cis-regulatory mutations most likely to participate in dysregulation of the gene expression program. The impact can be measured along with protein-coding mutations to highlight key mutations disrupting gene expression and pathways in cancer. Our study yields specific genes with disrupted expression triggered by genomic mutations in either the coding or the regulatory space. It implies that mutated regulatory components of the genome contribute substantially to cancer pathways. Our analyses demonstrate that identifying genomically altered cis-regulatory elements coupled with analysis of gene expression data will augment biological interpretation of mutational landscapes of cancers.

  5. Barcoded DNA-tag reporters for multiplex cis-regulatory analysis.

    Directory of Open Access Journals (Sweden)

    Jongmin Nam

    Full Text Available Cis-regulatory DNA sequences causally mediate patterns of gene expression, but efficient experimental analysis of these control systems has remained challenging. Here we develop a new version of "barcoded" DNA-tag reporters, "Nanotags" that permit simultaneous quantitative analysis of up to 130 distinct cis-regulatory modules (CRMs. The activities of these reporters are measured in single experiments by the NanoString RNA counting method and other quantitative procedures. We demonstrate the efficiency of the Nanotag method by simultaneously measuring hourly temporal activities of 126 CRMs from 46 genes in the developing sea urchin embryo, otherwise a virtually impossible task. Nanotags are also used in gene perturbation experiments to reveal cis-regulatory responses of many CRMs at once. Nanotag methodology can be applied to many research areas, ranging from gene regulatory networks to functional and evolutionary genomics.

  6. Using hexamers to predict cis-regulatory motifs in Drosophila

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    Kibler Dennis

    2005-10-01

    Full Text Available Abstract Background Cis-regulatory modules (CRMs are short stretches of DNA that help regulate gene expression in higher eukaryotes. They have been found up to 1 megabase away from the genes they regulate and can be located upstream, downstream, and even within their target genes. Due to the difficulty of finding CRMs using biological and computational techniques, even well-studied regulatory systems may contain CRMs that have not yet been discovered. Results We present a simple, efficient method (HexDiff based only on hexamer frequencies of known CRMs and non-CRM sequence to predict novel CRMs in regulatory systems. On a data set of 16 gap and pair-rule genes containing 52 known CRMs, predictions made by HexDiff had a higher correlation with the known CRMs than several existing CRM prediction algorithms: Ahab, Cluster Buster, MSCAN, MCAST, and LWF. After combining the results of the different algorithms, 10 putative CRMs were identified and are strong candidates for future study. The hexamers used by HexDiff to distinguish between CRMs and non-CRM sequence were also analyzed and were shown to be enriched in regulatory elements. Conclusion HexDiff provides an efficient and effective means for finding new CRMs based on known CRMs, rather than known binding sites.

  7. Creating and validating cis-regulatory maps of tissue-specific gene expression regulation

    Science.gov (United States)

    O'Connor, Timothy R.; Bailey, Timothy L.

    2014-01-01

    Predicting which genomic regions control the transcription of a given gene is a challenge. We present a novel computational approach for creating and validating maps that associate genomic regions (cis-regulatory modules–CRMs) with genes. The method infers regulatory relationships that explain gene expression observed in a test tissue using widely available genomic data for ‘other’ tissues. To predict the regulatory targets of a CRM, we use cross-tissue correlation between histone modifications present at the CRM and expression at genes within 1 Mbp of it. To validate cis-regulatory maps, we show that they yield more accurate models of gene expression than carefully constructed control maps. These gene expression models predict observed gene expression from transcription factor binding in the CRMs linked to that gene. We show that our maps are able to identify long-range regulatory interactions and improve substantially over maps linking genes and CRMs based on either the control maps or a ‘nearest neighbor’ heuristic. Our results also show that it is essential to include CRMs predicted in multiple tissues during map-building, that H3K27ac is the most informative histone modification, and that CAGE is the most informative measure of gene expression for creating cis-regulatory maps. PMID:25200088

  8. Pathogenic adaptation of intracellular bacteria by rewiring a cis-regulatory input function.

    Science.gov (United States)

    Osborne, Suzanne E; Walthers, Don; Tomljenovic, Ana M; Mulder, David T; Silphaduang, Uma; Duong, Nancy; Lowden, Michael J; Wickham, Mark E; Waller, Ross F; Kenney, Linda J; Coombes, Brian K

    2009-03-10

    The acquisition of DNA by horizontal gene transfer enables bacteria to adapt to previously unexploited ecological niches. Although horizontal gene transfer and mutation of protein-coding sequences are well-recognized forms of pathogen evolution, the evolutionary significance of cis-regulatory mutations in creating phenotypic diversity through altered transcriptional outputs is not known. We show the significance of regulatory mutation for pathogen evolution by mapping and then rewiring a cis-regulatory module controlling a gene required for murine typhoid. Acquisition of a binding site for the Salmonella pathogenicity island-2 regulator, SsrB, enabled the srfN gene, ancestral to the Salmonella genus, to play a role in pathoadaptation of S. typhimurium to a host animal. We identified the evolved cis-regulatory module and quantified the fitness gain that this regulatory output accrues for the bacterium using competitive infections of host animals. Our findings highlight a mechanism of pathogen evolution involving regulatory mutation that is selected because of the fitness advantage the new regulatory output provides the incipient clones.

  9. On the Concept of Cis-regulatory Information: From Sequence Motifs to Logic Functions

    Science.gov (United States)

    Tarpine, Ryan; Istrail, Sorin

    The regulatory genome is about the “system level organization of the core genomic regulatory apparatus, and how this is the locus of causality underlying the twin phenomena of animal development and animal evolution” (E.H. Davidson. The Regulatory Genome: Gene Regulatory Networks in Development and Evolution, Academic Press, 2006). Information processing in the regulatory genome is done through regulatory states, defined as sets of transcription factors (sequence-specific DNA binding proteins which determine gene expression) that are expressed and active at the same time. The core information processing machinery consists of modular DNA sequence elements, called cis-modules, that interact with transcription factors. The cis-modules “read” the information contained in the regulatory state of the cell through transcription factor binding, “process” it, and directly or indirectly communicate with the basal transcription apparatus to determine gene expression. This endowment of each gene with the information-receiving capacity through their cis-regulatory modules is essential for the response to every possible regulatory state to which it might be exposed during all phases of the life cycle and in all cell types. We present here a set of challenges addressed by our CYRENE research project aimed at studying the cis-regulatory code of the regulatory genome. The CYRENE Project is devoted to (1) the construction of a database, the cis-Lexicon, containing comprehensive information across species about experimentally validated cis-regulatory modules; and (2) the software development of a next-generation genome browser, the cis-Browser, specialized for the regulatory genome. The presentation is anchored on three main computational challenges: the Gene Naming Problem, the Consensus Sequence Bottleneck Problem, and the Logic Function Inference Problem.

  10. Plasticity of the cis-regulatory input function of a gene.

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    Avraham E Mayo

    2006-04-01

    Full Text Available The transcription rate of a gene is often controlled by several regulators that bind specific sites in the gene's cis-regulatory region. The combined effect of these regulators is described by a cis-regulatory input function. What determines the form of an input function, and how variable is it with respect to mutations? To address this, we employ the well-characterized lac operon of Escherichia coli, which has an elaborate input function, intermediate between Boolean AND-gate and OR-gate logic. We mapped in detail the input function of 12 variants of the lac promoter, each with different point mutations in the regulator binding sites, by means of accurate expression measurements from living cells. We find that even a few mutations can significantly change the input function, resulting in functions that resemble Pure AND gates, OR gates, or single-input switches. Other types of gates were not found. The variant input functions can be described in a unified manner by a mathematical model. The model also lets us predict which functions cannot be reached by point mutations. The input function that we studied thus appears to be plastic, in the sense that many of the mutations do not ruin the regulation completely but rather result in new ways to integrate the inputs.

  11. Evolution of New cis-Regulatory Motifs Required for Cell-Specific Gene Expression in Caenorhabditis.

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    Michalis Barkoulas

    2016-09-01

    Full Text Available Patterning of C. elegans vulval cell fates relies on inductive signaling. In this induction event, a single cell, the gonadal anchor cell, secretes LIN-3/EGF and induces three out of six competent precursor cells to acquire a vulval fate. We previously showed that this developmental system is robust to a four-fold variation in lin-3/EGF genetic dose. Here using single-molecule FISH, we find that the mean level of expression of lin-3 in the anchor cell is remarkably conserved. No change in lin-3 expression level could be detected among C. elegans wild isolates and only a low level of change-less than 30%-in the Caenorhabditis genus and in Oscheius tipulae. In C. elegans, lin-3 expression in the anchor cell is known to require three transcription factor binding sites, specifically two E-boxes and a nuclear-hormone-receptor (NHR binding site. Mutation of any of these three elements in C. elegans results in a dramatic decrease in lin-3 expression. Yet only a single E-box is found in the Drosophilae supergroup of Caenorhabditis species, including C. angaria, while the NHR-binding site likely only evolved at the base of the Elegans group. We find that a transgene from C. angaria bearing a single E-box is sufficient for normal expression in C. elegans. Even a short 58 bp cis-regulatory fragment from C. angaria with this single E-box is able to replace the three transcription factor binding sites at the endogenous C. elegans lin-3 locus, resulting in the wild-type expression level. Thus, regulatory evolution occurring in cis within a 58 bp lin-3 fragment, results in a strict requirement for the NHR binding site and a second E-box in C. elegans. This single-cell, single-molecule, quantitative and functional evo-devo study demonstrates that conserved expression levels can hide extensive change in cis-regulatory site requirements and highlights the evolution of new cis-regulatory elements required for cell-specific gene expression.

  12. Genetic mapping uncovers cis-regulatory landscape of RNA editing.

    Science.gov (United States)

    Ramaswami, Gokul; Deng, Patricia; Zhang, Rui; Anna Carbone, Mary; Mackay, Trudy F C; Li, Jin Billy

    2015-09-16

    Adenosine-to-inosine (A-to-I) RNA editing, catalysed by ADAR enzymes conserved in metazoans, plays an important role in neurological functions. Although the fine-tuning mechanism provided by A-to-I RNA editing is important, the underlying rules governing ADAR substrate recognition are not well understood. We apply a quantitative trait loci (QTL) mapping approach to identify genetic variants associated with variability in RNA editing. With very accurate measurement of RNA editing levels at 789 sites in 131 Drosophila melanogaster strains, here we identify 545 editing QTLs (edQTLs) associated with differences in RNA editing. We demonstrate that many edQTLs can act through changes in the local secondary structure for edited dsRNAs. Furthermore, we find that edQTLs located outside of the edited dsRNA duplex are enriched in secondary structure, suggesting that distal dsRNA structure beyond the editing site duplex affects RNA editing efficiency. Our work will facilitate the understanding of the cis-regulatory code of RNA editing.

  13. Brachyury, Foxa2 and the cis-Regulatory Origins of the Notochord.

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    Diana S José-Edwards

    2015-12-01

    Full Text Available A main challenge of modern biology is to understand how specific constellations of genes are activated to differentiate cells and give rise to distinct tissues. This study focuses on elucidating how gene expression is initiated in the notochord, an axial structure that provides support and patterning signals to embryos of humans and all other chordates. Although numerous notochord genes have been identified, the regulatory DNAs that orchestrate development and propel evolution of this structure by eliciting notochord gene expression remain mostly uncharted, and the information on their configuration and recurrence is still quite fragmentary. Here we used the simple chordate Ciona for a systematic analysis of notochord cis-regulatory modules (CRMs, and investigated their composition, architectural constraints, predictive ability and evolutionary conservation. We found that most Ciona notochord CRMs relied upon variable combinations of binding sites for the transcription factors Brachyury and/or Foxa2, which can act either synergistically or independently from one another. Notably, one of these CRMs contains a Brachyury binding site juxtaposed to an (AC microsatellite, an unusual arrangement also found in Brachyury-bound regulatory regions in mouse. In contrast, different subsets of CRMs relied upon binding sites for transcription factors of widely diverse families. Surprisingly, we found that neither intra-genomic nor interspecific conservation of binding sites were reliably predictive hallmarks of notochord CRMs. We propose that rather than obeying a rigid sequence-based cis-regulatory code, most notochord CRMs are rather unique. Yet, this study uncovered essential elements recurrently used by divergent chordates as basic building blocks for notochord CRMs.

  14. Brachyury, Foxa2 and the cis-Regulatory Origins of the Notochord.

    Science.gov (United States)

    José-Edwards, Diana S; Oda-Ishii, Izumi; Kugler, Jamie E; Passamaneck, Yale J; Katikala, Lavanya; Nibu, Yutaka; Di Gregorio, Anna

    2015-12-01

    A main challenge of modern biology is to understand how specific constellations of genes are activated to differentiate cells and give rise to distinct tissues. This study focuses on elucidating how gene expression is initiated in the notochord, an axial structure that provides support and patterning signals to embryos of humans and all other chordates. Although numerous notochord genes have been identified, the regulatory DNAs that orchestrate development and propel evolution of this structure by eliciting notochord gene expression remain mostly uncharted, and the information on their configuration and recurrence is still quite fragmentary. Here we used the simple chordate Ciona for a systematic analysis of notochord cis-regulatory modules (CRMs), and investigated their composition, architectural constraints, predictive ability and evolutionary conservation. We found that most Ciona notochord CRMs relied upon variable combinations of binding sites for the transcription factors Brachyury and/or Foxa2, which can act either synergistically or independently from one another. Notably, one of these CRMs contains a Brachyury binding site juxtaposed to an (AC) microsatellite, an unusual arrangement also found in Brachyury-bound regulatory regions in mouse. In contrast, different subsets of CRMs relied upon binding sites for transcription factors of widely diverse families. Surprisingly, we found that neither intra-genomic nor interspecific conservation of binding sites were reliably predictive hallmarks of notochord CRMs. We propose that rather than obeying a rigid sequence-based cis-regulatory code, most notochord CRMs are rather unique. Yet, this study uncovered essential elements recurrently used by divergent chordates as basic building blocks for notochord CRMs.

  15. ChIP-Seq-Annotated Heliconius erato Genome Highlights Patterns of cis-Regulatory Evolution in Lepidoptera

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    James J. Lewis

    2016-09-01

    Full Text Available Uncovering phylogenetic patterns of cis-regulatory evolution remains a fundamental goal for evolutionary and developmental biology. Here, we characterize the evolution of regulatory loci in butterflies and moths using chromatin immunoprecipitation sequencing (ChIP-seq annotation of regulatory elements across three stages of head development. In the process we provide a high-quality, functionally annotated genome assembly for the butterfly, Heliconius erato. Comparing cis-regulatory element conservation across six lepidopteran genomes, we find that regulatory sequences evolve at a pace similar to that of protein-coding regions. We also observe that elements active at multiple developmental stages are markedly more conserved than elements with stage-specific activity. Surprisingly, we also find that stage-specific proximal and distal regulatory elements evolve at nearly identical rates. Our study provides a benchmark for genome-wide patterns of regulatory element evolution in insects, and it shows that developmental timing of activity strongly predicts patterns of regulatory sequence evolution.

  16. Using reporter gene assays to identify cis regulatory differences between humans and chimpanzees.

    Science.gov (United States)

    Chabot, Adrien; Shrit, Ralla A; Blekhman, Ran; Gilad, Yoav

    2007-08-01

    Most phenotypic differences between human and chimpanzee are likely to result from differences in gene regulation, rather than changes to protein-coding regions. To date, however, only a handful of human-chimpanzee nucleotide differences leading to changes in gene regulation have been identified. To hone in on differences in regulatory elements between human and chimpanzee, we focused on 10 genes that were previously found to be differentially expressed between the two species. We then designed reporter gene assays for the putative human and chimpanzee promoters of the 10 genes. Of seven promoters that we found to be active in human liver cell lines, human and chimpanzee promoters had significantly different activity in four cases, three of which recapitulated the gene expression difference seen in the microarray experiment. For these three genes, we were therefore able to demonstrate that a change in cis influences expression differences between humans and chimpanzees. Moreover, using site-directed mutagenesis on one construct, the promoter for the DDA3 gene, we were able to identify three nucleotides that together lead to a cis regulatory difference between the species. High-throughput application of this approach can provide a map of regulatory element differences between humans and our close evolutionary relatives.

  17. Direct activation of a notochord cis-regulatory module by Brachyury and FoxA in the ascidian Ciona intestinalis.

    Science.gov (United States)

    Passamaneck, Yale J; Katikala, Lavanya; Perrone, Lorena; Dunn, Matthew P; Oda-Ishii, Izumi; Di Gregorio, Anna

    2009-11-01

    The notochord is a defining feature of the chordate body plan. Experiments in ascidian, frog and mouse embryos have shown that co-expression of Brachyury and FoxA class transcription factors is required for notochord development. However, studies on the cis-regulatory sequences mediating the synergistic effects of these transcription factors are complicated by the limited knowledge of notochord genes and cis-regulatory modules (CRMs) that are directly targeted by both. We have identified an easily testable model for such investigations in a 155-bp notochord-specific CRM from the ascidian Ciona intestinalis. This CRM contains functional binding sites for both Ciona Brachyury (Ci-Bra) and FoxA (Ci-FoxA-a). By combining point mutation analysis and misexpression experiments, we demonstrate that binding of both transcription factors to this CRM is necessary and sufficient to activate transcription. To gain insights into the cis-regulatory criteria controlling its activity, we investigated the organization of the transcription factor binding sites within the 155-bp CRM. The 155-bp sequence contains two Ci-Bra binding sites with identical core sequences but opposite orientations, only one of which is required for enhancer activity. Changes in both orientation and spacing of these sites substantially affect the activity of the CRM, as clusters of identical sites found in the Ciona genome with different arrangements are unable to activate transcription in notochord cells. This work presents the first evidence of a synergistic interaction between Brachyury and FoxA in the activation of an individual notochord CRM, and highlights the importance of transcription factor binding site arrangement for its function.

  18. Predicting tissue specific cis-regulatory modules in the human genome using pairs of co-occurring motifs

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    Girgis Hani Z

    2012-02-01

    Full Text Available Abstract Background Researchers seeking to unlock the genetic basis of human physiology and diseases have been studying gene transcription regulation. The temporal and spatial patterns of gene expression are controlled by mainly non-coding elements known as cis-regulatory modules (CRMs and epigenetic factors. CRMs modulating related genes share the regulatory signature which consists of transcription factor (TF binding sites (TFBSs. Identifying such CRMs is a challenging problem due to the prohibitive number of sequence sets that need to be analyzed. Results We formulated the challenge as a supervised classification problem even though experimentally validated CRMs were not required. Our efforts resulted in a software system named CrmMiner. The system mines for CRMs in the vicinity of related genes. CrmMiner requires two sets of sequences: a mixed set and a control set. Sequences in the vicinity of the related genes comprise the mixed set, whereas the control set includes random genomic sequences. CrmMiner assumes that a large percentage of the mixed set is made of background sequences that do not include CRMs. The system identifies pairs of closely located motifs representing vertebrate TFBSs that are enriched in the training mixed set consisting of 50% of the gene loci. In addition, CrmMiner selects a group of the enriched pairs to represent the tissue-specific regulatory signature. The mixed and the control sets are searched for candidate sequences that include any of the selected pairs. Next, an optimal Bayesian classifier is used to distinguish candidates found in the mixed set from their control counterparts. Our study proposes 62 tissue-specific regulatory signatures and putative CRMs for different human tissues and cell types. These signatures consist of assortments of ubiquitously expressed TFs and tissue-specific TFs. Under controlled settings, CrmMiner identified known CRMs in noisy sets up to 1:25 signal-to-noise ratio. CrmMiner was

  19. Functional evolution of cis-regulatory modules at a homeotic gene in Drosophila.

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    Margaret C W Ho

    2009-11-01

    Full Text Available It is a long-held belief in evolutionary biology that the rate of molecular evolution for a given DNA sequence is inversely related to the level of functional constraint. This belief holds true for the protein-coding homeotic (Hox genes originally discovered in Drosophila melanogaster. Expression of the Hox genes in Drosophila embryos is essential for body patterning and is controlled by an extensive array of cis-regulatory modules (CRMs. How the regulatory modules functionally evolve in different species is not clear. A comparison of the CRMs for the Abdominal-B gene from different Drosophila species reveals relatively low levels of overall sequence conservation. However, embryonic enhancer CRMs from other Drosophila species direct transgenic reporter gene expression in the same spatial and temporal patterns during development as their D. melanogaster orthologs. Bioinformatic analysis reveals the presence of short conserved sequences within defined CRMs, representing gap and pair-rule transcription factor binding sites. One predicted binding site for the gap transcription factor KRUPPEL in the IAB5 CRM was found to be altered in Superabdominal (Sab mutations. In Sab mutant flies, the third abdominal segment is transformed into a copy of the fifth abdominal segment. A model for KRUPPEL-mediated repression at this binding site is presented. These findings challenge our current understanding of the relationship between sequence evolution at the molecular level and functional activity of a CRM. While the overall sequence conservation at Drosophila CRMs is not distinctive from neighboring genomic regions, functionally critical transcription factor binding sites within embryonic enhancer CRMs are highly conserved. These results have implications for understanding mechanisms of gene expression during embryonic development, enhancer function, and the molecular evolution of eukaryotic regulatory modules.

  20. Patterns of cis regulatory variation in diverse human populations.

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    Barbara E Stranger

    Full Text Available The genetic basis of gene expression variation has long been studied with the aim to understand the landscape of regulatory variants, but also more recently to assist in the interpretation and elucidation of disease signals. To date, many studies have looked in specific tissues and population-based samples, but there has been limited assessment of the degree of inter-population variability in regulatory variation. We analyzed genome-wide gene expression in lymphoblastoid cell lines from a total of 726 individuals from 8 global populations from the HapMap3 project and correlated gene expression levels with HapMap3 SNPs located in cis to the genes. We describe the influence of ancestry on gene expression levels within and between these diverse human populations and uncover a non-negligible impact on global patterns of gene expression. We further dissect the specific functional pathways differentiated between populations. We also identify 5,691 expression quantitative trait loci (eQTLs after controlling for both non-genetic factors and population admixture and observe that half of the cis-eQTLs are replicated in one or more of the populations. We highlight patterns of eQTL-sharing between populations, which are partially determined by population genetic relatedness, and discover significant sharing of eQTL effects between Asians, European-admixed, and African subpopulations. Specifically, we observe that both the effect size and the direction of effect for eQTLs are highly conserved across populations. We observe an increasing proximity of eQTLs toward the transcription start site as sharing of eQTLs among populations increases, highlighting that variants close to TSS have stronger effects and therefore are more likely to be detected across a wider panel of populations. Together these results offer a unique picture and resource of the degree of differentiation among human populations in functional regulatory variation and provide an estimate for

  1. Prediction of tissue-specific cis-regulatory modules using Bayesian networks and regression trees

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    Chen Xiaoyu

    2007-12-01

    Full Text Available Abstract Background In vertebrates, a large part of gene transcriptional regulation is operated by cis-regulatory modules. These modules are believed to be regulating much of the tissue-specificity of gene expression. Results We develop a Bayesian network approach for identifying cis-regulatory modules likely to regulate tissue-specific expression. The network integrates predicted transcription factor binding site information, transcription factor expression data, and target gene expression data. At its core is a regression tree modeling the effect of combinations of transcription factors bound to a module. A new unsupervised EM-like algorithm is developed to learn the parameters of the network, including the regression tree structure. Conclusion Our approach is shown to accurately identify known human liver and erythroid-specific modules. When applied to the prediction of tissue-specific modules in 10 different tissues, the network predicts a number of important transcription factor combinations whose concerted binding is associated to specific expression.

  2. Computational and molecular dissection of an X-box cis-Regulatory module

    OpenAIRE

    Warrington, Timothy Burton

    2015-01-01

    Ciliopathies are a class of human diseases marked by dysfunction of the cellular organelle, cilia. While many of the molecular components that make up cilia have been identified and studied, comparatively little is understood about the transcriptional regulation of genes encoding these components. The conserved transcription factor Regulatory Factor X (RFX)/DAF-19, which acts through binding to the cis-regulatory motif known as X-box, has been shown to regulate ciliary genes in many animals f...

  3. Computational exploration of cis-regulatory modules in rhythmic expression data using the "Exploration of Distinctive CREs and CRMs" (EDCC) and "CRM Network Generator" (CNG) programs.

    Science.gov (United States)

    Bekiaris, Pavlos Stephanos; Tekath, Tobias; Staiger, Dorothee; Danisman, Selahattin

    2018-01-01

    Understanding the effect of cis-regulatory elements (CRE) and clusters of CREs, which are called cis-regulatory modules (CRM), in eukaryotic gene expression is a challenge of computational biology. We developed two programs that allow simple, fast and reliable analysis of candidate CREs and CRMs that may affect specific gene expression and that determine positional features between individual CREs within a CRM. The first program, "Exploration of Distinctive CREs and CRMs" (EDCC), correlates candidate CREs and CRMs with specific gene expression patterns. For pairs of CREs, EDCC also determines positional preferences of the single CREs in relation to each other and to the transcriptional start site. The second program, "CRM Network Generator" (CNG), prioritizes these positional preferences using a neural network and thus allows unbiased rating of the positional preferences that were determined by EDCC. We tested these programs with data from a microarray study of circadian gene expression in Arabidopsis thaliana. Analyzing more than 1.5 million pairwise CRE combinations, we found 22 candidate combinations, of which several contained known clock promoter elements together with elements that had not been identified as relevant to circadian gene expression before. CNG analysis further identified positional preferences of these CRE pairs, hinting at positional information that may be relevant for circadian gene expression. Future wet lab experiments will have to determine which of these combinations confer daytime specific circadian gene expression.

  4. Mapping of cis-regulatory sites in the promoter of testis-specific stellate genes of Drosophila melanogaster.

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    Olenkina, O M; Egorova, K S; Aravin, A A; Naumova, N M; Gvozdev, V A; Olenina, L V

    2012-11-01

    Tandem Stellate genes organized into two clusters in heterochromatin and euchromatin of the X-chromosome are part of the Ste-Su(Ste) genetic system required for maintenance of male fertility and reproduction of Drosophila melanogaster. Stellate genes encode a regulatory subunit of protein kinase CK2 and are the main targets of germline-specific piRNA-silencing; their derepression leads to appearance of protein crystals in spermatocytes, meiotic disturbances, and male sterility. A short promoter region of 134 bp appears to be sufficient for testis-specific transcription of Stellate, and it contains three closely located cis-regulatory elements called E-boxes. By using reporter analysis, we confirmed a strong functionality of the E-boxes in the Stellate promoter for in vivo transcription. Using selective mutagenesis, we have shown that the presence of the central E-box 2 is preferable to maintain a high-level testis-specific transcription of the reporter gene under the Stellate promoter. The Stellate promoter provides transcription even in heterochromatin, and corresponding mRNAs are translated with the generation of full-size protein products in case of disturbances in the piRNA-silencing process. We have also shown for the first time that the activity of the Stellate promoter is determined by chromatin context of the X-chromosome in male germinal cells, and it increases at about twofold when relocating in autosomes.

  5. A New Algorithm for Identifying Cis-Regulatory Modules Based on Hidden Markov Model

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    Haitao Guo

    2017-01-01

    Full Text Available The discovery of cis-regulatory modules (CRMs is the key to understanding mechanisms of transcription regulation. Since CRMs have specific regulatory structures that are the basis for the regulation of gene expression, how to model the regulatory structure of CRMs has a considerable impact on the performance of CRM identification. The paper proposes a CRM discovery algorithm called ComSPS. ComSPS builds a regulatory structure model of CRMs based on HMM by exploring the rules of CRM transcriptional grammar that governs the internal motif site arrangement of CRMs. We test ComSPS on three benchmark datasets and compare it with five existing methods. Experimental results show that ComSPS performs better than them.

  6. A New Algorithm for Identifying Cis-Regulatory Modules Based on Hidden Markov Model

    Science.gov (United States)

    2017-01-01

    The discovery of cis-regulatory modules (CRMs) is the key to understanding mechanisms of transcription regulation. Since CRMs have specific regulatory structures that are the basis for the regulation of gene expression, how to model the regulatory structure of CRMs has a considerable impact on the performance of CRM identification. The paper proposes a CRM discovery algorithm called ComSPS. ComSPS builds a regulatory structure model of CRMs based on HMM by exploring the rules of CRM transcriptional grammar that governs the internal motif site arrangement of CRMs. We test ComSPS on three benchmark datasets and compare it with five existing methods. Experimental results show that ComSPS performs better than them. PMID:28497059

  7. Alignment and prediction of cis-regulatory modules based on a probabilistic model of evolution.

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    Xin He

    2009-03-01

    Full Text Available Cross-species comparison has emerged as a powerful paradigm for predicting cis-regulatory modules (CRMs and understanding their evolution. The comparison requires reliable sequence alignment, which remains a challenging task for less conserved noncoding sequences. Furthermore, the existing models of DNA sequence evolution generally do not explicitly treat the special properties of CRM sequences. To address these limitations, we propose a model of CRM evolution that captures different modes of evolution of functional transcription factor binding sites (TFBSs and the background sequences. A particularly novel aspect of our work is a probabilistic model of gains and losses of TFBSs, a process being recognized as an important part of regulatory sequence evolution. We present a computational framework that uses this model to solve the problems of CRM alignment and prediction. Our alignment method is similar to existing methods of statistical alignment but uses the conserved binding sites to improve alignment. Our CRM prediction method deals with the inherent uncertainties of binding site annotations and sequence alignment in a probabilistic framework. In simulated as well as real data, we demonstrate that our program is able to improve both alignment and prediction of CRM sequences over several state-of-the-art methods. Finally, we used alignments produced by our program to study binding site conservation in genome-wide binding data of key transcription factors in the Drosophila blastoderm, with two intriguing results: (i the factor-bound sequences are under strong evolutionary constraints even if their neighboring genes are not expressed in the blastoderm and (ii binding sites in distal bound sequences (relative to transcription start sites tend to be more conserved than those in proximal regions. Our approach is implemented as software, EMMA (Evolutionary Model-based cis-regulatory Module Analysis, ready to be applied in a broad biological context.

  8. Quantitative statistical analysis of cis-regulatory sequences in ABA/VP1- and CBF/DREB1-regulated genes of Arabidopsis.

    Science.gov (United States)

    Suzuki, Masaharu; Ketterling, Matthew G; McCarty, Donald R

    2005-09-01

    We have developed a simple quantitative computational approach for objective analysis of cis-regulatory sequences in promoters of coregulated genes. The program, designated MotifFinder, identifies oligo sequences that are overrepresented in promoters of coregulated genes. We used this approach to analyze promoter sequences of Viviparous1 (VP1)/abscisic acid (ABA)-regulated genes and cold-regulated genes, respectively, of Arabidopsis (Arabidopsis thaliana). We detected significantly enriched sequences in up-regulated genes but not in down-regulated genes. This result suggests that gene activation but not repression is mediated by specific and common sequence elements in promoters. The enriched motifs include several known cis-regulatory sequences as well as previously unidentified motifs. With respect to known cis-elements, we dissected the flanking nucleotides of the core sequences of Sph element, ABA response elements (ABREs), and the C repeat/dehydration-responsive element. This analysis identified the motif variants that may correlate with qualitative and quantitative differences in gene expression. While both VP1 and cold responses are mediated in part by ABA signaling via ABREs, these responses correlate with unique ABRE variants distinguished by nucleotides flanking the ACGT core. ABRE and Sph motifs are tightly associated uniquely in the coregulated set of genes showing a strict dependence on VP1 and ABA signaling. Finally, analysis of distribution of the enriched sequences revealed a striking concentration of enriched motifs in a proximal 200-base region of VP1/ABA and cold-regulated promoters. Overall, each class of coregulated genes possesses a discrete set of the enriched motifs with unique distributions in their promoters that may account for the specificity of gene regulation.

  9. A cis-regulatory sequence driving metabolic insecticide resistance in mosquitoes: functional characterisation and signatures of selection.

    Science.gov (United States)

    Wilding, Craig S; Smith, Ian; Lynd, Amy; Yawson, Alexander Egyir; Weetman, David; Paine, Mark J I; Donnelly, Martin J

    2012-09-01

    Although cytochrome P450 (CYP450) enzymes are frequently up-regulated in mosquitoes resistant to insecticides, no regulatory motifs driving these expression differences with relevance to wild populations have been identified. Transposable elements (TEs) are often enriched upstream of those CYP450s involved in insecticide resistance, leading to the assumption that they contribute regulatory motifs that directly underlie the resistance phenotype. A partial CuRE1 (Culex Repetitive Element 1) transposable element is found directly upstream of CYP9M10, a cytochrome P450 implicated previously in larval resistance to permethrin in the ISOP450 strain of Culex quinquefasciatus, but is absent from the equivalent genomic region of a susceptible strain. Via expression of CYP9M10 in Escherichia coli we have now demonstrated time- and NADPH-dependant permethrin metabolism, prerequisites for confirmation of a role in metabolic resistance, and through qPCR shown that CYP9M10 is >20-fold over-expressed in ISOP450 compared to a susceptible strain. In a fluorescent reporter assay the region upstream of CYP9M10 from ISOP450 drove 10× expression compared to the equivalent region (lacking CuRE1) from the susceptible strain. Close correspondence with the gene expression fold-change implicates the upstream region including CuRE1 as a cis-regulatory element involved in resistance. Only a single CuRE1 bearing allele, identical to the CuRE1 bearing allele in the resistant strain, is found throughout Sub-Saharan Africa, in contrast to the diversity encountered in non-CuRE1 alleles. This suggests a single origin and subsequent spread due to selective advantage. CuRE1 is detectable using a simple diagnostic. When applied to C. quinquefasciatus larvae from Ghana we have demonstrated a significant association with permethrin resistance in multiple field sites (mean Odds Ratio = 3.86) suggesting this marker has relevance to natural populations of vector mosquitoes. However, when CuRE1 was excised

  10. Identifying cis-regulatory modules by combining comparative and compositional analysis of DNA.

    Science.gov (United States)

    Pierstorff, Nora; Bergman, Casey M; Wiehe, Thomas

    2006-12-01

    Predicting cis-regulatory modules (CRMs) in higher eukaryotes is a challenging computational task. Commonly used methods to predict CRMs based on the signal of transcription factor binding sites (TFBS) are limited by prior information about transcription factor specificity. More general methods that bypass the reliance on TFBS models are needed for comprehensive CRM prediction. We have developed a method to predict CRMs called CisPlusFinder that identifies high density regions of perfect local ungapped sequences (PLUSs) based on multiple species conservation. By assuming that PLUSs contain core TFBS motifs that are locally overrepresented, the method attempts to capture the expected features of CRM structure and evolution. Applied to a benchmark dataset of CRMs involved in early Drosophila development, CisPlusFinder predicts more annotated CRMs than all other methods tested. Using the REDfly database, we find that some 'false positive' predictions in the benchmark dataset correspond to recently annotated CRMs. Our work demonstrates that CRM prediction methods that combine comparative genomic data with statistical properties of DNA may achieve reasonable performance when applied genome-wide in the absence of an a priori set of known TFBS motifs. The program CisPlusFinder can be downloaded at http://jakob.genetik.uni-koeln.de/bioinformatik/people/nora/nora.html. All software is licensed under the Lesser GNU Public License (LGPL).

  11. Validation of Skeletal Muscle cis-Regulatory Module Predictions Reveals Nucleotide Composition Bias in Functional Enhancers

    Science.gov (United States)

    Kwon, Andrew T.; Chou, Alice Yi; Arenillas, David J.; Wasserman, Wyeth W.

    2011-01-01

    We performed a genome-wide scan for muscle-specific cis-regulatory modules (CRMs) using three computational prediction programs. Based on the predictions, 339 candidate CRMs were tested in cell culture with NIH3T3 fibroblasts and C2C12 myoblasts for capacity to direct selective reporter gene expression to differentiated C2C12 myotubes. A subset of 19 CRMs validated as functional in the assay. The rate of predictive success reveals striking limitations of computational regulatory sequence analysis methods for CRM discovery. Motif-based methods performed no better than predictions based only on sequence conservation. Analysis of the properties of the functional sequences relative to inactive sequences identifies nucleotide sequence composition can be an important characteristic to incorporate in future methods for improved predictive specificity. Muscle-related TFBSs predicted within the functional sequences display greater sequence conservation than non-TFBS flanking regions. Comparison with recent MyoD and histone modification ChIP-Seq data supports the validity of the functional regions. PMID:22144875

  12. Validation of skeletal muscle cis-regulatory module predictions reveals nucleotide composition bias in functional enhancers.

    Directory of Open Access Journals (Sweden)

    Andrew T Kwon

    2011-12-01

    Full Text Available We performed a genome-wide scan for muscle-specific cis-regulatory modules (CRMs using three computational prediction programs. Based on the predictions, 339 candidate CRMs were tested in cell culture with NIH3T3 fibroblasts and C2C12 myoblasts for capacity to direct selective reporter gene expression to differentiated C2C12 myotubes. A subset of 19 CRMs validated as functional in the assay. The rate of predictive success reveals striking limitations of computational regulatory sequence analysis methods for CRM discovery. Motif-based methods performed no better than predictions based only on sequence conservation. Analysis of the properties of the functional sequences relative to inactive sequences identifies nucleotide sequence composition can be an important characteristic to incorporate in future methods for improved predictive specificity. Muscle-related TFBSs predicted within the functional sequences display greater sequence conservation than non-TFBS flanking regions. Comparison with recent MyoD and histone modification ChIP-Seq data supports the validity of the functional regions.

  13. Characterization of Cer-1 cis-regulatory region during early Xenopus development.

    Science.gov (United States)

    Silva, Ana Cristina; Filipe, Mário; Steinbeisser, Herbert; Belo, José António

    2011-05-01

    Cerberus-related molecules are well-known Wnt, Nodal, and BMP inhibitors that have been implicated in different processes including anterior–posterior patterning and left–right asymmetry. In both mouse and frog, two Cerberus-related genes have been isolated, mCer-1 and mCer-2, and Xcer and Xcoco, respectively. Until now, little is known about the mechanisms involved in their transcriptional regulation. Here, we report a heterologous analysis of the mouse Cerberus-1 gene upstream regulatory regions, responsible for its expression in the visceral endodermal cells. Our analysis showed that the consensus sequences for a TATA, CAAT, or GC boxes were absent but a TGTGG sequence was present at position -172 to -168 bp, relative to the ATG. Using a series of deletion constructs and transient expression in Xenopus embryos, we found that a fragment of 1.4 kb of Cer-1 promoter sequence could reproduce the endogenous expression pattern of Xenopus cerberus. A 0.7-kb mcer-1 upstream region was able to drive reporter expression to the involuting mesendodermal cells, while further deletions abolished reporter gene expression. Our results suggest that although no sequence similarity was found between mouse and Xenopus cerberus cis-regulatory regions, the signaling cascades regulating cerberus expression, during gastrulation, is conserved.

  14. PReMod: a database of genome-wide mammalian cis-regulatory module predictions.

    Science.gov (United States)

    Ferretti, Vincent; Poitras, Christian; Bergeron, Dominique; Coulombe, Benoit; Robert, François; Blanchette, Mathieu

    2007-01-01

    We describe PReMod, a new database of genome-wide cis-regulatory module (CRM) predictions for both the human and the mouse genomes. The prediction algorithm, described previously in Blanchette et al. (2006) Genome Res., 16, 656-668, exploits the fact that many known CRMs are made of clusters of phylogenetically conserved and repeated transcription factors (TF) binding sites. Contrary to other existing databases, PReMod is not restricted to modules located proximal to genes, but in fact mostly contains distal predicted CRMs (pCRMs). Through its web interface, PReMod allows users to (i) identify pCRMs around a gene of interest; (ii) identify pCRMs that have binding sites for a given TF (or a set of TFs) or (iii) download the entire dataset for local analyses. Queries can also be refined by filtering for specific chromosomal regions, for specific regions relative to genes or for the presence of CpG islands. The output includes information about the binding sites predicted within the selected pCRMs, and a graphical display of their distribution within the pCRMs. It also provides a visual depiction of the chromosomal context of the selected pCRMs in terms of neighboring pCRMs and genes, all of which are linked to the UCSC Genome Browser and the NCBI. PReMod: http://genomequebec.mcgill.ca/PReMod.

  15. Lmx1b-targeted cis-regulatory modules involved in limb dorsalization.

    Science.gov (United States)

    Haro, Endika; Watson, Billy A; Feenstra, Jennifer M; Tegeler, Luke; Pira, Charmaine U; Mohan, Subburaman; Oberg, Kerby C

    2017-06-01

    Lmx1b is a homeodomain transcription factor responsible for limb dorsalization. Despite striking double-ventral (loss-of-function) and double-dorsal (gain-of-function) limb phenotypes, no direct gene targets in the limb have been confirmed. To determine direct targets, we performed a chromatin immunoprecipitation against Lmx1b in mouse limbs at embryonic day 12.5 followed by next-generation sequencing (ChIP-seq). Nearly 84% ( n =617) of the Lmx1b-bound genomic intervals (LBIs) identified overlap with chromatin regulatory marks indicative of potential cis -regulatory modules (PCRMs). In addition, 73 LBIs mapped to CRMs that are known to be active during limb development. We compared Lmx1b-bound PCRMs with genes regulated by Lmx1b and found 292 PCRMs within 1 Mb of 254 Lmx1b-regulated genes. Gene ontological analysis suggests that Lmx1b targets extracellular matrix production, bone/joint formation, axonal guidance, vascular development, cell proliferation and cell movement. We validated the functional activity of a PCRM associated with joint-related Gdf5 that provides a mechanism for Lmx1b-mediated joint modification and a PCRM associated with Lmx1b that suggests a role in autoregulation. This is the first report to describe genome-wide Lmx1b binding during limb development, directly linking Lmx1b to targets that accomplish limb dorsalization. © 2017. Published by The Company of Biologists Ltd.

  16. Identifying Cis-Regulatory Changes Involved in the Evolution of Aerobic Fermentation in Yeasts

    Science.gov (United States)

    Lin, Zhenguo; Wang, Tzi-Yuan; Tsai, Bing-Shi; Wu, Fang-Ting; Yu, Fu-Jung; Tseng, Yu-Jung; Sung, Huang-Mo; Li, Wen-Hsiung

    2013-01-01

    Gene regulation change has long been recognized as an important mechanism for phenotypic evolution. We used the evolution of yeast aerobic fermentation as a model to explore how gene regulation has evolved and how this process has contributed to phenotypic evolution and adaptation. Most eukaryotes fully oxidize glucose to CO2 and H2O in mitochondria to maximize energy yield, whereas some yeasts, such as Saccharomyces cerevisiae and its relatives, predominantly ferment glucose into ethanol even in the presence of oxygen, a phenomenon known as aerobic fermentation. We examined the genome-wide gene expression levels among 12 different yeasts and found that a group of genes involved in the mitochondrial respiration process showed the largest reduction in gene expression level during the evolution of aerobic fermentation. Our analysis revealed that the downregulation of these genes was significantly associated with massive loss of binding motifs of Cbf1p in the fermentative yeasts. Our experimental assays confirmed the binding of Cbf1p to the predicted motif and the activator role of Cbf1p. In summary, our study laid a foundation to unravel the long-time mystery about the genetic basis of evolution of aerobic fermentation, providing new insights into understanding the role of cis-regulatory changes in phenotypic evolution. PMID:23650209

  17. Bioinformatic analysis of cis-regulatory interactions between progesterone and estrogen receptors in breast cancer

    Directory of Open Access Journals (Sweden)

    Matloob Khushi

    2014-11-01

    Full Text Available Chromatin factors interact with each other in a cell and sequence-specific manner in order to regulate transcription and a wealth of publically available datasets exists describing the genomic locations of these interactions. Our recently published BiSA (Binding Sites Analyser database contains transcription factor binding locations and epigenetic modifications collected from published studies and provides tools to analyse stored and imported data. Using BiSA we investigated the overlapping cis-regulatory role of estrogen receptor alpha (ERα and progesterone receptor (PR in the T-47D breast cancer cell line. We found that ERα binding sites overlap with a subset of PR binding sites. To investigate further, we re-analysed raw data to remove any biases introduced by the use of distinct tools in the original publications. We identified 22,152 PR and 18,560 ERα binding sites (<5% false discovery rate with 4,358 overlapping regions among the two datasets. BiSA statistical analysis revealed a non-significant overall overlap correlation between the two factors, suggesting that ERα and PR are not partner factors and do not require each other for binding to occur. However, Monte Carlo simulation by Binary Interval Search (BITS, Relevant Distance, Absolute Distance, Jaccard and Projection tests by Genometricorr revealed a statistically significant spatial correlation of binding regions on chromosome between the two factors. Motif analysis revealed that the shared binding regions were enriched with binding motifs for ERα, PR and a number of other transcription and pioneer factors. Some of these factors are known to co-locate with ERα and PR binding. Therefore spatially close proximity of ERα binding sites with PR binding sites suggests that ERα and PR, in general function independently at the molecular level, but that their activities converge on a specific subset of transcriptional targets.

  18. An integrative and applicable phylogenetic footprinting framework for cis-regulatory motifs identification in prokaryotic genomes.

    Science.gov (United States)

    Liu, Bingqiang; Zhang, Hanyuan; Zhou, Chuan; Li, Guojun; Fennell, Anne; Wang, Guanghui; Kang, Yu; Liu, Qi; Ma, Qin

    2016-08-09

    Phylogenetic footprinting is an important computational technique for identifying cis-regulatory motifs in orthologous regulatory regions from multiple genomes, as motifs tend to evolve slower than their surrounding non-functional sequences. Its application, however, has several difficulties for optimizing the selection of orthologous data and reducing the false positives in motif prediction. Here we present an integrative phylogenetic footprinting framework for accurate motif predictions in prokaryotic genomes (MP(3)). The framework includes a new orthologous data preparation procedure, an additional promoter scoring and pruning method and an integration of six existing motif finding algorithms as basic motif search engines. Specifically, we collected orthologous genes from available prokaryotic genomes and built the orthologous regulatory regions based on sequence similarity of promoter regions. This procedure made full use of the large-scale genomic data and taxonomy information and filtered out the promoters with limited contribution to produce a high quality orthologous promoter set. The promoter scoring and pruning is implemented through motif voting by a set of complementary predicting tools that mine as many motif candidates as possible and simultaneously eliminate the effect of random noise. We have applied the framework to Escherichia coli k12 genome and evaluated the prediction performance through comparison with seven existing programs. This evaluation was systematically carried out at the nucleotide and binding site level, and the results showed that MP(3) consistently outperformed other popular motif finding tools. We have integrated MP(3) into our motif identification and analysis server DMINDA, allowing users to efficiently identify and analyze motifs in 2,072 completely sequenced prokaryotic genomes. The performance evaluation indicated that MP(3) is effective for predicting regulatory motifs in prokaryotic genomes. Its application may enhance

  19. LDsplit: screening for cis-regulatory motifs stimulating meiotic recombination hotspots by analysis of DNA sequence polymorphisms.

    Science.gov (United States)

    Yang, Peng; Wu, Min; Guo, Jing; Kwoh, Chee Keong; Przytycka, Teresa M; Zheng, Jie

    2014-02-17

    As a fundamental genomic element, meiotic recombination hotspot plays important roles in life sciences. Thus uncovering its regulatory mechanisms has broad impact on biomedical research. Despite the recent identification of the zinc finger protein PRDM9 and its 13-mer binding motif as major regulators for meiotic recombination hotspots, other regulators remain to be discovered. Existing methods for finding DNA sequence motifs of recombination hotspots often rely on the enrichment of co-localizations between hotspots and short DNA patterns, which ignore the cross-individual variation of recombination rates and sequence polymorphisms in the population. Our objective in this paper is to capture signals encoded in genetic variations for the discovery of recombination-associated DNA motifs. Recently, an algorithm called "LDsplit" has been designed to detect the association between single nucleotide polymorphisms (SNPs) and proximal meiotic recombination hotspots. The association is measured by the difference of population recombination rates at a hotspot between two alleles of a candidate SNP. Here we present an open source software tool of LDsplit, with integrative data visualization for recombination hotspots and their proximal SNPs. Applying LDsplit on SNPs inside an established 7-mer motif bound by PRDM9 we observed that SNP alleles preserving the original motif tend to have higher recombination rates than the opposite alleles that disrupt the motif. Running on SNP windows around hotspots each containing an occurrence of the 7-mer motif, LDsplit is able to guide the established motif finding algorithm of MEME to recover the 7-mer motif. In contrast, without LDsplit the 7-mer motif could not be identified. LDsplit is a software tool for the discovery of cis-regulatory DNA sequence motifs stimulating meiotic recombination hotspots by screening and narrowing down to hotspot associated SNPs. It is the first computational method that utilizes the genetic variation of

  20. Identification of a cis-regulatory region of a gene in Arabidopsis thaliana whose induction by dehydration is mediated by abscisic acid and requires protein synthesis.

    Science.gov (United States)

    Iwasaki, T; Yamaguchi-Shinozaki, K; Shinozaki, K

    1995-05-20

    In Arabidopsis thaliana, the induction of a dehydration-responsive gene, rd22, is mediated by abscisic acid (ABA) but the gene does not include any sequence corresponding to the consensus ABA-responsive element (ABRE), RYACGTGGYR, in its promoter region. The cis-regulatory region of the rd22 promoter was identified by monitoring the expression of beta-glucuronidase (GUS) activity in leaves of transgenic tobacco plants transformed with chimeric gene fusions constructed between 5'-deleted promoters of rd22 and the coding region of the GUS reporter gene. A 67-bp nucleotide fragment corresponding to positions -207 to -141 of the rd22 promoter conferred responsiveness to dehydration and ABA on a non-responsive promoter. The 67-bp fragment contains the sequences of the recognition sites for some transcription factors, such as MYC, MYB, and GT-1. The fact that accumulation of rd22 mRNA requires protein synthesis raises the possibility that the expression of rd22 might be regulated by one of these trans-acting protein factors whose de novo synthesis is induced by dehydration or ABA. Although the structure of the RD22 protein is very similar to that of a non-storage seed protein, USP, of Vicia faba, the expression of the GUS gene driven by the rd22 promoter in non-stressed transgenic Arabidopsis plants was found mainly in flowers and bolted stems rather than in seeds.

  1. cisMEP: an integrated repository of genomic epigenetic profiles and cis-regulatory modules in Drosophila.

    Science.gov (United States)

    Yang, Tzu-Hsien; Wang, Chung-Ching; Hung, Po-Cheng; Wu, Wei-Sheng

    2014-01-01

    Cis-regulatory modules (CRMs), or the DNA sequences required for regulating gene expression, play the central role in biological researches on transcriptional regulation in metazoan species. Nowadays, the systematic understanding of CRMs still mainly resorts to computational methods due to the time-consuming and small-scale nature of experimental methods. But the accuracy and reliability of different CRM prediction tools are still unclear. Without comparative cross-analysis of the results and combinatorial consideration with extra experimental information, there is no easy way to assess the confidence of the predicted CRMs. This limits the genome-wide understanding of CRMs. It is known that transcription factor binding and epigenetic profiles tend to determine functions of CRMs in gene transcriptional regulation. Thus integration of the genome-wide epigenetic profiles with systematically predicted CRMs can greatly help researchers evaluate and decipher the prediction confidence and possible transcriptional regulatory functions of these potential CRMs. However, these data are still fragmentary in the literatures. Here we performed the computational genome-wide screening for potential CRMs using different prediction tools and constructed the pioneer database, cisMEP (cis-regulatory module epigenetic profile database), to integrate these computationally identified CRMs with genomic epigenetic profile data. cisMEP collects the literature-curated TFBS location data and nine genres of epigenetic data for assessing the confidence of these potential CRMs and deciphering the possible CRM functionality. cisMEP aims to provide a user-friendly interface for researchers to assess the confidence of different potential CRMs and to understand the functions of CRMs through experimentally-identified epigenetic profiles. The deposited potential CRMs and experimental epigenetic profiles for confidence assessment provide experimentally testable hypotheses for the molecular mechanisms

  2. Piecing together cis-regulatory networks: insights from epigenomics studies in plants.

    Science.gov (United States)

    Huang, Shao-Shan C; Ecker, Joseph R

    2018-05-01

    5-Methylcytosine, a chemical modification of DNA, is a covalent modification found in the genomes of both plants and animals. Epigenetic inheritance of phenotypes mediated by DNA methylation is well established in plants. Most of the known mechanisms of establishing, maintaining and modifying DNA methylation have been worked out in the reference plant Arabidopsis thaliana. Major functions of DNA methylation in plants include regulation of gene expression and silencing of transposable elements (TEs) and repetitive sequences, both of which have parallels in mammalian biology, involve interaction with the transcriptional machinery, and may have profound effects on the regulatory networks in the cell. Methylome and transcriptome dynamics have been investigated in development and environmental responses in Arabidopsis and agriculturally and ecologically important plants, revealing the interdependent relationship among genomic context, methylation patterns, and expression of TE and protein coding genes. Analyses of methylome variation among plant natural populations and species have begun to quantify the extent of genetic control of methylome variation vs. true epimutation, and model the evolutionary forces driving methylome evolution in both short and long time scales. The ability of DNA methylation to positively or negatively modulate binding affinity of transcription factors (TFs) provides a natural link from genome sequence and methylation changes to transcription. Technologies that allow systematic determination of methylation sensitivities of TFs, in native genomic and methylation context without confounding factors such as histone modifications, will provide baseline datasets for building cell-type- and individual-specific regulatory networks that underlie the establishment and inheritance of complex traits. This article is categorized under: Laboratory Methods and Technologies > Genetic/Genomic Methods Biological Mechanisms > Regulatory Biology. © 2017 Wiley

  3. Mapping cis-Regulatory Domains in the Human Genome UsingMulti-Species Conservation of Synteny

    Energy Technology Data Exchange (ETDEWEB)

    Ahituv, Nadav; Prabhakar, Shyam; Poulin, Francis; Rubin, EdwardM.; Couronne, Olivier

    2005-06-13

    Our inability to associate distant regulatory elements with the genes that they regulate has largely precluded their examination for sequence alterations contributing to human disease. One major obstacle is the large genomic space surrounding targeted genes in which such elements could potentially reside. In order to delineate gene regulatory boundaries we used whole-genome human-mouse-chicken (HMC) and human-mouse-frog (HMF) multiple alignments to compile conserved blocks of synteny (CBS), under the hypothesis that these blocks have been kept intact throughout evolution at least in part by the requirement of regulatory elements to stay linked to the genes that they regulate. A total of 2,116 and 1,942 CBS>200 kb were assembled for HMC and HMF respectively, encompassing 1.53 and 0.86 Gb of human sequence. To support the existence of complex long-range regulatory domains within these CBS we analyzed the prevalence and distribution of chromosomal aberrations leading to position effects (disruption of a genes regulatory environment), observing a clear bias not only for mapping onto CBS but also for longer CBS size. Our results provide a genome wide data set characterizing the regulatory domains of genes and the conserved regulatory elements within them.

  4. Comparative genome sequencing of drosophila pseudoobscura: Chromosomal, gene and cis-element evolution

    Energy Technology Data Exchange (ETDEWEB)

    Richards, Stephen; Liu, Yue; Bettencourt, Brian R.; Hradecky, Pavel; Letovsky, Stan; Nielsen, Rasmus; Thornton, Kevin; Todd, Melissa J.; Chen, Rui; Meisel, Richard P.; Couronne, Olivier; Hua, Sujun; Smith, Mark A.; Bussemaker, Harmen J.; van Batenburg, Marinus F.; Howells, Sally L.; Scherer, Steven E.; Sodergren, Erica; Matthews, Beverly B.; Crosby, Madeline A.; Schroeder, Andrew J.; Ortiz-Barrientos, Daniel; Rives, Catherine M.; Metzker, Michael L.; Muzny, Donna M.; Scott, Graham; Steffen, David; Wheeler, David A.; Worley, Kim C.; Havlak, Paul; Durbin, K. James; Egan, Amy; Gill, Rachel; Hume, Jennifer; Morgan, Margaret B.; Miner, George; Hamilton, Cerissa; Huang, Yanmei; Waldron, Lenee; Verduzco, Daniel; Blankenburg, Kerstin P.; Dubchak, Inna; Noor, Mohamed A.F.; Anderson, Wyatt; White, Kevin P.; Clark, Andrew G.; Schaeffer, Stephen W.; Gelbart, William; Weinstock, George M.; Gibbs, Richard A.

    2004-04-01

    The genome sequence of a second fruit fly, D. pseudoobscura, presents an opportunity for comparative analysis of a primary model organism D. melanogaster. The vast majority of Drosophila genes have remained on the same arm, but within each arm gene order has been extensively reshuffled leading to the identification of approximately 1300 syntenic blocks. A repetitive sequence is found in the D. pseudoobscura genome at many junctions between adjacent syntenic blocks. Analysis of this novel repetitive element family suggests that recombination between offset elements may have given rise to many paracentric inversions, thereby contributing to the shuffling of gene order in the D. pseudoobscura lineage. Based on sequence similarity and synteny, 10,516 putative orthologs have been identified as a core gene set conserved over 35 My since divergence. Genes expressed in the testes had higher amino acid sequence divergence than the genome wide average consistent with the rapid evolution of sex-specific proteins. Cis-regulatory sequences are more conserved than control sequences between the species but the difference is slight, suggesting that the evolution of cis-regulatory elements is flexible. Overall, a picture of repeat mediated chromosomal rearrangement, and high co-adaptation of both male genes and cis-regulatory sequences emerges as important themes of genome divergence between these species of Drosophila.

  5. A minimal murine Msx-1 gene promoter. Organization of its cis-regulatory motifs and their role in transcriptional activation in cells in culture and in transgenic mice.

    Science.gov (United States)

    Takahashi, T; Guron, C; Shetty, S; Matsui, H; Raghow, R

    1997-09-05

    To dissect the cis-regulatory elements of the murine Msx-1 promoter, which lacks a conventional TATA element, a putative Msx-1 promoter DNA fragment (from -1282 to +106 base pairs (bp)) or its congeners containing site-specific alterations were fused to luciferase reporter and introduced into NIH3T3 and C2C12 cells, and the expression of luciferase was assessed in transient expression assays. The functional consequences of the sequential 5' deletions of the promotor revealed that multiple positive and negative regulatory elements participate in regulating transcription of the Msx-1 gene. Surprisingly, however, the optimal expression of Msx-1 promoter in either NIH3T3 or C2C12 cells required only 165 bp of the upstream sequence to warrant detailed examination of its structure. Therefore, the functional consequences of site-specific deletions and point mutations of the cis-acting elements of the minimal Msx-1 promoter were systematically examined. Concomitantly, potential transcriptional factor(s) interacting with the cis-acting elements of the minimal promoter were also studied by gel electrophoretic mobility shift assays and DNase I footprinting. Combined analyses of the minimal promoter by DNase I footprinting, electrophoretic mobility shift assays, and super shift assays with specific antibodies revealed that 5'-flanking regions from -161 to -154 and from -26 to -13 of the Msx-1 promoter contains an authentic E box (proximal E box), capable of binding a protein immunologically related to the upstream stimulating factor 1 (USF-1) and a GC-rich sequence motif which can bind to Sp1 (proximal Sp1), respectively. Additionally, we observed that the promoter activation was seriously hampered if the proximal E box was removed or mutated, and the promoter activity was eliminated completely if the proximal Sp1 site was similarly altered. Absolute dependence of the Msx-1 minimal promoter on Sp1 could be demonstrated by transient expression assays in the Sp1-deficient

  6. Unveiling combinatorial regulation through the combination of ChIP information and in silico cis-regulatory module detection

    Science.gov (United States)

    Sun, Hong; Guns, Tias; Fierro, Ana Carolina; Thorrez, Lieven; Nijssen, Siegfried; Marchal, Kathleen

    2012-01-01

    Computationally retrieving biologically relevant cis-regulatory modules (CRMs) is not straightforward. Because of the large number of candidates and the imperfection of the screening methods, many spurious CRMs are detected that are as high scoring as the biologically true ones. Using ChIP-information allows not only to reduce the regions in which the binding sites of the assayed transcription factor (TF) should be located, but also allows restricting the valid CRMs to those that contain the assayed TF (here referred to as applying CRM detection in a query-based mode). In this study, we show that exploiting ChIP-information in a query-based way makes in silico CRM detection a much more feasible endeavor. To be able to handle the large datasets, the query-based setting and other specificities proper to CRM detection on ChIP-Seq based data, we developed a novel powerful CRM detection method ‘CPModule’. By applying it on a well-studied ChIP-Seq data set involved in self-renewal of mouse embryonic stem cells, we demonstrate how our tool can recover combinatorial regulation of five known TFs that are key in the self-renewal of mouse embryonic stem cells. Additionally, we make a number of new predictions on combinatorial regulation of these five key TFs with other TFs documented in TRANSFAC. PMID:22422841

  7. Does positive selection drive transcription factor binding site turnover? A test with Drosophila cis-regulatory modules.

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    Bin Z He

    2011-04-01

    Full Text Available Transcription factor binding site(s (TFBS gain and loss (i.e., turnover is a well-documented feature of cis-regulatory module (CRM evolution, yet little attention has been paid to the evolutionary force(s driving this turnover process. The predominant view, motivated by its widespread occurrence, emphasizes the importance of compensatory mutation and genetic drift. Positive selection, in contrast, although it has been invoked in specific instances of adaptive gene expression evolution, has not been considered as a general alternative to neutral compensatory evolution. In this study we evaluate the two hypotheses by analyzing patterns of single nucleotide polymorphism in the TFBS of well-characterized CRM in two closely related Drosophila species, Drosophila melanogaster and Drosophila simulans. An important feature of the analysis is classification of TFBS mutations according to the direction of their predicted effect on binding affinity, which allows gains and losses to be evaluated independently along the two phylogenetic lineages. The observed patterns of polymorphism and divergence are not compatible with neutral evolution for either class of mutations. Instead, multiple lines of evidence are consistent with contributions of positive selection to TFBS gain and loss as well as purifying selection in its maintenance. In discussion, we propose a model to reconcile the finding of selection driving TFBS turnover with constrained CRM function over long evolutionary time.

  8. Comprehensive meta-analysis of Signal Transducers and Activators of Transcription (STAT genomic binding patterns discerns cell-specific cis-regulatory modules

    Directory of Open Access Journals (Sweden)

    Kang Keunsoo

    2013-01-01

    Full Text Available Abstract Background Cytokine-activated transcription factors from the STAT (Signal Transducers and Activators of Transcription family control common and context-specific genetic programs. It is not clear to what extent cell-specific features determine the binding capacity of seven STAT members and to what degree they share genetic targets. Molecular insight into the biology of STATs was gained from a meta-analysis of 29 available ChIP-seq data sets covering genome-wide occupancy of STATs 1, 3, 4, 5A, 5B and 6 in several cell types. Results We determined that the genomic binding capacity of STATs is primarily defined by the cell type and to a lesser extent by individual family members. For example, the overlap of shared binding sites between STATs 3 and 5 in T cells is greater than that between STAT5 in T cells and non-T cells. Even for the top 1,000 highly enriched STAT binding sites, ~15% of STAT5 binding sites in mouse female liver are shared by other STATs in different cell types while in T cells ~90% of STAT5 binding sites are co-occupied by STAT3, STAT4 and STAT6. In addition, we identified 116 cis-regulatory modules (CRM, which are recognized by all STAT members across cell types defining a common JAK-STAT signature. Lastly, in liver STAT5 binding significantly coincides with binding of the cell-specific transcription factors HNF4A, FOXA1 and FOXA2 and is associated with cell-type specific gene transcription. Conclusions Our results suggest that genomic binding of STATs is primarily determined by the cell type and further specificity is achieved in part by juxtaposed binding of cell-specific transcription factors.

  9. In silico discovery of transcription regulatory elements in Plasmodium falciparum

    Directory of Open Access Journals (Sweden)

    Le Roch Karine G

    2008-02-01

    Full Text Available Abstract Background With the sequence of the Plasmodium falciparum genome and several global mRNA and protein life cycle expression profiling projects now completed, elucidating the underlying networks of transcriptional control important for the progression of the parasite life cycle is highly pertinent to the development of new anti-malarials. To date, relatively little is known regarding the specific mechanisms the parasite employs to regulate gene expression at the mRNA level, with studies of the P. falciparum genome sequence having revealed few cis-regulatory elements and associated transcription factors. Although it is possible the parasite may evoke mechanisms of transcriptional control drastically different from those used by other eukaryotic organisms, the extreme AT-rich nature of P. falciparum intergenic regions (~90% AT presents significant challenges to in silico cis-regulatory element discovery. Results We have developed an algorithm called Gene Enrichment Motif Searching (GEMS that uses a hypergeometric-based scoring function and a position-weight matrix optimization routine to identify with high-confidence regulatory elements in the nucleotide-biased and repeat sequence-rich P. falciparum genome. When applied to promoter regions of genes contained within 21 co-expression gene clusters generated from P. falciparum life cycle microarray data using the semi-supervised clustering algorithm Ontology-based Pattern Identification, GEMS identified 34 putative cis-regulatory elements associated with a variety of parasite processes including sexual development, cell invasion, antigenic variation and protein biosynthesis. Among these candidates were novel motifs, as well as many of the elements for which biological experimental evidence already exists in the Plasmodium literature. To provide evidence for the biological relevance of a cell invasion-related element predicted by GEMS, reporter gene and electrophoretic mobility shift assays

  10. Discovery of cell-type specific DNA motif grammar in cis-regulatory elements using random Forest.

    Science.gov (United States)

    Wang, Xin; Lin, Peijie; Ho, Joshua W K

    2018-01-19

    It has been observed that many transcription factors (TFs) can bind to different genomic loci depending on the cell type in which a TF is expressed in, even though the individual TF usually binds to the same core motif in different cell types. How a TF can bind to the genome in such a highly cell-type specific manner, is a critical research question. One hypothesis is that a TF requires co-binding of different TFs in different cell types. If this is the case, it may be possible to observe different combinations of TF motifs - a motif grammar - located at the TF binding sites in different cell types. In this study, we develop a bioinformatics method to systematically identify DNA motifs in TF binding sites across multiple cell types based on published ChIP-seq data, and address two questions: (1) can we build a machine learning classifier to predict cell-type specificity based on motif combinations alone, and (2) can we extract meaningful cell-type specific motif grammars from this classifier model. We present a Random Forest (RF) based approach to build a multi-class classifier to predict the cell-type specificity of a TF binding site given its motif content. We applied this RF classifier to two published ChIP-seq datasets of TF (TCF7L2 and MAX) across multiple cell types. Using cross-validation, we show that motif combinations alone are indeed predictive of cell types. Furthermore, we present a rule mining approach to extract the most discriminatory rules in the RF classifier, thus allowing us to discover the underlying cell-type specific motif grammar. Our bioinformatics analysis supports the hypothesis that combinatorial TF motif patterns are cell-type specific.

  11. Changes in cis-regulatory elements of a key floral regulator are associated with divergence of inflorescence architectures

    NARCIS (Netherlands)

    Kusters, E.; Della Pina, S.; Castel, R.; Souer, E.; Koes, R.

    2015-01-01

    Higher plant species diverged extensively with regard to the moment (flowering time) and position (inflorescence architecture) at which flowers are formed. This seems largely caused by variation in the expression patterns of conserved genes that specify floral meristem identity (FMI), rather than

  12. Changes in cis-regulatory elements of a key floral regulator are associated with divergence of inflorescence architectures.

    NARCIS (Netherlands)

    Kusters, E.; Della Pina, S.; Castel, R.; Souer, E.J.; Koes, R.E.

    2015-01-01

    Higher plant species diverged extensively with regard to the moment (flowering time) and position (inflorescence architecture) at which flowers are formed. This seems largely caused by variation in the expression patterns of conserved genes that specify floral meristem identity (FMI), rather than

  13. Cis-regulatory PLETHORA promoter elements directing root and nodule expression are conserved between Arabidopsis thaliana and Medicago truncatula

    NARCIS (Netherlands)

    Franssen, H.G.J.M.; Kulikova, O.; Willemsen, V.A.; Heidstra, R.

    2017-01-01

    Nodules are unique organs formed on roots of legumes by soil-borne bacteria, collectively known as rhizobium. Recently, we have shown that orthologs of the AINTEGUMENTA-like (AIL) AP2 transcription factors PLETHORA (PLT) 1 to 4, that redundantly regulate Arabidopsis thaliana root development are

  14. A novel method for predicting activity of cis-regulatory modules, based on a diverse training set.

    Science.gov (United States)

    Yang, Wei; Sinha, Saurabh

    2017-01-01

    With the rapid emergence of technologies for locating cis-regulatory modules (CRMs) genome-wide, the next pressing challenge is to assign precise functions to each CRM, i.e. to determine the spatiotemporal domains or cell-types where it drives expression. A popular approach to this task is to model the typical k-mer composition of a set of CRMs known to drive a common expression pattern, and assign that pattern to other CRMs exhibiting a similar k-mer composition. This approach does not rely on prior knowledge of transcription factors relevant to the CRM or their binding motifs, and is thus more widely applicable than motif-based methods for predicting CRM activity, but is also prone to false positive predictions. We present a novel strategy to improve the above-mentioned approach: to predict if a CRM drives a specific gene expression pattern, assess not only how similar the CRM is to other CRMs with similar activity but also to CRMs with distinct activities. We use a state-of-the-art statistical method to quantify a CRM's sequence similarity to many different training sets of CRMs, and employ a classification algorithm to integrate these similarity scores into a single prediction of the CRM's activity. This strategy is shown to significantly improve CRM activity prediction over current approaches. Our implementation of the new method, called IMMBoost, is freely available as source code, at https://github.com/weiyangedward/IMMBoost CONTACT: sinhas@illinois.eduSupplementary information: Supplementary data are available at Bioinformatics online. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

  15. Elements on reactor control

    International Nuclear Information System (INIS)

    Bruna, G.B.

    1998-01-01

    In order to achieve the two-fold goal of maximizing the energy obtained from reactor fuel and ensuring the large flexibility of plant operation in respect to safety regulations and keeping the reactor integrity the control of PWRs is generally based on real time monitoring and analysing of independent neutronic parameters: thermal power release, axial power distribution in the core and temperatures of the primary loop. Two control chains more or less coupled according to the control chosen mode are in charge of the control of these parameters. With the brief history of control in French power reactors the advanced X control mode adopted by Framatome for N4 plants is described in detail. A summary of N4 reactor control and protection system is included

  16. RNA-ID, a highly sensitive and robust method to identify cis-regulatory sequences using superfolder GFP and a fluorescence-based assay.

    Science.gov (United States)

    Dean, Kimberly M; Grayhack, Elizabeth J

    2012-12-01

    We have developed a robust and sensitive method, called RNA-ID, to screen for cis-regulatory sequences in RNA using fluorescence-activated cell sorting (FACS) of yeast cells bearing a reporter in which expression of both superfolder green fluorescent protein (GFP) and yeast codon-optimized mCherry red fluorescent protein (RFP) is driven by the bidirectional GAL1,10 promoter. This method recapitulates previously reported progressive inhibition of translation mediated by increasing numbers of CGA codon pairs, and restoration of expression by introduction of a tRNA with an anticodon that base pairs exactly with the CGA codon. This method also reproduces effects of paromomycin and context on stop codon read-through. Five key features of this method contribute to its effectiveness as a selection for regulatory sequences: The system exhibits greater than a 250-fold dynamic range, a quantitative and dose-dependent response to known inhibitory sequences, exquisite resolution that allows nearly complete physical separation of distinct populations, and a reproducible signal between different cells transformed with the identical reporter, all of which are coupled with simple methods involving ligation-independent cloning, to create large libraries. Moreover, we provide evidence that there are sequences within a 9-nt library that cause reduced GFP fluorescence, suggesting that there are novel cis-regulatory sequences to be found even in this short sequence space. This method is widely applicable to the study of both RNA-mediated and codon-mediated effects on expression.

  17. An in vivo cis-regulatory screen at the type 2 diabetes associated TCF7L2 locus identifies multiple tissue-specific enhancers.

    Directory of Open Access Journals (Sweden)

    Daniel Savic

    Full Text Available Genome-wide association studies (GWAS have repeatedly shown an association between non-coding variants in the TCF7L2 locus and risk for type 2 diabetes (T2D, implicating a role for cis-regulatory variation within this locus in disease etiology. Supporting this hypothesis, we previously localized complex regulatory activity to the TCF7L2 T2D-associated interval using an in vivo bacterial artificial chromosome (BAC enhancer-trapping reporter strategy. To follow-up on this broad initial survey of the TCF7L2 regulatory landscape, we performed a fine-mapping enhancer scan using in vivo mouse transgenic reporter assays. We functionally interrogated approximately 50% of the sequences within the T2D-associated interval, utilizing sequence conservation within this 92-kb interval to determine the regulatory potential of all evolutionary conserved sequences that exhibited conservation to the non-eutherian mammal opossum. Included in this study was a detailed functional interrogation of sequences spanning both protective and risk alleles of single nucleotide polymorphism (SNP rs7903146, which has exhibited allele-specific enhancer function in pancreatic beta cells. Using these assays, we identified nine segments regulating various aspects of the TCF7L2 expression profile and that constitute nearly 70% of the sequences tested. These results highlight the regulatory complexity of this interval and support the notion that a TCF7L2 cis-regulatory disruption leads to T2D predisposition.

  18. Cis-regulatory signatures of orthologous stress-associated bZIP transcription factors from rice, sorghum and Arabidopsis based on phylogenetic footprints

    Directory of Open Access Journals (Sweden)

    Xu Fuyu

    2012-09-01

    Full Text Available Abstract Background The potential contribution of upstream sequence variation to the unique features of orthologous genes is just beginning to be unraveled. A core subset of stress-associated bZIP transcription factors from rice (Oryza sativa formed ten clusters of orthologous groups (COG with genes from the monocot sorghum (Sorghum bicolor and dicot Arabidopsis (Arabidopsis thaliana. The total cis-regulatory information content of each stress-associated COG was examined by phylogenetic footprinting to reveal ortholog-specific, lineage-specific and species-specific conservation patterns. Results The most apparent pattern observed was the occurrence of spatially conserved ‘core modules’ among the COGs but not among paralogs. These core modules are comprised of various combinations of two to four putative transcription factor binding site (TFBS classes associated with either developmental or stress-related functions. Outside the core modules are specific stress (ABA, oxidative, abiotic, biotic or organ-associated signals, which may be functioning as ‘regulatory fine-tuners’ and further define lineage-specific and species-specific cis-regulatory signatures. Orthologous monocot and dicot promoters have distinct TFBS classes involved in disease and oxidative-regulated expression, while the orthologous rice and sorghum promoters have distinct combinations of root-specific signals, a pattern that is not particularly conserved in Arabidopsis. Conclusions Patterns of cis-regulatory conservation imply that each ortholog has distinct signatures, further suggesting that they are potentially unique in a regulatory context despite the presumed conservation of broad biological function during speciation. Based on the observed patterns of conservation, we postulate that core modules are likely primary determinants of basal developmental programming, which may be integrated with and further elaborated by additional intrinsic or extrinsic signals in

  19. Two negative cis-regulatory regions involved in fruit-specific promoter activity from watermelon (Citrullus vulgaris S.).

    Science.gov (United States)

    Yin, Tao; Wu, Hanying; Zhang, Shanglong; Lu, Hongyu; Zhang, Lingxiao; Xu, Yong; Chen, Daming; Liu, Jingmei

    2009-01-01

    A 1.8 kb 5'-flanking region of the large subunit of ADP-glucose pyrophosphorylase, isolated from watermelon (Citrullus vulgaris S.), has fruit-specific promoter activity in transgenic tomato plants. Two negative regulatory regions, from -986 to -959 and from -472 to -424, were identified in this promoter region by fine deletion analyses. Removal of both regions led to constitutive expression in epidermal cells. Gain-of-function experiments showed that these two regions were sufficient to inhibit RFP (red fluorescent protein) expression in transformed epidermal cells when fused to the cauliflower mosaic virus (CaMV) 35S minimal promoter. Gel mobility shift experiments demonstrated the presence of leaf nuclear factors that interact with these two elements. A TCCAAAA motif was identified in these two regions, as well as one in the reverse orientation, which was confirmed to be a novel specific cis-element. A quantitative beta-glucuronidase (GUS) activity assay of stable transgenic tomato plants showed that the activities of chimeric promoters harbouring only one of the two cis-elements, or both, were approximately 10-fold higher in fruits than in leaves. These data confirm that the TCCAAAA motif functions as a fruit-specific element by inhibiting gene expression in leaves.

  20. The lncRNA Malat1 Is Dispensable for Mouse Development but Its Transcription Plays a cis-Regulatory Role in the Adult

    Directory of Open Access Journals (Sweden)

    Bin Zhang

    2012-07-01

    Full Text Available Genome-wide studies have identified thousands of long noncoding RNAs (lncRNAs lacking protein-coding capacity. However, most lncRNAs are expressed at a very low level, and in most cases there is no genetic evidence to support their in vivo function. Malat1 (metastasis associated lung adenocarcinoma transcript 1 is among the most abundant and highly conserved lncRNAs, and it exhibits an uncommon 3′-end processing mechanism. In addition, its specific nuclear localization, developmental regulation, and dysregulation in cancer are suggestive of it having a critical biological function. We have characterized a Malat1 loss-of-function genetic model that indicates that Malat1 is not essential for mouse pre- and postnatal development. Furthermore, depletion of Malat1 does not affect global gene expression, splicing factor level and phosphorylation status, or alternative pre-mRNA splicing. However, among a small number of genes that were dysregulated in adult Malat1 knockout mice, many were Malat1 neighboring genes, thus indicating a potential cis-regulatory role of Malat1 gene transcription.

  1. Mouse transgenesis identifies conserved functional enhancers and cis-regulatory motif in the vertebrate LIM homeobox gene Lhx2 locus.

    Directory of Open Access Journals (Sweden)

    Alison P Lee

    Full Text Available The vertebrate Lhx2 is a member of the LIM homeobox family of transcription factors. It is essential for the normal development of the forebrain, eye, olfactory system and liver as well for the differentiation of lymphoid cells. However, despite the highly restricted spatio-temporal expression pattern of Lhx2, nothing is known about its transcriptional regulation. In mammals and chicken, Crb2, Dennd1a and Lhx2 constitute a conserved linkage block, while the intervening Dennd1a is lost in the fugu Lhx2 locus. To identify functional enhancers of Lhx2, we predicted conserved noncoding elements (CNEs in the human, mouse and fugu Crb2-Lhx2 loci and assayed their function in transgenic mouse at E11.5. Four of the eight CNE constructs tested functioned as tissue-specific enhancers in specific regions of the central nervous system and the dorsal root ganglia (DRG, recapitulating partial and overlapping expression patterns of Lhx2 and Crb2 genes. There was considerable overlap in the expression domains of the CNEs, which suggests that the CNEs are either redundant enhancers or regulating different genes in the locus. Using a large set of CNEs (810 CNEs associated with transcription factor-encoding genes that express predominantly in the central nervous system, we predicted four over-represented 8-mer motifs that are likely to be associated with expression in the central nervous system. Mutation of one of them in a CNE that drove reporter expression in the neural tube and DRG abolished expression in both domains indicating that this motif is essential for expression in these domains. The failure of the four functional enhancers to recapitulate the complete expression pattern of Lhx2 at E11.5 indicates that there must be other Lhx2 enhancers that are either located outside the region investigated or divergent in mammals and fishes. Other approaches such as sequence comparison between multiple mammals are required to identify and characterize such enhancers.

  2. Dynamic in vivo binding of transcription factors to cis-regulatory modules of cer and gsc in the stepwise formation of the Spemann–Mangold organizer

    Science.gov (United States)

    Sudou, Norihiro; Yamamoto, Shinji; Ogino, Hajime; Taira, Masanori

    2012-01-01

    How multiple developmental cues are integrated on cis-regulatory modules (CRMs) for cell fate decisions remains uncertain. The Spemann–Mangold organizer in Xenopus embryos expresses the transcription factors Lim1/Lhx1, Otx2, Mix1, Siamois (Sia) and VegT. Reporter analyses using sperm nuclear transplantation and DNA injection showed that cerberus (cer) and goosecoid (gsc) are activated by the aforementioned transcription factors through CRMs conserved between X. laevis and X. tropicalis. ChIP-qPCR analysis for the five transcription factors revealed that cer and gsc CRMs are initially bound by both Sia and VegT at the late blastula stage, and subsequently bound by all five factors at the gastrula stage. At the neurula stage, only binding of Lim1 and Otx2 to the gsc CRM, among others, persists, which corresponds to their co-expression in the prechordal plate. Based on these data, together with detailed expression pattern analysis, we propose a new model of stepwise formation of the organizer, in which (1) maternal VegT and Wnt-induced Sia first bind to CRMs at the blastula stage; then (2) Nodal-inducible Lim1, Otx2, Mix1 and zygotic VegT are bound to CRMs in the dorsal endodermal and mesodermal regions where all these genes are co-expressed; and (3) these two regions are combined at the gastrula stage to form the organizer. Thus, the in vivo dynamics of multiple transcription factors highlight their roles in the initiation and maintenance of gene expression, and also reveal the stepwise integration of maternal, Nodal and Wnt signaling on CRMs of organizer genes to generate the organizer. PMID:22492356

  3. Dynamic in vivo binding of transcription factors to cis-regulatory modules of cer and gsc in the stepwise formation of the Spemann-Mangold organizer.

    Science.gov (United States)

    Sudou, Norihiro; Yamamoto, Shinji; Ogino, Hajime; Taira, Masanori

    2012-05-01

    How multiple developmental cues are integrated on cis-regulatory modules (CRMs) for cell fate decisions remains uncertain. The Spemann-Mangold organizer in Xenopus embryos expresses the transcription factors Lim1/Lhx1, Otx2, Mix1, Siamois (Sia) and VegT. Reporter analyses using sperm nuclear transplantation and DNA injection showed that cerberus (cer) and goosecoid (gsc) are activated by the aforementioned transcription factors through CRMs conserved between X. laevis and X. tropicalis. ChIP-qPCR analysis for the five transcription factors revealed that cer and gsc CRMs are initially bound by both Sia and VegT at the late blastula stage, and subsequently bound by all five factors at the gastrula stage. At the neurula stage, only binding of Lim1 and Otx2 to the gsc CRM, among others, persists, which corresponds to their co-expression in the prechordal plate. Based on these data, together with detailed expression pattern analysis, we propose a new model of stepwise formation of the organizer, in which (1) maternal VegT and Wnt-induced Sia first bind to CRMs at the blastula stage; then (2) Nodal-inducible Lim1, Otx2, Mix1 and zygotic VegT are bound to CRMs in the dorsal endodermal and mesodermal regions where all these genes are co-expressed; and (3) these two regions are combined at the gastrula stage to form the organizer. Thus, the in vivo dynamics of multiple transcription factors highlight their roles in the initiation and maintenance of gene expression, and also reveal the stepwise integration of maternal, Nodal and Wnt signaling on CRMs of organizer genes to generate the organizer.

  4. Shock buffer for nuclear control element assembly

    International Nuclear Information System (INIS)

    Bevilacqua, F.

    1977-01-01

    A shock buffer for a control element assembly in a nuclear reactor is described, comprising a piston and a cylinder. The piston is affixed to and extends upward from the control rod guide structure; the cylinder is supported by the upper portion of the control element assembly and is vertically oriented with open end downward for receiving the piston. Coolant liquid normally has free access to the cylinder. The piston displaces liquid from the cylinder when inserted, thereby decelerating the control element assembly near its lower extent of travel. (LL)

  5. A variant in a Cis-regulatory element enhances claudin-14 expression and is associated with pediatric-onset hypercalciuria and kidney stones

    DEFF Research Database (Denmark)

    Ure, Megan E; Heydari, Emma; Pan, Wanling

    2017-01-01

    The greatest risk factor for kidney stones is hypercalciuria, the etiology of which is largely unknown. A recent genome-wide association study (GWAS) linked hypercalciuria and kidney stones to a claudin-14 (CLDN14) risk haplotype. However, the underlying molecular mechanism was not delineated....... Recently, renal CLDN14 expression was found to increase in response to increased plasma calcium, thereby inducing calciuria. We hypothesized therefore that some children with hypercalciuria and kidney stones harbor a CLDN14 variant that inappropriately increases gene expression. To test this hypothesis, we...... sequenced the CLDN14 risk haplotype in a cohort of children with idiopathic hypercalciuria and kidney stones. An intronic single nucleotide polymorphism (SNP) was more frequent in affected children. Dual luciferase and cell based assays demonstrated increased reporter or CLDN14 expression when...

  6. Damper mechanism for nuclear reactor control elements

    International Nuclear Information System (INIS)

    Taft, W.E.

    1976-01-01

    A damper mechanism which provides a nuclear reactor control element decelerating function at the end of the scram stroke is described. The total damping function is produced by the combination of two assemblies, which operate in sequence. First, a tapered dashram assembly decelerates the control element to a lower velocity, after which a spring hydraulic damper assembly takes over to complete the final damping. 3 claims, 2 figures

  7. An ABA-responsive element in the AtSUC1 promoter is involved in the regulation of AtSUC1 expression.

    Science.gov (United States)

    Hoth, Stefan; Niedermeier, Matthias; Feuerstein, Andrea; Hornig, Julia; Sauer, Norbert

    2010-09-01

    Abscisic acid (ABA) and sugars regulate many aspects of plant growth and development, and we are only just beginning to understand the complex interactions between ABA and sugar signaling networks. Here, we show that ABA-dependent transcription factors bind to the promoter of the Arabidopsis thaliana AtSUC1 (At1g71880) sucrose transporter gene in vitro. We present the characterization of a cis-regulatory element by truncation of the AtSUC1 promoter and by electrophoretic mobility shift assays that is identical to a previously characterized ABA-responsive element (ABRE). In yeast 1-hybrid analyses we identified ABI5 (AtbZIP39; At2g36270) and AREB3 (AtbZIP66; At3g56850) as potential interactors. Analyses of plants expressing the beta-glucuronidase reporter gene under the control of ABI5 or AREB3 promoter sequences demonstrated that both transcription factor genes are co-expressed with AtSUC1 in pollen and seedlings, the primary sites of AtSUC1 action. Mutational analyses of the identified cis-regulatory element verified its importance for AtSUC1 expression in young seedlings. In abi5-4 seedlings, we observed an increase of sucrose-dependent anthocyanin accumulation and AtSUC1 mRNA levels. This suggests that ABI5 prevents an overshoot of sucrose-induced AtSUC1 expression and confirmed a novel cross-link between sugar and ABA signaling.

  8. Comparative genome sequencing of Drosophila pseudoobscura: Chromosomal, gene, and cis-element evolution

    DEFF Research Database (Denmark)

    Richards, Stephen; Liu, Yue; Bettencourt, Brian R.

    2005-01-01

    years (Myr) since the pseudoobscura/melanogaster divergence. Genes expressed in the testes had higher amino acid sequence divergence than the genome-wide average, consistent with the rapid evolution of sex-specific proteins. Cis-regulatory sequences are more conserved than random and nearby sequences......We have sequenced the genome of a second Drosophila species, Drosophila pseudoobscura, and compared this to the genome sequence of Drosophila melanogaster, a primary model organism. Throughout evolution the vast majority of Drosophila genes have remained on the same chromosome arm, but within each...... between the species-but the difference is slight, suggesting that the evolution of cis-regulatory elements is flexible. Overall, a pattern of repeat-mediated chromosomal rearrangement, and high coadaptation of both male genes and cis-regulatory sequences emerges as important themes of genome divergence...

  9. Location analysis for the estrogen receptor-? reveals binding to diverse ERE sequences and widespread binding within repetitive DNA elements

    OpenAIRE

    Mason, Christopher E.; Shu, Feng-Jue; Wang, Cheng; Session, Ryan M.; Kallen, Roland G.; Sidell, Neil; Yu, Tianwei; Liu, Mei Hui; Cheung, Edwin; Kallen, Caleb B.

    2010-01-01

    Location analysis for estrogen receptor-? (ER?)-bound cis-regulatory elements was determined in MCF7 cells using chromatin immunoprecipitation (ChIP)-on-chip. Here, we present the estrogen response element (ERE) sequences that were identified at ER?-bound loci and quantify the incidence of ERE sequences under two stringencies of detection:

  10. Fuel element radiometry system for quality control

    International Nuclear Information System (INIS)

    Bhattacharya, Sadhana; Gaur, Swati; Sridhar, Padmini; Mukhopadhyay, P.K.; Vaidya, P.R.; Das, Sanjoy; Sinha, A.K.; Bhatt, Sameer

    2010-01-01

    An indigenous and fully automatic PC based radiometry system has been designed and developed. The system required a vibration free scanning with various automated sequential movements to scan the fuel pin of size 5.8 mm (OD) x 1055 mm (L) along its full length. A mechanical system with these requirements and precision controls has been designed. The system consists of a tightly coupled and collimated radiation source-detector unit and data acquisition and control system. It supports PLC based control electronics to control and monitor the movement of fuel element, nuclear data acquisition and analysis system and feedback system to the mechanical scanner to physically accept or reject the fuel pin based on the decision derived by the software algorithms. (author)

  11. Tissue- and stage-specific Wnt target gene expression is controlled subsequent to beta-catenin recruitment to cis-regulatory modules

    NARCIS (Netherlands)

    Nakamura, Y.; de Paiva Alves, E.; Veenstra, G.J.C.; Hoppler, S.

    2016-01-01

    Key signalling pathways, such as canonical Wnt/beta-catenin signalling, operate repeatedly to regulate tissue- and stage-specific transcriptional responses during development. Although recruitment of nuclear beta-catenin to target genomic loci serves as the hallmark of canonical Wnt signalling,

  12. Polders as active element of flood control

    International Nuclear Information System (INIS)

    Zilavy, M.

    2004-01-01

    In this presentation author deals with use of the polders as active element of flood control on the example Kysuca River and Podluzianka River (Slovakia). It was concluded that it is necessary: - dense network of rain gauge stations; - network of water level recorders; revision of design process for hydraulic objects - degree of safety; changes in legislation - permission for construction in flood-plains; maintenance of channel capacity; early flood forecasting - forecasting and warning service; river training works and maintenance; design of retention areas; preparation of retention areas prior to flood propagation

  13. Error-controlled adaptive finite elements in solid mechanics

    National Research Council Canada - National Science Library

    Stein, Erwin; Ramm, E

    2003-01-01

    ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . Error-controlled Adaptive Finite-element-methods . . . . . . . . . . . . Missing Features and Properties of Today's General Purpose FE Programs for Structural...

  14. Identification of Smad Response Elements in the Promoter of Goldfish FSHβ Gene and Evidence for Their Mediation of Activin and GnRH Stimulation of FSHβ Expression

    Directory of Open Access Journals (Sweden)

    Man-Tat eLau

    2012-03-01

    Full Text Available As an essential hormone regulating gonads in vertebrates, the biosynthesis and secretion of follicle-stimulating hormone (FSH is controlled by a variety of endocrine and paracrine factors in both mammalian and non-mammalian vertebrates. Activin was initially discovered in the ovary for its specific stimulation of FSH secretion by the pituitary cells. Our earlier studies in fish have shown that activin stimulates FSHβ but suppresses LHβ expression in both the goldfish and zebrafish. Further experiments showed that the regulation of FSHβ in fish occurred at the promoter level involving Smads, in particular Smad3. To further understand the mechanisms by which activin/Smad regulates FSHβ transcription, the present study was undertaken to analyze the promoter of goldfish FSHβ gene (fshb with the aim to identify potential cis-regulatory elements responsible for activin/Smad stimulation. Both serial deletion and site-directed mutagenesis were used, and the promoter activity was tested in the LβT2 cells, a murine gonadotroph cell line. The reporter constructs of goldfish FSHβ promoter-SEAP (secreted alkaline phosphatase were co-transfected with an expression plasmid for Smads (2 or 3 followed by measurement of SEAP activity in the medium. Two putative Smad responsive elements (SRE were identified in the promoter at distal and proximal regions, respectively. The distal site contained a consensus Smad binding element (SBE; AGAC, -1675/-1672 whereas the proximal site (GACCTTGA, -212/-205 was identical to an SF-1 binding site reported in humans, which was preceded by a sequence (AACACTGA highly conserved between fish and mammals. The proximal site also seemed to be involved in mediating stimulation of FSHβ expression by gonadotropin-releasing hormone (GnRH and its potential interaction with activin. In conclusion, we have identified two potential cis-regulatory elements in the promoter of goldfish FSHβ that are responsible for activin

  15. LINC-NIRVANA piston control elements

    Science.gov (United States)

    Brix, Mario; Pott, Jörg-Uwe; Bertram, Thomas; Rost, Steffen; Borelli, Jose Luis; Herbst, Thomas M.; Kuerster, Martin; Rohloff, Ralf-Rainer

    2010-07-01

    We review the status of hardware developments related to the Linc-Nirvana optical path difference (OPD) control. The status of our telescope vibration measurements is given. We present the design concept of a feed-forward loop to damp the impact of telescope mirror vibrations on the OPD seen by Linc-Nirvana. At the focus of the article is a description of the actuator of the OPD control loop. The weight and vibration optimized construction of this actuator (aka piston mirror) and its mount has a complex dynamical behavior, which prevents classical PI feedback control from delivering fast and precise motion of the mirror surface. Therefore, an H-; optimized control strategy will be applied, custom designed for the piston mirror. The effort of realizing a custom controller on a DSP to drive the piezo is balanced by the outlook of achieving more than 5x faster servo bandwidths. The laboratory set-up to identify the system, and verify the closed loop control performance is presented. Our goal is to achieve 30 Hz closed-loop control bandwidth at a precision of 30 nm.

  16. Nuclear reactor internals with control elements guides

    International Nuclear Information System (INIS)

    Baujat, J.; Chevereau, G.

    1991-01-01

    The internals have a lower plate, a superior plate, support columns and guide tubes for the control rods displacements. The lower section of the control rod guide tube have a base that fits into a bevelled seat in the lower plate. The guide tube is held into the seat by a spring, compressed between the base of the upper section of the tube and the lower plate

  17. Identification of a spatially specific enhancer element in the chicken Msx-2 gene that regulates its expression in the apical ectodermal ridge of the developing limb buds of transgenic mice.

    Science.gov (United States)

    Sumoy, L; Wang, C K; Lichtler, A C; Pierro, L J; Kosher, R A; Upholt, W B

    1995-07-01

    Msx-2 is a member of the Msx family of homeobox-containing genes expressed in a variety of embryonic tissues involved in epithelial-mesenchymal interactions and pattern formation. In the developing chick limb bud, Msx-2 is expressed in the apical ectodermal ridge, which plays a crucial role in directing the growth and patterning of limb mesoderm. In addition, Msx-2 is expressed in the anterior nonskeletal-forming mesoderm of the limb bud, in the posterior necrotic zone, and in the interdigital mesenchyme. Studies of the altered expression patterns of Msx-2 in amelic and polydactylous mutant chick limbs have suggested that the apical ectodermal ridge and mesodermal domains of Msx-2 expression are independently regulated and that there might be separate cis-regulatory elements in the Msx-2 gene controlling its spatially distinct domains of expression. To test this hypothesis, we have isolated the chicken Msx-2 gene and have tested the ability of various regions of the gene to target expression of LacZ reporter gene to specific regions of the limbs of transgenic mice. A variety of these constructs are consistently expressed only in the apical ectodermal ridge and the ectoderm of the genital tubercle and are not expressed in the mesoderm of the limb bud or in other regions of the embryo where the endogenous Msx-2 gene is expressed. These results suggest the presence of spatially specific cis-regulatory elements in the Msx-2 gene. We identified a 348-bp region in the 5' flanking region of the Msx-2 gene which can act as an apical ectodermal ridge enhancer element when placed in reverse orientation in front of the reporter gene with transcription initiation directed by the minimal hsp68 promoter.

  18. Prediction of transcriptional regulatory elements for plant hormone responses based on microarray data

    Directory of Open Access Journals (Sweden)

    Yamaguchi-Shinozaki Kazuko

    2011-02-01

    Full Text Available Abstract Background Phytohormones organize plant development and environmental adaptation through cell-to-cell signal transduction, and their action involves transcriptional activation. Recent international efforts to establish and maintain public databases of Arabidopsis microarray data have enabled the utilization of this data in the analysis of various phytohormone responses, providing genome-wide identification of promoters targeted by phytohormones. Results We utilized such microarray data for prediction of cis-regulatory elements with an octamer-based approach. Our test prediction of a drought-responsive RD29A promoter with the aid of microarray data for response to drought, ABA and overexpression of DREB1A, a key regulator of cold and drought response, provided reasonable results that fit with the experimentally identified regulatory elements. With this succession, we expanded the prediction to various phytohormone responses, including those for abscisic acid, auxin, cytokinin, ethylene, brassinosteroid, jasmonic acid, and salicylic acid, as well as for hydrogen peroxide, drought and DREB1A overexpression. Totally 622 promoters that are activated by phytohormones were subjected to the prediction. In addition, we have assigned putative functions to 53 octamers of the Regulatory Element Group (REG that have been extracted as position-dependent cis-regulatory elements with the aid of their feature of preferential appearance in the promoter region. Conclusions Our prediction of Arabidopsis cis-regulatory elements for phytohormone responses provides guidance for experimental analysis of promoters to reveal the basis of the transcriptional network of phytohormone responses.

  19. Hydrothermal analysis in engineering using control volume finite element method

    CERN Document Server

    Sheikholeslami, Mohsen

    2015-01-01

    Control volume finite element methods (CVFEM) bridge the gap between finite difference and finite element methods, using the advantages of both methods for simulation of multi-physics problems in complex geometries. In Hydrothermal Analysis in Engineering Using Control Volume Finite Element Method, CVFEM is covered in detail and applied to key areas of thermal engineering. Examples, exercises, and extensive references are used to show the use of the technique to model key engineering problems such as heat transfer in nanofluids (to enhance performance and compactness of energy systems),

  20. Elements of an advanced integrated operator control station

    International Nuclear Information System (INIS)

    Clarke, M.M.; Kreifeldt, J.G.

    1984-01-01

    One of the critical determinants of performance for any remotely operated maintenance system is the compatibility achieved between elements of the man/machine interface (e.g., master manipulator controller, controls, displays) and the human operator. In the remote control engineering task of the Consolidated Fuel Reprocessing Program, considerable attention has been devoted to optimizing the man/machine interface of the operator control station. This system must be considered an integral element of the overall maintenance work system which includes transporters, manipulators, remote viewing, and other parts. The control station must reflect the integration of the operator team, control/display panels, manipulator master controllers, and remote viewing monitors. Human factors principles and experimentation have been used in the development of an advanced integrated operator control station designed for the advance servomanipulator. Key features of this next-generation design are summarized in this presentation. 7 references, 4 figures

  1. Elements of an advanced integrated operator control station

    International Nuclear Information System (INIS)

    Clarke, M.M.; Kreifeldt, J.G.

    1984-01-01

    One of the critical determinants of peformance for any remotely operated maintenance system is the compatibility achieved between elements of the man/machine interface (e.g., master manipulator controller, controls, displays, etc.) and the human operator. In the Remote Control Engineering task of the Consolidated Fuel Reprocessing Program, considerable attention has been devoted to optimizing the man/machine interface of the operator control station. This system must be considered an integral element of the overall maintenance work system which includes transporters, manipulators, remote viewing, and other parts. The control station must reflect the integration of the operator team, control/display panels, manipulator master controllers, and remote viewing monitors. Human factors principles and experimentation have been used in the development of an advanced integrated operator control station designed for the advance servomanipulator. Key features of this next-generation design are summarized in this presentation. 7 references, 4 figures

  2. Disposal of control elements from the VAK reactor

    International Nuclear Information System (INIS)

    Eickelpasch, N.

    1996-01-01

    From the 25 years of operation there were available in the VAK fuel cooling installation 22 control elements which had to be dismantled and packed ready for disposal. The design of the control elements was already that which was later used in other boiling water reactors, so that the procedure took on a pioneering character. The technique of a remote controlled underwater scissors was suitable for the dismantling. By means of an accompanying measuring programme, it was confirmed that the released tritium posed no radiological problem for the working place and the waste values of the installation. (author) 1 fig

  3. Features of spherical uranium-graphite HTGR fuel elements control

    International Nuclear Information System (INIS)

    Kreindlin, I.I.; Oleynikov, P.P.; Shtan, A.S.

    1985-01-01

    Control features of spherical HTGR uranium-graphite fuel elements with spherical coated fuel particles are mainly determined by their specific construction and fabrication technology. The technology is chiefly based on methods of ceramic fuel (fuel microspheres fabrication) and graphite production practice it is necessary to deal with a lot of problems from determination of raw materials properties to final fuel elements testing. These procedures are described

  4. Features of spherical uranium-graphite HTGR fuel elements control

    Energy Technology Data Exchange (ETDEWEB)

    Kreindlin, I I; Oleynikov, P P; Shtan, A S

    1985-07-01

    Control features of spherical HTGR uranium-graphite fuel elements with spherical coated fuel particles are mainly determined by their specific construction and fabrication technology. The technology is chiefly based on methods of ceramic fuel (fuel microspheres fabrication) and graphite production practice it is necessary to deal with a lot of problems from determination of raw materials properties to final fuel elements testing. These procedures are described.

  5. Repetitive Elements in Mycoplasma hyopneumoniae Transcriptional Regulation.

    Directory of Open Access Journals (Sweden)

    Amanda Malvessi Cattani

    Full Text Available Transcriptional regulation, a multiple-step process, is still poorly understood in the important pig pathogen Mycoplasma hyopneumoniae. Basic motifs like promoters and terminators have already been described, but no other cis-regulatory elements have been found. DNA repeat sequences have been shown to be an interesting potential source of cis-regulatory elements. In this work, a genome-wide search for tandem and palindromic repetitive elements was performed in the intergenic regions of all coding sequences from M. hyopneumoniae strain 7448. Computational analysis demonstrated the presence of 144 tandem repeats and 1,171 palindromic elements. The DNA repeat sequences were distributed within the 5' upstream regions of 86% of transcriptional units of M. hyopneumoniae strain 7448. Comparative analysis between distinct repetitive sequences found in related mycoplasma genomes demonstrated different percentages of conservation among pathogenic and nonpathogenic strains. qPCR assays revealed differential expression among genes showing variable numbers of repetitive elements. In addition, repeats found in 206 genes already described to be differentially regulated under different culture conditions of M. hyopneumoniae strain 232 showed almost 80% conservation in relation to M. hyopneumoniae strain 7448 repeats. Altogether, these findings suggest a potential regulatory role of tandem and palindromic DNA repeats in the M. hyopneumoniae transcriptional profile.

  6. Repetitive Elements in Mycoplasma hyopneumoniae Transcriptional Regulation.

    Science.gov (United States)

    Cattani, Amanda Malvessi; Siqueira, Franciele Maboni; Guedes, Rafael Lucas Muniz; Schrank, Irene Silveira

    2016-01-01

    Transcriptional regulation, a multiple-step process, is still poorly understood in the important pig pathogen Mycoplasma hyopneumoniae. Basic motifs like promoters and terminators have already been described, but no other cis-regulatory elements have been found. DNA repeat sequences have been shown to be an interesting potential source of cis-regulatory elements. In this work, a genome-wide search for tandem and palindromic repetitive elements was performed in the intergenic regions of all coding sequences from M. hyopneumoniae strain 7448. Computational analysis demonstrated the presence of 144 tandem repeats and 1,171 palindromic elements. The DNA repeat sequences were distributed within the 5' upstream regions of 86% of transcriptional units of M. hyopneumoniae strain 7448. Comparative analysis between distinct repetitive sequences found in related mycoplasma genomes demonstrated different percentages of conservation among pathogenic and nonpathogenic strains. qPCR assays revealed differential expression among genes showing variable numbers of repetitive elements. In addition, repeats found in 206 genes already described to be differentially regulated under different culture conditions of M. hyopneumoniae strain 232 showed almost 80% conservation in relation to M. hyopneumoniae strain 7448 repeats. Altogether, these findings suggest a potential regulatory role of tandem and palindromic DNA repeats in the M. hyopneumoniae transcriptional profile.

  7. Analytical techniques and quality control in biomedical trace element research

    DEFF Research Database (Denmark)

    Heydorn, K.

    1994-01-01

    The small number of analytical results in trace element research calls for special methods of quality control. It is shown that when the analytical methods are in statistical control, only small numbers of duplicate or replicate results are needed to ascertain the absence of systematic errors....../kg. Measurement compatibility is obtained by control of traceability to certified reference materials, (C) 1994 Wiley-Liss, Inc....

  8. Electromagnetic analysis of control element drive mechanism for KSNP

    International Nuclear Information System (INIS)

    Kim, H. M.; Kim, I. G.; Kim, I. Y.

    2002-01-01

    The magnetic jack type Control Element Drive Mechanism (CEDM) for Korean Standard Nuclear Power Plant (KSNP) is an electromechanical device which provides controlled linear motion to the Control Element Assembly (CEA) through the Extension Shaft Assembly (ESA) in response to operational signals received from the Control Element Drive Mechanism Control System (CEDMCS). The CEDM is operated by applying localized magnetic flux fields to movable latch and lift magnets, which are in the coolant pressure boundary. The CEDM design had been developed through electromechanical testing of the system including the magnetic force lifting the ESA. But it will be inefficient if parametric studies should be performed to improve the CEDM by test due to the consumption of high cost and long duration. So it becomes necessary to develop a computational model to simulate the electromagnetic characteristics of the CEDM to improve the CEDM design efficiently. In this paper, the electromagnetic analysis using a 2D finite element model has been carried out to simulate magnetic force of the lift magnet of the CEDM, to provide effective evaluation between leakage flux and lift force and to compare with test results. Analysis results show the lift force satisfied the test results and design requirement and the lift force depend on the shape of the components, leakage flux and B-H curve

  9. Quality control in the fuel elements production process

    International Nuclear Information System (INIS)

    Katanic-Popovic, J.; Spasic, Z.; Djuricis, Lj.

    1977-01-01

    Recently great attention has been paid at the international level to the analysis of production processes and quality control of fuel and fuel elements with the aim to speed up activity of proposing and accepting standards and measurement methods. IAEA also devoted great interest to these problems appealing to more active participation of all users and producers fuel elements in a general effort to secure successful work of nuclear plants. For adequate and timely participation in future in the establishment and analysis of general requirements and documentation for the control of purchased or self produced fuel elements in out country it is necessary to be well informed and to follow this activity at the international level. (author)

  10. Active and passive damping based on piezoelectric elements -controllability issues-

    NARCIS (Netherlands)

    Holterman, J.; de Vries, Theodorus J.A.; van Amerongen, J.; Jonker, Jan B.; Jonker, J.B.

    2001-01-01

    Piezoelectric elements are widely used for damping micro-vibrations in mechanical structures. Active damping can be realised robustly by means of collocated actuator-sensor-pairs, controlled so as to extract vibration energy. Excellent damping performance is possible as long as sufficient

  11. Regulatory elements of the floral homeotic gene AGAMOUS identified by phylogenetic footprinting and shadowing.

    Energy Technology Data Exchange (ETDEWEB)

    Hong, R. L., Hamaguchi, L., Busch, M. A., and Weigel, D.

    2003-06-01

    OAK-B135 In Arabidopsis thaliana, cis-regulatory sequences of the floral homeotic gene AGAMOUS (AG) are located in the second intron. This 3 kb intron contains binding sites for two direct activators of AG, LEAFY (LFY) and WUSCHEL (WUS), along with other putative regulatory elements. We have used phylogenetic footprinting and the related technique of phylogenetic shadowing to identify putative cis-regulatory elements in this intron. Among 29 Brassicaceae, several other motifs, but not the LFY and WUS binding sites previously identified, are largely invariant. Using reporter gene analyses, we tested six of these motifs and found that they are all functionally important for activity of AG regulatory sequences in A. thaliana. Although there is little obvious sequence similarity outside the Brassicaceae, the intron from cucumber AG has at least partial activity in A. thaliana. Our studies underscore the value of the comparative approach as a tool that complements gene-by-gene promoter dissection, but also highlight that sequence-based studies alone are insufficient for a complete identification of cis-regulatory sites.

  12. Compactable control element assembly for a nuclear reactor

    International Nuclear Information System (INIS)

    Dupen, C.F.G.

    1976-01-01

    A description is given of a compactable control element assembly for a nuclear reactor in which the absorber pins of the assembly are compacted during downward movement of the pin and are returned to their uncompacted state when downward movement is stopped. The control element assembly comprises a support member longitudinally movable within a control assembly duct and a plurality of absorber pins supported laterally outward of the support member and within the duct by pairs of support arms. The absorber pins are pivotably mounted to the support arms and the support arms in turn are supported from the support member for upward pivotable movement in a longitudinal plane. As the support member is moved downward, the support arms pivot upwardly and the absorber pins move upwardly and inwardly towards the support member. When the support member is stopped the absorber pins return to their uncompacted position

  13. An Electronically Controlled 8-Element Switched Beam Planar Array

    KAUST Repository

    Sharawi, Mohammad S.

    2015-02-24

    An 8-element planar antenna array with electronically controlled switchable-beam pattern is proposed. The planar antenna array consists of patch elements and operates in the 2.45 GHz ISM band. The array is integrated with a digitally controlled feed network that provides the required phases to generate 8 fixed beams covering most of the upper hemisphere of the array. Unlike typical switchable beam antenna arrays, which operate only in one plane, the proposed design is the first to provide full 3D switchable beams with simple control. Only a 3-bit digital word is required for the generation of the 8 different beams. The integrated array is designed on a 3-layer PCB on a Taconic substrate (RF60A). The total dimensions of the fabricated array are 187.1 × 261.3 × 1.3mm3.

  14. Structural Elements Regulating AAA+ Protein Quality Control Machines.

    Science.gov (United States)

    Chang, Chiung-Wen; Lee, Sukyeong; Tsai, Francis T F

    2017-01-01

    Members of the ATPases Associated with various cellular Activities (AAA+) superfamily participate in essential and diverse cellular pathways in all kingdoms of life by harnessing the energy of ATP binding and hydrolysis to drive their biological functions. Although most AAA+ proteins share a ring-shaped architecture, AAA+ proteins have evolved distinct structural elements that are fine-tuned to their specific functions. A central question in the field is how ATP binding and hydrolysis are coupled to substrate translocation through the central channel of ring-forming AAA+ proteins. In this mini-review, we will discuss structural elements present in AAA+ proteins involved in protein quality control, drawing similarities to their known role in substrate interaction by AAA+ proteins involved in DNA translocation. Elements to be discussed include the pore loop-1, the Inter-Subunit Signaling (ISS) motif, and the Pre-Sensor I insert (PS-I) motif. Lastly, we will summarize our current understanding on the inter-relationship of those structural elements and propose a model how ATP binding and hydrolysis might be coupled to polypeptide translocation in protein quality control machines.

  15. Finite element predictions of active buckling control of stiffened panels

    Science.gov (United States)

    Thompson, Danniella M.; Griffin, O. H., Jr.

    1993-04-01

    Materials systems and structures that can respond 'intelligently' to their environment are currently being proposed and investigated. A series of finite element analyses was performed to investigate the potential for active buckling control of two different stiffened panels by embedded shape memory alloy (SMA) rods. Changes in the predicted buckling load increased with the magnitude of the actuation level for a given structural concept. Increasing the number of actuators for a given concept yielded greater predicted increases in buckling load. Considerable control authority was generated with a small number of actuators, with greater authority demonstrated for those structural concepts where the activated SMA rods could develop greater forces and moments on the structure. Relatively simple and inexpensive analyses were performed with standard finite elements to determine such information, indicating the viability of these types of models for design purposes.

  16. Fate of trace element haps when applying mercury control technologies

    Energy Technology Data Exchange (ETDEWEB)

    Nyberg, Carolyn M.; Thompson, Jeffrey S.; Zhuang, Ye; Pavlish, John H. [University of North Dakota Energy and Environmental Research Center 15 North 23rd Street, Stop 9018, Grand Forks, North Dakota 58202-9018 (United States); Brickett, Lynn; Pletcher, Sara [U.S. Department of Energy National Energy Technology Laboratory 626 Cochrans Mill Road, PO Box 10940, MS 922-273C, Pittsburgh, PA 15236-0940 (United States)

    2009-11-15

    During the past several years, and particularly since the Clean Air Mercury Rule (CAMR) was promulgated in June of 2005, the electric utility industry, product vendors, and the research community have been working diligently to develop and test Hg control strategies for a variety of coal types and plant configurations. Some of these strategies include sorbent injection and chemical additives designed to increase mercury capture efficiency in particulate control devices. These strategies have the potential to impact the fate of other inorganic hazardous air pollutants (HAPs), which typically include As, Be, Cd, Cr, Co, Mn, Ni, Pb, Se, and Sb. To evaluate this impact, flue gas samples using EPA Method 29, along with representative coal and ash samples, were collected during recent pilot-scale and field test projects that were evaluating Hg control technologies. These test programs included a range of fuel types with varying trace element concentrations, along with different combustion systems and particulate control devices. The results show that the majority of the trace element HAPs are associated with the particulate matter in the flue gas, except for Se. However, for five of the six projects, Se partitioning was shifted to the particulate phase and total emissions reduced when Hg control technologies were applied. (author)

  17. An Instrumented Glove for Control Audiovisual Elements in Performing Arts

    Directory of Open Access Journals (Sweden)

    Rafael Tavares

    2018-02-01

    Full Text Available The use of cutting-edge technologies such as wearable devices to control reactive audiovisual systems are rarely applied in more conventional stage performances, such as opera performances. This work reports a cross-disciplinary approach for the research and development of the WMTSensorGlove, a data-glove used in an opera performance to control audiovisual elements on stage through gestural movements. A system architecture of the interaction between the wireless wearable device and the different audiovisual systems is presented, taking advantage of the Open Sound Control (OSC protocol. The developed wearable system was used as audiovisual controller in “As sete mulheres de Jeremias Epicentro”, a portuguese opera by Quarteto Contratempus, which was premiered in September 2017.

  18. Training Manual for Elements of Interface Definition and Control

    Science.gov (United States)

    Lalli, Vincent R. (Editor); Kastner, Robert E. (Editor); Hartt, Henry N. (Editor)

    1997-01-01

    The primary thrust of this manual is to ensure that the format and information needed to control interfaces between equipment are clear and understandable. The emphasis is on controlling the engineering design of the interface and not on the functional performance requirements of the system or the internal workings of the interfacing equipment. Interface control should take place, with rare exception, at the interfacing elements and no further. There are two essential sections of the manual. Chapter 2, Principles of Interface Control, discusses how interfaces are defined. It describes different types of interfaces to be considered and recommends a format for the documentation necessary for adequate interface control. Chapter 3, The Process: Through the Design Phases, provides tailored guidance for interface definition and control. This manual can be used to improve planned or existing interface control processes during system design and development. It can also be used to refresh and update the corporate knowledge base. The information presented herein will reduce the amount of paper and data required in interface definition and control processes by as much as 50 percent and will shorten the time required to prepare an interface control document. It also highlights the essential technical parameters that ensure that flight subsystems will indeed fit together and function as intended after assembly and checkout.

  19. Quality control of CANDU6 fuel element in fabrication process

    International Nuclear Information System (INIS)

    Li Yinxie; Zhang Jie

    2012-01-01

    To enhance the fine control over all aspects of the production process, improve product quality, fuel element fabrication process for CANDU6 quality process control activities carried out by professional technical and management technology combined mode, the quality of the fuel elements formed around CANDU6 weak links - - end plug , and brazing processes and procedures associated with this aspect of strict control, in improving staff quality consciousness, strengthening equipment maintenance, improved tooling, fixtures, optimization process test, strengthen supervision, fine inspection operations, timely delivery carry out aspects of the quality of information and concerns the production environment, etc., to find the problem from the improvement of product quality and factors affecting the source, and resolved to form the active control, comprehensive and systematic analysis of the problem of the quality management concepts, effectively reducing the end plug weld microstructure after the failure times and number of defects zirconium alloys brazed, improved product quality, and created economic benefits expressly provided, while staff quality consciousness and attention to detail, collaboration department, communication has been greatly improved and achieved very good management effectiveness. (authors)

  20. Human performance: An essential element in materials control and accountability

    International Nuclear Information System (INIS)

    Haber, S.B.; Allentuck, J.

    1996-01-01

    The importance of the role of human performance in the successful and effective operation of many activities throughout many industries has been well documented. Most closely related to the materials control and accountability area is the work in human factors that has been ongoing in the U.S. nuclear industry since the Three Mile Island Nuclear Power Plant accident in 1979. Research related to the role of human reliability, human-system interface, and organization and management influences has been and is still being conducted to identify ways to enhance the safe and effective operation of nuclear facilities. This paper will discuss these human performance areas and how they relate to the materials control and accountability area. Particular attention will be focussed on the notion of open-quotes safety cultureclose quotes and how it can be defined and measured for understanding the values and attitudes held by individuals working in the materials control area. It is widely believed that the culture of an organization, which reflects the expectations and values of the management of an organization, is a key element to the operation of that organization. The human performance element is one which has not received a great deal of consideration in the materials control and accountability area and yet it will be demonstrated that it is an essential component to ensure the success of safeguards activities

  1. Active Robust Control of Elastic Blade Element Containing Magnetorheological Fluid

    Science.gov (United States)

    Sivrioglu, Selim; Cakmak Bolat, Fevzi

    2018-03-01

    This research study proposes a new active control structure to suppress vibrations of a small-scale wind turbine blade filled with magnetorheological (MR) fluid and actuated by an electromagnet. The aluminum blade structure is manufactured using the airfoil with SH3055 code number which is designed for use on small wind turbines. An interaction model between MR fluid and the electromagnetic actuator is derived. A norm based multi-objective H2/H∞ controller is designed using the model of the elastic blade element. The H2/H∞ controller is experimentally realized under the impact and steady state aerodynamic load conditions. The results of experiments show that the MR fluid is effective for suppressing vibrations of the blade structure.

  2. Elements for successful sensor-based process control {Integrated Metrology}

    International Nuclear Information System (INIS)

    Butler, Stephanie Watts

    1998-01-01

    Current productivity needs have stimulated development of alternative metrology, control, and equipment maintenance methods. Specifically, sensor applications provide the opportunity to increase productivity, tighten control, reduce scrap, and improve maintenance schedules and procedures. Past experience indicates a complete integrated solution must be provided for sensor-based control to be used successfully in production. In this paper, Integrated Metrology is proposed as the term for an integrated solution that will result in a successful application of sensors for process control. This paper defines and explores the perceived four elements of successful sensor applications: business needs, integration, components, and form. Based upon analysis of existing successful commercially available controllers, the necessary business factors have been determined to be strong, measurable industry-wide business needs whose solution is profitable and feasible. This paper examines why the key aspect of integration is the decision making process. A detailed discussion is provided of the components of most importance to sensor based control: decision-making methods, the 3R's of sensors, and connectivity. A metric for one of the R's (resolution) is proposed to allow focus on this important aspect of measurement. A form for these integrated components which synergistically partitions various aspects of control at the equipment and MES levels to efficiently achieve desired benefits is recommended

  3. Elements for successful sensor-based process control {Integrated Metrology}

    Science.gov (United States)

    Butler, Stephanie Watts

    1998-11-01

    Current productivity needs have stimulated development of alternative metrology, control, and equipment maintenance methods. Specifically, sensor applications provide the opportunity to increase productivity, tighten control, reduce scrap, and improve maintenance schedules and procedures. Past experience indicates a complete integrated solution must be provided for sensor-based control to be used successfully in production. In this paper, Integrated Metrology is proposed as the term for an integrated solution that will result in a successful application of sensors for process control. This paper defines and explores the perceived four elements of successful sensor applications: business needs, integration, components, and form. Based upon analysis of existing successful commercially available controllers, the necessary business factors have been determined to be strong, measurable industry-wide business needs whose solution is profitable and feasible. This paper examines why the key aspect of integration is the decision making process. A detailed discussion is provided of the components of most importance to sensor based control: decision-making methods, the 3R's of sensors, and connectivity. A metric for one of the R's (resolution) is proposed to allow focus on this important aspect of measurement. A form for these integrated components which synergistically partitions various aspects of control at the equipment and MES levels to efficiently achieve desired benefits is recommended.

  4. Design, Fabrication and Performance of Boron-Carbide Control Elements

    International Nuclear Information System (INIS)

    Brammer, H.A.; Jacobson, J.

    1964-01-01

    A control blade design, incorporating boron-carbide (B 4 C) in stainless-steel tubes, was introduced into service in boiling water reactors in April 1961. Since that time this blade has become the standard reference control element in General Electric boiling-water reactors, replacing the 2% boron-stainless-steel blades previously used. The blades consist of a sheathed, cruciform array of small vertical stainless-steel tubes filled with compácted boron-carbide powder. The boron-carbide powder is confined longitudinally into several independent compartments by swaging over ball bearings located inside the tubes. The development and use of boron-carbide control rods is discussed in five phases: 1. Summary of experience with boron-steel blades and reasons for transition to boron-carbide control; 2. Design of the boron-carbide blade, beginning with developmental experiments, including early measurements performed in the AEC ''Control Rod Material and Development Program'' at the Vallecitos Atomic Laboratory, through a description of the final control blade configuration; 3. Fabrication of the blades and quality control procedures; 4. Results of confirmatory pre-operational mechanical and reactivity testing; and 5. Post-operational experience with the blades, including information on the results of mechanical inspection and reactivity testing after two years of reactor service. (author) [fr

  5. SPCC- Software Elements for Security Partition Communication Controller

    Science.gov (United States)

    Herpel, H. J.; Willig, G.; Montano, G.; Tverdyshev, S.; Eckstein, K.; Schoen, M.

    2016-08-01

    Future satellite missions like Earth Observation, Telecommunication or any other kind are likely to be exposed to various threats aiming at exploiting vulnerabilities of the involved systems and communications. Moreover, the growing complexity of systems coupled with more ambitious types of operational scenarios imply increased security vulnerabilities in the future. In the paper we will describe an architecture and software elements to ensure high level of security on-board a spacecraft. First the threats to the Security Partition Communication Controller (SPCC) will be addressed including the identification of specific vulnerabilities to the SPCC. Furthermore, appropriate security objectives and security requirements are identified to be counter the identified threats. The security evaluation of the SPCC will be done in accordance to the Common Criteria (CC). The Software Elements for SPCC has been implemented on flight representative hardware which consists of two major elements: the I/O board and the SPCC board. The SPCC board provides the interfaces with ground while the I/O board interfaces with typical spacecraft equipment busses. Both boards are physically interconnected by a high speed spacewire (SpW) link.

  6. Study of rare earth elements as material for control rods

    International Nuclear Information System (INIS)

    1975-03-01

    The properties of rare earth elements as the material for control rods were studied. The rare earth elements, especially europium oxide, has the nuclear property corresponding to boron carbide, and its neutron absorption process does not emit alpha particles. The elements produced as a result of neutron capture also have large capture cross sections. This paper presents survey report on the properties and nuclear properties of rare earth elements, and comparison with other materials. Preliminary experiment was performed to make the pellets of europium oxide, and is described in this paper. Because of large density, the crystal form to be made was monoclinic system. Europium hydroxide was decomposed at 1000 0 C and 10 -5 torr. The obtained powder was dipped into benzene, and dryed in the air at 450 0 C. This powder was pressed and sintered in the air for one hour at 1500 0 C. The density of the obtained pellets was 97.0% of the theoretical density. The cross section of europium for fast neutron absorption is not yet accurately obtained, and is in the range between 4.65 and 8.5 barn for 151 Eu(n,γ) reaction. Since chain absorption reaction is caused in Eu, the overall capability of neutron absorption is not much changed by the loss of original material due to absorption. The pellets of europium oxide may be handled in air, but must be kept in dry atmosphere. The reactions of europium oxide with various metals were also investigated. The characteristic behavior in case of irradiation depends on the amount of silicon contained, and it was very good if the amount was less than 0.03%. (Kato, T.)

  7. Optimal control penalty finite elements - Applications to integrodifferential equations

    Science.gov (United States)

    Chung, T. J.

    The application of the optimal-control/penalty finite-element method to the solution of integrodifferential equations in radiative-heat-transfer problems (Chung et al.; Chung and Kim, 1982) is discussed and illustrated. The nonself-adjointness of the convective terms in the governing equations is treated by utilizing optimal-control cost functions and employing penalty functions to constrain auxiliary equations which permit the reduction of second-order derivatives to first order. The OCPFE method is applied to combined-mode heat transfer by conduction, convection, and radiation, both without and with scattering and viscous dissipation; the results are presented graphically and compared to those obtained by other methods. The OCPFE method is shown to give good results in cases where standard Galerkin FE fail, and to facilitate the investigation of scattering and dissipation effects.

  8. Temperature control system for optical elements in astronomical instrumentation

    Science.gov (United States)

    Verducci, Orlando; de Oliveira, Antonio C.; Ribeiro, Flávio F.; Vital de Arruda, Márcio; Gneiding, Clemens D.; Fraga, Luciano

    2014-07-01

    Extremely low temperatures may damage the optical components assembled inside of an astronomical instrument due to the crack in the resin or glue used to attach lenses and mirrors. The environment, very cold and dry, in most of the astronomical observatories contributes to this problem. This paper describes the solution implemented at SOAR for remotely monitoring and controlling temperatures inside of a spectrograph, in order to prevent a possible damage of the optical parts. The system automatically switches on and off some heat dissipation elements, located near the optics, as the measured temperature reaches a trigger value. This value is set to a temperature at which the instrument is not operational to prevent malfunction and only to protect the optics. The software was developed with LabVIEWTM and based on an object-oriented design that offers flexibility and ease of maintenance. As result, the system is able to keep the internal temperature of the instrument above a chosen limit, except perhaps during the response time, due to inertia of the temperature. This inertia can be controlled and even avoided by choosing the correct amount of heat dissipation and location of the thermal elements. A log file records the measured temperature values by the system for operation analysis.

  9. Peltier cells as temperature control elements: Experimental characterization and modeling

    International Nuclear Information System (INIS)

    Mannella, Gianluca A.; La Carrubba, Vincenzo; Brucato, Valerio

    2014-01-01

    The use of Peltier cells to realize compact and precise temperature controlled devices is under continuous extension in recent years. In order to support the design of temperature control systems, a simplified modeling of heat transfer dynamics for thermoelectric devices is presented. By following a macroscopic approach, the heat flux removed at the cold side of Peltier cell can be expressed as Q . c =γ(T c −T c eq ), where γ is a coefficient dependent on the electric current, T c and T c eq are the actual and steady state cold side temperature, respectively. On the other hand, a microscopic modeling approach was pursued via finite element analysis software packages. To validate the models, an experimental apparatus was designed and build-up, consisting in a sample vial with the surfaces in direct contact with Peltier cells. Both modeling approaches led to reliable prediction of transient and steady state sample temperature. -- Highlights: • Simplified modeling of heat transfer dynamics in Peltier cells. • Coupled macroscopic and microscopic approach. • Experimental apparatus: temperature control of a sample vial. • Both modeling approaches predict accurately the transient and steady state sample temperature

  10. Control of information as an element of nuclear safeguards

    International Nuclear Information System (INIS)

    Green, J.N.

    1982-03-01

    Control of information as an element of physical protection has a long history in the field of national security. The nuclear industry is familiar with the constraints on proprietary information; and, with an effective date of October 1, 1980 for Parts 25 and 95 in Title 10 of the code of Federal Regulations, certain activities had to cope with rules for safeguarding of classified information. In applying the rules it is important to understand the differences between national security information and restricted data, and how guidance is promulgated both by the Nuclear Regulatory Commission (NRC) and by the Department of Energy. More recently, with a fully effective date of January 20, 1982, the NRC published rules for the protection of unclassified safeguards information. The scope is much broader than for the classified information. For example, the rules are applicable to power reactors. In this paper the directives which provide the details for compliance with all these rules are identified, and their application is discussed. NRC inspectors will be checking for compliance with the rules. Once problems of compliance are resolved, the more difficult question of evaluating the impact of information control procedures on the effectiveness of a physical protection system can be addressed

  11. Close Sequence Comparisons are Sufficient to Identify Humancis-Regulatory Elements

    Energy Technology Data Exchange (ETDEWEB)

    Prabhakar, Shyam; Poulin, Francis; Shoukry, Malak; Afzal, Veena; Rubin, Edward M.; Couronne, Olivier; Pennacchio, Len A.

    2005-12-01

    Cross-species DNA sequence comparison is the primary method used to identify functional noncoding elements in human and other large genomes. However, little is known about the relative merits of evolutionarily close and distant sequence comparisons, due to the lack of a universal metric for sequence conservation, and also the paucity of empirically defined benchmark sets of cis-regulatory elements. To address this problem, we developed a general-purpose algorithm (Gumby) that detects slowly-evolving regions in primate, mammalian and more distant comparisons without requiring adjustment of parameters, and ranks conserved elements by P-value using Karlin-Altschul statistics. We benchmarked Gumby predictions against previously identified cis-regulatory elements at diverse genomic loci, and also tested numerous extremely conserved human-rodent sequences for transcriptional enhancer activity using reporter-gene assays in transgenic mice. Human regulatory elements were identified with acceptable sensitivity and specificity by comparison with 1-5 other eutherian mammals or 6 other simian primates. More distant comparisons (marsupial, avian, amphibian and fish) failed to identify many of the empirically defined functional noncoding elements. We derived an intuitive relationship between ancient and recent noncoding sequence conservation from whole genome comparative analysis, which explains some of these findings. Lastly, we determined that, in addition to strength of conservation, genomic location and/or density of surrounding conserved elements must also be considered in selecting candidate enhancers for testing at embryonic time points.

  12. Quality control procedures for HTGR fuel element components

    International Nuclear Information System (INIS)

    Delle, W.W.; Koizlik, K.; Luhleich, H.; Nickel, H.

    1976-08-01

    The growing use of nuclear reactors for the production of electric power throughout the world, and the consequent increase in the number of nuclear fuel manufacturers, is giving enhanced importance to the consideration of quality assurance in the production of nuclear fuels. The fuel is the place, where the radioactive fission products are produced in the reactor and, therefore, the integrity of the fuel is of utmost importance. The first and most fundamental means of insuring that integrity is through the exercise of properly designed quality assurance programmes during the manufacture of the fuel and other fuel element components. The International Atomic Energy Agency therefore conducted an International Seminar on Nuclear Fuel Quality Assurance in Oslo, Norway from 24 till 28 May, 1976. This KFA report contains a paper which was distributed preliminary during the seminar and - in the second part - the text of the oral presentation. The paper gives a summary of the procedures available in the present state for the production control of HTGR core materials and of the meaning of the particular properties for reactor operation. (orig./UA) [de

  13. Device for preventing spontaneous repositioning of a control element of a nuclear reactor

    International Nuclear Information System (INIS)

    Maslenok, B.A.; Chegaj, A.S.; Slobin, W.G.; Mednickij, W.G.; Genkin, L.I.; Petritschenko, N.F.; Mitrofanow, B.I.

    1976-01-01

    The invention concerns the control element of a nuclear reactor. The vertical connecting rod is to be prevented from spontaneous repositioning if the pressurized housing which encloses the control element becomes leaky. It is proposed to provide spheres as wedging elements locking the connecting rod, but also allowing easy loosening. (UWI) [de

  14. Investigation of control law reconfigurations to accommodate a control element failure on a commercial airplane

    Science.gov (United States)

    Ostroff, A. J.; Hueschen, R. M.

    1984-01-01

    The ability of a pilot to reconfigure the control surfaces on an airplane after a failure, allowing the airplane to recover to a safe condition, becomes more difficult with increasing airplane complexity. Techniques are needed to stabilize and control the airplane immediately after a failure, allowing the pilot more time to make longer range decisions. This paper presents a baseline design of a discrete multivariable control law using four controls for the longitudinal channel of a B-737. Non-reconfigured and reconfigured control laws are then evaluated, both analytically and by means of a digital airplane simulation, for three individual control element failures (stabilizer, elevator, spoilers). The simulation results are used to evaluate the effectiveness of the control reconfiguration on tracking ability during the approach and landing phase of flight with severe windshear and turbulence disturbing the airplane dynamics.

  15. CONDOR: a database resource of developmentally associated conserved non-coding elements

    Directory of Open Access Journals (Sweden)

    Smith Sarah

    2007-08-01

    Full Text Available Abstract Background Comparative genomics is currently one of the most popular approaches to study the regulatory architecture of vertebrate genomes. Fish-mammal genomic comparisons have proved powerful in identifying conserved non-coding elements likely to be distal cis-regulatory modules such as enhancers, silencers or insulators that control the expression of genes involved in the regulation of early development. The scientific community is showing increasing interest in characterizing the function, evolution and language of these sequences. Despite this, there remains little in the way of user-friendly access to a large dataset of such elements in conjunction with the analysis and the visualization tools needed to study them. Description Here we present CONDOR (COnserved Non-coDing Orthologous Regions available at: http://condor.fugu.biology.qmul.ac.uk. In an interactive and intuitive way the website displays data on > 6800 non-coding elements associated with over 120 early developmental genes and conserved across vertebrates. The database regularly incorporates results of ongoing in vivo zebrafish enhancer assays of the CNEs carried out in-house, which currently number ~100. Included and highlighted within this set are elements derived from duplication events both at the origin of vertebrates and more recently in the teleost lineage, thus providing valuable data for studying the divergence of regulatory roles between paralogs. CONDOR therefore provides a number of tools and facilities to allow scientists to progress in their own studies on the function and evolution of developmental cis-regulation. Conclusion By providing access to data with an approachable graphics interface, the CONDOR database presents a rich resource for further studies into the regulation and evolution of genes involved in early development.

  16. Human Robotic Systems (HRS): Controlling Robots over Time Delay Element

    Data.gov (United States)

    National Aeronautics and Space Administration — This element involves the development of software that enables easier commanding of a wide range of NASA relevant robots through the Robot Application Programming...

  17. Dynamic regulation of the transcription initiation landscape at single nucleotide resolution during vertebrate embryogenesis

    NARCIS (Netherlands)

    C. Nepal (Chirag); Y. Hadzhiev (Yavor); C. Previti (Christopher); V. Haberle (Vanja); N. Li (Nan); H. Takahashi (Hiroyuki); A.M. Suzuki (Ana Maria); Y. Sheng (Ying); R.F. Abdelhamid (Rehab); S. Anand (Santosh); P.A. Gehrig (Paola A.); A. Akalin (Altuna); C. Kockx (Christel); A. Van Der Sloot (Antoine); W.F.J. van IJcken (Wilfred); O. Armant (Olivier); S. Rastegar (Sepand); C. Watson (Craig); U. Strähle (Uwe); E. Stupka (Elia); P. Carninci (Piero); B. Lenhard (Boris); F. Müller (Ferenc)

    2013-01-01

    textabstractSpatiotemporal control of gene expression is central to animal development. Core promoters represent a previously unanticipated regulatory level by interacting with cis-regulatory elements and transcription initiation in different physiological and developmental contexts. Here, we

  18. Dynamic Epigenetic Control of Highly Conserved Noncoding Elements

    KAUST Repository

    Seridi, Loqmane

    2014-10-07

    Background Many noncoding genomic loci have remained constant over long evolutionary periods, suggesting that they are exposed to strong selective pressures. The molecular functions of these elements have been partially elucidated, but the fundamental reason for their extreme conservation is still unknown. Results To gain new insights into the extreme selection of highly conserved noncoding elements (HCNEs), we used a systematic analysis of multi-omic data to study the epigenetic regulation of such elements during the development of Drosophila melanogaster. At the sequence level, HCNEs are GC-rich and have a characteristic oligomeric composition. They have higher levels of stable nucleosome occupancy than their flanking regions, and lower levels of mononucleosomes and H3.3, suggesting that these regions reside in compact chromatin. Furthermore, these regions showed remarkable modulations in histone modification and the expression levels of adjacent genes during development. Although HCNEs are primarily initiated late in replication, about 10% were related to early replication origins. Finally, HCNEs showed strong enrichment within lamina-associated domains. Conclusion HCNEs have distinct and protective sequence properties, undergo dynamic epigenetic regulation, and appear to be associated with the structural components of the chromatin, replication origins, and nuclear matrix. These observations indicate that such elements are likely to have essential cellular functions, and offer insights into their epigenetic properties.

  19. Dynamic Epigenetic Control of Highly Conserved Noncoding Elements

    KAUST Repository

    Seridi, Loqmane; Ryu, Tae Woo; Ravasi, Timothy

    2014-01-01

    Background Many noncoding genomic loci have remained constant over long evolutionary periods, suggesting that they are exposed to strong selective pressures. The molecular functions of these elements have been partially elucidated, but the fundamental reason for their extreme conservation is still unknown. Results To gain new insights into the extreme selection of highly conserved noncoding elements (HCNEs), we used a systematic analysis of multi-omic data to study the epigenetic regulation of such elements during the development of Drosophila melanogaster. At the sequence level, HCNEs are GC-rich and have a characteristic oligomeric composition. They have higher levels of stable nucleosome occupancy than their flanking regions, and lower levels of mononucleosomes and H3.3, suggesting that these regions reside in compact chromatin. Furthermore, these regions showed remarkable modulations in histone modification and the expression levels of adjacent genes during development. Although HCNEs are primarily initiated late in replication, about 10% were related to early replication origins. Finally, HCNEs showed strong enrichment within lamina-associated domains. Conclusion HCNEs have distinct and protective sequence properties, undergo dynamic epigenetic regulation, and appear to be associated with the structural components of the chromatin, replication origins, and nuclear matrix. These observations indicate that such elements are likely to have essential cellular functions, and offer insights into their epigenetic properties.

  20. Effects of controlled element dynamics on human feedforward behavior in ramp-tracking tasks.

    Science.gov (United States)

    Laurense, Vincent A; Pool, Daan M; Damveld, Herman J; van Paassen, Marinus René M; Mulder, Max

    2015-02-01

    In real-life manual control tasks, human controllers are often required to follow a visible and predictable reference signal, enabling them to use feedforward control actions in conjunction with feedback actions that compensate for errors. Little is known about human control behavior in these situations. This paper investigates how humans adapt their feedforward control dynamics to the controlled element dynamics in a combined ramp-tracking and disturbance-rejection task. A human-in-the-loop experiment is performed with a pursuit display and vehicle-like controlled elements, ranging from a single integrator through second-order systems with a break frequency at either 3, 2, or 1 rad/s, to a double integrator. Because the potential benefits of feedforward control increase with steeper ramp segments in the target signal, three steepness levels are tested to investigate their possible effect on feedforward control with the various controlled elements. Analyses with four novel models of the operator, fitted to time-domain data, reveal feedforward control for all tested controlled elements and both (nonzero) tested levels of ramp steepness. For the range of controlled element dynamics investigated, it is found that humans adapt to these dynamics in their feedforward response, with a close to perfect inversion of the controlled element dynamics. No significant effects of ramp steepness on the feedforward model parameters are found.

  1. The control of artificial radio-elements of medical use in France

    International Nuclear Information System (INIS)

    Cohen, Y.

    1960-01-01

    Artificial radio-elements are sometimes used in hospitals or laboratories possessing specific equipment and certified staff. These radio-elements are produced within the Saclay Nuclear Centre, and, if they are aimed to a medical use, are submitted to a pharmaceutical control which the issue is addressed in this report. After a recall of the preparation of these radio-elements, the author describes physical controls (determination of radioactivity, measurement of colloidal particle size, impurity content), and biological controls performed on these radio-elements. Reprint of a paper published in Annales pharmaceutiques francaises, tom. XVII, p. 250-260, 1959

  2. Phase distribution of ecologically controlled chemical elements in production of extraction phosphoric acid

    International Nuclear Information System (INIS)

    Kazak, V.G.; Agnelov, A.I.; Zajtsev, P.M.

    1995-01-01

    Content of 16 ecologically controlled chemical element (among them Cd, Sr, Th, U, V, Y) in solid and liquid phases of extraction phosphorus acid (EPA) production is determined. These elements are recommended to control by Scientific research institute of human ecology and environment to establish their extraction coefficients to phosphogypsum and EPA and optimal variant of production of ecologically sate phosphorus fertilizers. X-ray fluorescent, atomic-absorption and polarographic methods are used for analysis these elements

  3. Visual inspection as one of the important elements of the quality control

    Directory of Open Access Journals (Sweden)

    Paweł Szklarzyk

    2014-06-01

    Full Text Available Quality control of the production process allows to detect incompatibilities. One of the key elements of quality control is a visual inspection. The object of the research is to determine the essential elements having an impact on visual inspections. Research was carried out according to the BOST method designed at the Institute of Production Engineering, Technical University of Czestochowa

  4. Non-destructive control of cladding thickness of fuel elements for research reactors

    Energy Technology Data Exchange (ETDEWEB)

    Karlov, Y.; Zhukov, Y.; Chashchin, S

    1997-07-01

    The control method of fuel elements for research reactors by means of measuring beta particles back scattering made it possible to perform complete automatic non-destructive control of internal and external claddings at our plant. This control gives high guarantees of the fuel element correspondence to the requirements. The method can be used to control the three-layer items of different geometry, including plates. (author)

  5. Expression of the central growth regulator BIG BROTHER is regulated by multiple cis-elements

    Directory of Open Access Journals (Sweden)

    Breuninger Holger

    2012-03-01

    Full Text Available Abstract Background Much of the organismal variation we observe in nature is due to differences in organ size. The observation that even closely related species can show large, stably inherited differences in organ size indicates a strong genetic component to the control of organ size. Despite recent progress in identifying factors controlling organ growth in plants, our overall understanding of this process remains limited, partly because the individual factors have not yet been connected into larger regulatory pathways or networks. To begin addressing this aim, we have studied the upstream regulation of expression of BIG BROTHER (BB, a central growth-control gene in Arabidopsis thaliana that prevents overgrowth of organs. Final organ size and BB expression levels are tightly correlated, implying the need for precise control of its expression. BB expression mirrors proliferative activity, yet the gene functions to limit proliferation, suggesting that it acts in an incoherent feedforward loop downstream of growth activators to prevent over-proliferation. Results To investigate the upstream regulation of BB we combined a promoter deletion analysis with a phylogenetic footprinting approach. We were able to narrow down important, highly conserved, cis-regulatory elements within the BB promoter. Promoter sequences of other Brassicaceae species were able to partially complement the A. thaliana bb-1 mutant, suggesting that at least within the Brassicaceae family the regulatory pathways are conserved. Conclusions This work underlines the complexity involved in precise quantitative control of gene expression and lays the foundation for identifying important upstream regulators that determine BB expression levels and thus final organ size.

  6. Controlling inclusive cross sections in parton shower + matrix element merging

    International Nuclear Information System (INIS)

    Plaetzer, Simon

    2012-11-01

    We propose an extension of matrix element plus parton shower merging at tree level to preserve inclusive cross sections obtained from the merged and showered sample. Implementing this constraint generates approximate next-to-leading order (NLO) contributions similar to the LoopSim approach. We then show how full NLO, or in principle even higher order, corrections can be added consistently, including constraints on inclusive cross sections to account for yet missing parton shower accuracy at higher logarithmic order. We also show how NLO accuracy below the merging scale can be obtained.

  7. Controlling inclusive cross sections in parton shower + matrix element merging

    Energy Technology Data Exchange (ETDEWEB)

    Plaetzer, Simon

    2012-11-15

    We propose an extension of matrix element plus parton shower merging at tree level to preserve inclusive cross sections obtained from the merged and showered sample. Implementing this constraint generates approximate next-to-leading order (NLO) contributions similar to the LoopSim approach. We then show how full NLO, or in principle even higher order, corrections can be added consistently, including constraints on inclusive cross sections to account for yet missing parton shower accuracy at higher logarithmic order. We also show how NLO accuracy below the merging scale can be obtained.

  8. Developmental control of transcriptional and proliferative potency during the evolutionary emergence of animals

    Science.gov (United States)

    Arenas-Mena, Cesar; Coffman, James A.

    2016-01-01

    Summary It is proposed that the evolution of complex animals required repressive genetic mechanisms for controlling the transcriptional and proliferative potency of cells. Unicellular organisms are transcriptionally potent, able to express their full genetic complement as the need arises through their life cycle, whereas differentiated cells of multicellular organisms can only express a fraction of their genomic potential. Likewise, whereas cell proliferation in unicellular organisms is primarily limited by nutrient availability, cell proliferation in multicellular organisms is developmentally regulated. Repressive genetic controls limiting the potency of cells at the end of ontogeny would have stabilized the gene expression states of differentiated cells and prevented disruptive proliferation, allowing the emergence of diverse cell types and functional shapes. We propose that distal cis-regulatory elements represent the primary innovations that set the stage for the evolution of developmental gene regulatory networks and the repressive control of key multipotency and cell-cycle control genes. The testable prediction of this model is that the genomes of extant animals, unlike those of our unicellular relatives, encode gene regulatory circuits dedicated to the developmental control of transcriptional and proliferative potency. PMID:26173445

  9. Control and repair system for radioactive nuclear fuel elements

    International Nuclear Information System (INIS)

    Shallenberger, J.M.; Hornak, L.P.; Desmarchais, W.E.

    1975-01-01

    Irradiated fuel, especially such containing Pu-239, are put in a shielding container for inspection or repair. This container consists of an inner and outer tube of, for example, stainless steel, between which there is a gap filled with water, mineral oil, or polyethylene. At the upper end of the shielding container a rotating sleeve is positioned, by means of a bearing. It contains, for instance, an access opening and an inspection opening which are shielded by means of plexiglass. The access hole is opened only for repair work. In oder to prevent radiation from escaping to the environment during withdrawal and inspection of the fuel elements a second shielding container or shielding tube may be put over the sleeve. (DG/PB) [de

  10. Transcriptomic analysis of rice aleurone cells identified a novel abscisic acid response element.

    Science.gov (United States)

    Watanabe, Kenneth A; Homayouni, Arielle; Gu, Lingkun; Huang, Kuan-Ying; Ho, Tuan-Hua David; Shen, Qingxi J

    2017-09-01

    Seeds serve as a great model to study plant responses to drought stress, which is largely mediated by abscisic acid (ABA). The ABA responsive element (ABRE) is a key cis-regulatory element in ABA signalling. However, its consensus sequence (ACGTG(G/T)C) is present in the promoters of only about 40% of ABA-induced genes in rice aleurone cells, suggesting other ABREs may exist. To identify novel ABREs, RNA sequencing was performed on aleurone cells of rice seeds treated with 20 μM ABA. Gibbs sampling was used to identify enriched elements, and particle bombardment-mediated transient expression studies were performed to verify the function. Gene ontology analysis was performed to predict the roles of genes containing the novel ABREs. This study revealed 2443 ABA-inducible genes and a novel ABRE, designated as ABREN, which was experimentally verified to mediate ABA signalling in rice aleurone cells. Many of the ABREN-containing genes are predicted to be involved in stress responses and transcription. Analysis of other species suggests that the ABREN may be monocot specific. This study also revealed interesting expression patterns of genes involved in ABA metabolism and signalling. Collectively, this study advanced our understanding of diverse cis-regulatory sequences and the transcriptomes underlying ABA responses in rice aleurone cells. © 2017 John Wiley & Sons Ltd.

  11. Training elements at different levels in the strategies for control of schistosomiasis

    DEFF Research Database (Denmark)

    Ørnbjerg, Niels; Simonsen, P. E.; Furu, Peter

    1989-01-01

    Recently acquired comprehensive knowledge concerning the epidemiology of schistosomiasis has provided the background for the establishment of schistosomiasis control strategies. However, the planning, implementation, and maintenance of such control programmes requires sufficient numbers of well t...... trained personnel at the local, district and central levels. Training of health personnel as well as motivation of the community are fundamental and essential elements in any schistosomiasis control programme. The training elements and approaches are discussed....

  12. Computational methods to dissect cis-regulatory transcriptional ...

    Indian Academy of Sciences (India)

    The formation of diverse cell types from an invariant set of genes is governed by biochemical and molecular processes that regulate gene activity. A complete understanding of the regulatory mechanisms of gene expression is the major function of genomics. Computational genomics is a rapidly emerging area for ...

  13. Cis-regulatory timers for developmental gene expression.

    Directory of Open Access Journals (Sweden)

    Lionel Christiaen

    2013-10-01

    Full Text Available How does a fertilized egg decode its own genome to eventually develop into a mature animal? Each developing cell must activate a battery of genes in a timely manner and according to the function it will ultimately perform, but how? During development of the notochord--a structure akin to the vertebrate spine--in a simple marine invertebrate, an essential protein called Brachyury binds to specific sites in its target genes. A study just published in PLOS Biology reports that if the target gene contains multiple Brachyury-binding sites it will be activated early in development but if it contains only one site it will be activated later. Genes that contain no binding site can still be activated by Brachyury, but only indirectly by an earlier Brachyury-dependent gene product, so later than the directly activated genes. Thus, this study shows how several genes can interpret the presence of a single factor differently to become active at distinct times in development.

  14. Controlling excited-state contamination in nucleon matrix elements

    Energy Technology Data Exchange (ETDEWEB)

    Yoon, Boram; Gupta, Rajan; Bhattacharya, Tanmoy; Engelhardt, Michael; Green, Jeremy; Joó, Bálint; Lin, Huey-Wen; Negele, John; Orginos, Kostas; Pochinsky, Andrew; Richards, David; Syritsyn, Sergey; Winter, Frank

    2016-06-01

    We present a detailed analysis of methods to reduce statistical errors and excited-state contamination in the calculation of matrix elements of quark bilinear operators in nucleon states. All the calculations were done on a 2+1 flavor ensemble with lattices of size $32^3 \\times 64$ generated using the rational hybrid Monte Carlo algorithm at $a=0.081$~fm and with $M_\\pi=312$~MeV. The statistical precision of the data is improved using the all-mode-averaging method. We compare two methods for reducing excited-state contamination: a variational analysis and a two-state fit to data at multiple values of the source-sink separation $t_{\\rm sep}$. We show that both methods can be tuned to significantly reduce excited-state contamination and discuss their relative advantages and cost-effectiveness. A detailed analysis of the size of source smearing used in the calculation of quark propagators and the range of values of $t_{\\rm sep}$ needed to demonstrate convergence of the isovector charges of the nucleon to the $t_{\\rm sep} \\to \\infty $ estimates is presented.

  15. Air contamination control as an element of state environmental monitoring

    International Nuclear Information System (INIS)

    Grabowski, D.

    1993-01-01

    The results of air contamination control on the base of gamma and beta radioactivity of aerosols collected on filters and in precipitation samples have been shown. The data have been gathered from 12 monitoring stations in Poland during 1993. No significant differences between actual results and those obtained in previous years have been noticed. 4 figs, 1 tab

  16. The interrelations amongst control system elements in public sector organizations.

    NARCIS (Netherlands)

    Verbeeten, F.H.M.

    2013-01-01

    The aim of this study is to explain the decisions that public sector organizations make with regard to the design and use of their management control system. New Public Management, based on economics theory, suggests that employees in the public sector should be freed from traditional bureaucratic

  17. Assurance and control of quality in trace element analysis

    International Nuclear Information System (INIS)

    Heinonen, J.

    1979-01-01

    The study demonstrates in practice the assurance and control of the quality of results from trace analysis in biological materials. The performance of three analytical methods is studied: one involving the determination of Cs and two the determination of As by neutron activation techniques in biological materials at the natural background level. In the case of Cs, the validity of the analytical procedure was investigated by the means available in the laboratory of the Institute and by utilizing the specific properties of the determinant. In the establishment and control of accuracy, the analysis of precision was essential. The investigation of the two different methods applied for the determination of arsenic demonstrates the many problems connected with trace analysis. For the control of accuracy a number of different kinds of reference materials (RMs) were used, namely four former intercomparison materials of the IAEA and two certified RMs of the NBS. The various tests performed revealed two different types of systematic errors. The scheme applied for the long-term surveillance of systematic and random errors is found to be suitable for the continuous control of quality of results from routine analysis. (author)

  18. Systematic Integrated Process Design and Control of Binary Element Reactive Distillation Processes

    DEFF Research Database (Denmark)

    Mansouri, Seyed Soheil; Sales-Cruz, Mauricio; Huusom, Jakob Kjøbsted

    2016-01-01

    In this work, integrated process design and control of reactive distillation processes is considered through a computer-aided framework. First, a set of simple design methods for reactive distillation column that are similar in concept to non-reactive distillation design methods are extended...... to design-control of reactive distillation columns. These methods are based on the element concept where the reacting system of compounds is represented as elements. When only two elements are needed to represent the reacting system of more than two compounds, a binary element system is identified....... It is shown that the same design-control principles that apply to a non-reacting binary system of compounds are also valid for a reactive binary system of elements for distillation columns. Application of this framework shows that designing the reactive distillation process at the maximum driving force...

  19. Integrated Process Design and Control of Multi-element Reactive Distillation Processes

    DEFF Research Database (Denmark)

    Mansouri, Seyed Soheil; Sales-Cruz, Mauricio; Huusom, Jakob Kjøbsted

    2016-01-01

    In this work, integrated process design and control of reactive distillation processes involving multi-elements is presented. The reactive distillation column is designed using methods and tools which are similar in concept to non-reactive distillation design methods, such as driving force approach....... The methods employed in this work are based on equivalent element concept. This concept facilitates the representation of a multi-element reactive system as equivalent binary light and heavy key elements. First, the reactive distillation column is designed at the maximum driving force where through steady...

  20. State of the Art Report for Development of Control Element Drive Mechanism of the APR+ Reactor

    Energy Technology Data Exchange (ETDEWEB)

    Lee, Jae Seon; Choi, Suhn; Song, Chul Hwa

    2008-10-15

    Recently newly-developed nuclear reactors with increased safety and enhanced performance by developed countries in the nuclear area are competing in the global nuclear market. Several reactors, for example AP600 and AP1000 by Westinghouse Electric Co. in USA, EPR by Areva in Europe, APWR by Mitsubishi Heavy Industry in Japan in the pressurized power reactor, are competing to preoccupy the nuclear market during Nuclear Renaissance. Dedicated control element drive mechanism with enhanced performance and increased safety are developed for these new reactors. And load follow capability is required, and it is estimated that load follow requirement make design requirement of a control element drive mechanism harsh. It is necessary to review the current technical state of a control element drive mechanism. This work is aimed to review the design characteristics of a past and current control element drive mechanism for a nuclear reactor and to check the direction and goal of CEDM design development recently.

  1. State of the Art Report for Development of Control Element Drive Mechanism of the APR+ Reactor

    International Nuclear Information System (INIS)

    Lee, Jae Seon; Choi, Suhn; Song, Chul Hwa

    2008-10-01

    Recently newly-developed nuclear reactors with increased safety and enhanced performance by developed countries in the nuclear area are competing in the global nuclear market. Several reactors, for example AP600 and AP1000 by Westinghouse Electric Co. in USA, EPR by Areva in Europe, APWR by Mitsubishi Heavy Industry in Japan in the pressurized power reactor, are competing to preoccupy the nuclear market during Nuclear Renaissance. Dedicated control element drive mechanism with enhanced performance and increased safety are developed for these new reactors. And load follow capability is required, and it is estimated that load follow requirement make design requirement of a control element drive mechanism harsh. It is necessary to review the current technical state of a control element drive mechanism. This work is aimed to review the design characteristics of a past and current control element drive mechanism for a nuclear reactor and to check the direction and goal of CEDM design development recently

  2. Electromagnetic analysis of locking device for SMART control element drive mechanism

    Energy Technology Data Exchange (ETDEWEB)

    Huh, Hyung; Kim, J. I.; Kim, J. H. [Korea Atomic Energy Research Institute, Taejon (Korea)

    1998-09-01

    A numerical electromagnetic analysis was performed for the control rod locking device which is installed in the control element drive mechanism of integral reactor, SMART. A plunger model for the electromagnetic analysis of the locking device was developed and theoretical bases for the model were established. Design parameters related to plunger pushing force were identified, and the optimum design point was determined by analysing the trend of the plunger pushing force with finite element method. 8 refs., 22 figs., 2 tabs. (Author)

  3. Electromagnetic analysis of locking device for SMART control element drive mechanism

    International Nuclear Information System (INIS)

    Heo, H.; Kim, J. I.; Kim, J. H.; Kim, Y. W.; Park, J. S.

    1998-01-01

    A numerical electromagnetic analysis was performed for the control rod locking device which is installed in the control element drive mechanism of integral reactor, SMART. A plunger model for the electromagnetic analysis of the locking device was developed and theoretical bases for the model were established. Design parameters related to plunger pushing force were identified, and the optimum design point was determined by analyzing the trend of the plunger pushing force with finite element method

  4. The Practical Application of Minor Element Control in Small Scale Melts

    Science.gov (United States)

    Jablonski, P. D.; Hawk, J. A.

    Many times small scale melts are made for the purposes of alloy development, component evaluation, or simply economic concerns when "commercial" alloys are unavailable in small quantities. Not only is it critical that the major alloy elements meet the desired levels, but "tramp" elements or trace element additions must also be controlled. Control of tramp and trace elements on the small scale is often done differently simply due to the scale of the melt or the equipment available. In this paper several approaches will be presented that have been used at NETL in manufacturing alloys for in-house research, including, for example, vacuum refining. Also, the relative effectiveness of various gettering elements will be explored. The successes achieved as well as the failures of the various approaches will be discussed in terms of thermodynamic and kinetic considerations. The presentation will conclude with practical alloy examples.

  5. Development of a scanning proton microprobe - computer-control, elemental mapping and applications

    International Nuclear Information System (INIS)

    Loevestam, Goeran.

    1989-08-01

    A scanning proton microprobe set-up has been developed at the Pelletron accelerator in Lund. A magnetic beam scanning system and a computer-control system for beam scanning and data aquisition is described. The computer system consists of a VMEbus front-end computer and a μVax-II host-computer, interfaced by means of a high-speed data link. The VMEbus computer controls data acquisition, beam charge monitoring and beam scanning while the more sophisticated work of elemental mapping and spectrum evaluations is left to the μVax-II. The calibration of the set-up is described as well as several applications. Elemental micro patterns in tree rings and bark has been investigated by means of elemental mapping and quantitative analysis. Large variations of elemental concentrations have been found for several elements within a single tree ring. An external beam set-up has been developed in addition to the proton microprobe set-up. The external beam has been used for the analysis of antique papyrus documents. Using a scanning sample procedure and particle induced X-ray emission (PIXE) analysis, damaged and missing characters of the text could be made visible by means of multivariate statistical data evaluation and elemental mapping. Also aspects of elemental mapping by means of scanning μPIXE analysis are discussed. Spectrum background, target thickness variations and pile-up are shown to influence the structure of elemental maps considerably. In addition, a semi-quantification procedure has been developed. (author)

  6. Two-point method uncertainty during control and measurement of cylindrical element diameters

    Science.gov (United States)

    Glukhov, V. I.; Shalay, V. V.; Radev, H.

    2018-04-01

    The topic of the article is devoted to the urgent problem of the reliability of technical products geometric specifications measurements. The purpose of the article is to improve the quality of parts linear sizes control by the two-point measurement method. The article task is to investigate methodical extended uncertainties in measuring cylindrical element linear sizes. The investigation method is a geometric modeling of the element surfaces shape and location deviations in a rectangular coordinate system. The studies were carried out for elements of various service use, taking into account their informativeness, corresponding to the kinematic pairs classes in theoretical mechanics and the number of constrained degrees of freedom in the datum element function. Cylindrical elements with informativity of 4, 2, 1 and θ (zero) were investigated. The uncertainties estimation of in two-point measurements was made by comparing the results of of linear dimensions measurements with the functional diameters maximum and minimum of the element material. Methodical uncertainty is formed when cylindrical elements with maximum informativeness have shape deviations of the cut and the curvature types. Methodical uncertainty is formed by measuring the element average size for all types of shape deviations. The two-point measurement method cannot take into account the location deviations of a dimensional element, so its use for elements with informativeness less than the maximum creates unacceptable methodical uncertainties in measurements of the maximum, minimum and medium linear dimensions. Similar methodical uncertainties also exist in the arbitration control of the linear dimensions of the cylindrical elements by limiting two-point gauges.

  7. The need to use elements of controlling system by entities of small and microenterprises

    Directory of Open Access Journals (Sweden)

    K.O. Buzhymska

    2017-08-01

    Full Text Available The entities of small and microenterprise are the basis of an effectively functioning market economy. The development of small business in Ukraine is hindered by a number of negative factors, one of them is the imperfection of the management system. An effective method of improving the management system is the use of controlling as one of the newest technologies for coordinating managerial and economic processes towards achieving the general goals of the business entity. The article is devoted to the substantiation of the need to use elements of the controlling system at microenterpreneurship enterprises, to identify elements that are subject to urgent implementation and to determine effective approaches to the practical implementation of selected elements. The controlling system is primarily used to coordinate the management process in complex organizational structures that are characteristic of large and medium-sized enterprises, but some of its elements can be effectively used by small and microenterprises. The authors substantiate the necessity of introducing the following elements of the controlling system by small business entities: management accounting, monitoring, cost-benefit analysis, the information support for management decisions. The introduction of these elements is appropriate with the use of outsourcing or co-sourcing. The consultative and professional support of these processes should be provided by local government authorities as one of the directions of the state program for supporting small business.

  8. Active Vibration Control of a Railway Vehicle Carbody Using Piezoelectric Elements

    Science.gov (United States)

    Molatefi, Habibollah; Ayoubi, Pejman; Mozafari, Hozhabr

    2017-07-01

    In recent years and according to modern transportation development, rail vehicles are manufactured lighter to achieve higher speed and lower transportation costs. On the other hand, weight reduction of rail vehicles leads to increase the structural vibration. In this study, Active Vibration Control of a rail vehicle using piezoelectric elements is investigated. The optimal control employed as the control approach regard to the first two modes of vibration. A simplified Car body structure is modeled in Matlab using the finite element theory by considering six DOF beam element and then the Eigen functions and mode shapes are derived. The surface roughness of different classes of rail tracks have been obtained using random vibration theory and applied to the secondary suspension as the excitation of the structure; Then piezoelectric mounted where the greatest moments were captured. The effectiveness of Piezoelectric in structural vibrations attenuation of car body is demonstrated through the state space equations and its effect on modal coefficient.

  9. Experimental investigation of flow-induced control-element movements by noise analysis

    International Nuclear Information System (INIS)

    Grunwald, G.; Liewers, P.; Schumann, P.; Weiss, F.P.

    1978-01-01

    The possibility has been reported of separating a single noise component due to flow-induced vibrations of a certain control element from a complex neutron signal which also contained contributions of many other control elements vibrating similarly. One of the basic assumptions for the different methods applied was that the body sound signal originating from touch events with the channel wall is closely correlated with the control-element movement. Some discrepancies between the results of the different methods showed that this assumption may not be entirely fulfilled. This paper investigates this correlation more accurately by measurements of an air flow model of the control-element channel. The pendulum movement of the element, and the body-sound signal due to the touch events with the channel wall, were measured at different flow-rates. The result is that the correlation is not an ideal one. For a constant flow-rate the touch events happen mainly within a small angle region, which means that the touch event marks a certain phase of the movement period and is therefore correlated with the movement. The dispersion of the touch events' angle distribution explains the small discrepancy between the so-called modified averaging method, which uses the sound signal to trigger the averaging procedure, and the partial spectral density method. But not all discrepancies can be explained by these results; they await further investigation. (author)

  10. Control software development for magnetorheological finishing of large aperture optical elements

    International Nuclear Information System (INIS)

    Zheng Nan; Li Haibo; Yuan Zhigang; Zhong Bo

    2011-01-01

    Based on the mechanism of magnetorheological finishing, the dwell time function was solved by Jansson-Van Cit-tert algorithm to accomplish the kernel module design. Then the software modularization programming, modular testing and integration testing were conducted. A verification experiment was carried out on a crystal element with full aperture of 500 mm and the element's surface achieved rapid and efficient convergence after the software controlled magnetorheological finishing. It is proved that the software could control the whole polishing process accurately. (authors)

  11. Trace element distribution in the hair of some sickle cell anemia patients and controls

    International Nuclear Information System (INIS)

    Oluwole, A.F.; Asubiojo, O.I.; Adekile, A.D.; Filby, R.H.; Bragg, A.; Grimm, C.I.

    1990-01-01

    Hair samples of some young sickle cell anemia (SCA) and Control patients in Nigeria were analyzed for 12 elements, viz, Se, Hg, Cr, Fe, Zn, Co, Cu, Br, As, Sb, Na, and Sc, using instrumental Neutron Activation Analysis (INAA). With the exception of Cu, which was found to be significantly higher in the hair of SCA patients (at the 0.05 level of the t-test), there were generally no significant differences in elemental concentrations within the two groups. A preliminary study of the elemental contents of the fingernails of the same subjects showed a higher abundance of most of the elements in nail than in hair. These preliminary results were compared with similar studies form some other parts of the world

  12. A Modified Model Reference Adaptive Control for a Single Motor of Latch Type Control Element Drive Mechanism

    International Nuclear Information System (INIS)

    Park, Bae Jeong

    2016-01-01

    A modified Model Reference Adaptive Control (MRAC) for a single motor of latch type Control Element Drive Mechanism (CEDM) is described herein. The CEDM has complicated dynamic characteristics including electrical, mechanical, and magnetic effects. The previous control system has utilized a Proportional-Integral (PI) controller, and the control performance is limited according to nonlinear dynamic characteristics and environmental conditions. The modified MRAC using system identification (ID) technique improves the control performance in the operating condition such as model parameter variation and environmental condition change. The modified MRAC using the identified reference model with feed-forward gain and 180Hz noise reduction filter presents better performance under normal and/or abnormal condition. The simplified reference model can make H/W implementation more practical on the viewpoint of less computation and good performance. Actually, the CEDM controller shall be capable of controlling 101 control element assemblies (CEAs) individually in the nuclear power plant. Because the load conditions and the environmental condition around the 101 CEAs are all different minutely, the proposed modified MRAC can be a good practice. The modified MRAC controller will be applied in the real nuclear power plant later and this will overcome some weak point of PI controller

  13. Post-buckled precompressed (PBP) elements : A new class of flight control actuators enhancing high-speed autonomous VTOL MAVs

    NARCIS (Netherlands)

    Barrett, R.; McMurtry, R.; Vos, R.; Tiso, P.; De Breuker, R.

    2005-01-01

    This paper describes a new class of flight control actuators using Post-Buckled Precompressed (PBP) piezoelectric elements. These actuators are designed to produce significantly higher deflection and force levels than conventional piezoelectric actuator elements. Classical laminate plate theory

  14. PGAA method for control of the technologically important elements at processing of sulfide ores

    International Nuclear Information System (INIS)

    Kurbanov, B.I.; Aripov, G.A.; Allamuratova, G.; Umaraliev, M.

    2006-01-01

    Full text: Many precious elements (Au, Re, Pt, Pd, Ag, Cu, Ni, Co, Mo) in ores mainly exist in the form of sulfide minerals and the flotation method is often used for processing of such kind of ores. To enhance the efficiency of the process it is very important to carry out the operative control of the elements of interest at various stages of ore processing. In this work the results of studies for developing methods for control of technologically important elements at processing and enrichment sulfide ores, which content the gold, copper, nickel, molybdenum in the ore-processing plants of Uzbekistan. The design of transportable experimental PGAA device on the basis of low-power radionuclide neutron source ( 252 Cf) with neutrons of 2x10 7 neutr/sec allowing to determine element content of the above named ores and their processing products is offered. It is shown that the use of the thermal neutron capture gamma-ray spectrometry in real samples and technological products allows prompt determination of such elements as S, Cu, Ti and others, which are important for flotation of sulfide ores. Efficiency control of the flotation processing of sulfide ores is based on quick determination of the content of sulfur and some other important elements at different stages of the process. It was found that to determine elements the following gamma lines are the most suitable - 840.3 keV for sulfur, 609 keV and 7307 keV for copper and 1381.5 keV, 1498.3 keV and 1585.3 keV for titanium. Based on the measurements of original ores, concentrates of various stages of flotation and flotation slime the possibility for prompt determination of S, Cu and Ti content and thus to get necessary information on the efficiency of the flotation process was shown. (author)

  15. Thermoelectric properties control due to doping level and sintering conditions for FGM thermoelectric element

    CERN Document Server

    Kajikawa, T; Shiraishi, K; Ohmori, M; Hirai, T

    1999-01-01

    Thermoelectric performance is determined with three factors, namely, Seebeck coefficient, electrical resistivity and thermal conductivity. For metal and single crystalline semiconductor, those factors have close interrelation each $9 other. However, as the sintered thermoelectric element has various levels of superstructure from macro scale and micro scale in terms of the thermoelectric mechanism, the relationship among them is more complex than that for the $9 melt- grown element, so it is suggested that the control of the temperature dependence of thermoelectric properties is possible to enhance the thermoelectric performance for wide temperature range due to FGM approach. The research $9 objective is to investigate the characteristics of the thermoelectric properties for various doping levels and hot-pressed conditions to make the thermoelectric elements for which the temperature dependence of the performance is $9 controlled due to FGM approach varying the doping levels and sintering conditions. By usage ...

  16. Analysis of technology and quality control the fuel elements production process

    International Nuclear Information System (INIS)

    Katanic, J.; Spasic, Z.; Momcilovic, I.

    1976-01-01

    Recently great attention has been paid at the international level to the analysis of production processes and quality control of fuel elements with the aim to speed up activity of proposing and accepting standards and measurement methods. IAEA also devoted great interest to these problems appealing to more active participation of all users and procedures of fuel elements in a general effort to secure successful work with nuclear plants. For adequate and timely participation in future of the establishment and analysis of general requirements and documentation for the control of purchased or self produced fuel elements in our country, it is necessary to be well informed and to follow this activity at the international level

  17. ELEMENT DESIGN FOR AN INKJET SYSTEM OF HYDROSTATIC GAS BEARING CONTROL

    Directory of Open Access Journals (Sweden)

    T. E. Il'ina

    2015-09-01

    Full Text Available Subject of Study. The paper discusses the concept of inkjet systems application, also known as pneumonics, for automatic hydrostatic gas bearing control. Inkjet systems have the advantages over traditional control systems in those problems where the speed of traditional mechanical, electrical or hydraulic servomotors is not enough. Control of the shaft position in gas bearing with forced gas supply into the gap between the shaft and the bearing is typical for this class of problems. In this case, control means the pressure changing or flow rate of gas supplied to the gap by at least one of three axes at a frequency higher than the nominal speed of the shaft. Thus, high speed of response is required from the system. The objective of this work is to design a discrete jet element, testing of its geometry and switching characteristics. Main Results. The discrete inkjet element for oil-free non-contact transmission working on the refrigerant was designed. Relay transition process was modeled in the inkjet element with the use of numerical methods. The switching time has reached 0.2-0.3 ms; this is one order less than the requirements of aircraft control systems, which typically operate at a frequency of about 200 Hz. It is shown that periodic oscillations with high frequency occur when the control signal is injected with insufficient level of pressure. Therefore, a separate design task is to determine the minimum pressure allowable in the control channel.

  18. Controlled Dissolution of Surface Layers for Elemental Analysis by Inductively Coupled Plasma-Mass Spectrometry

    Energy Technology Data Exchange (ETDEWEB)

    Lorge, Susan Elizabeth [Iowa State Univ., Ames, IA (United States)

    2007-01-01

    Determining the composition of thin layers is increasingly important for a variety of industrial materials such as adhesives, coatings and microelectronics. Secondary ion mass spectrometry (SIMS), Auger electron spectroscopy (AES), X-ray photoelectron spectroscopy (XPS), glow discharge optical emission spectroscopy (GDOES), glow discharge mass spectrometry (GDMS), and laser ablation-inductively coupled plasma-mass spectrometry (LA-ICP-MS) are some of the techniques that are currently employed for the direct analysis of the sample surface. Although these techniques do not suffer from the contamination problems that often plague sample dissolution studies, they do require matrix matched standards for quantification. Often, these standards are not readily available. Despite the costs of clean hoods, Teflon pipette tips and bottles, and pure acids, partial sample dissolution is the primary method used in the semiconductor industry to quantify surface impurities. Specifically, vapor phase decomposition (VPD) coupled to ICP-MS or total reflection x-ray fluorescence (TXRF) provides elemental information from the top most surface layers at detection sensitivities in the 107-1010atoms/cm2 range. The ability to quantify with standard solutions is a main advantage of these techniques. Li and Houk applied a VPD-like technique to steel. The signal ratio of trace element to matrix element was used for quantification. Although controlled dissolution concentrations determined for some of the dissolved elements agreed with the certified values, concentrations determined for refractory elements (Ti, Nb and Ta) were too low. LA-ICP-MS and scanning electron microscopy (SEM) measurements indicated that carbide grains distributed throughout the matrix were high in these refractory elements. These elements dissolved at a slower rate than the matrix element, Fe. If the analyte element is not removed at a rate similar to the matrix element a true

  19. Finite element analysis of actively controlled smart plate with patched actuators and sensors

    Directory of Open Access Journals (Sweden)

    M. Yaqoob Yasin

    Full Text Available The active vibration control of smart plate equipped with patched piezoelectric sensors and actuators is presented in this study. An equivalent single layer third order shear deformation theory is employed to model the kinematics of the plate and to obtain the shear strains. The governing equations of motion are derived using extended Hamilton's principle. Linear variation of electric potential across the piezoelectric layers in thickness direction is considered. The electrical variable is discretized by Lagrange interpolation function considering two-noded line element. Undamped natural frequencies and the corresponding mode shapes are obtained by solving the eigen value problem with and without electromechanical coupling. The finite element model in nodal variables are transformed into modal model and then recast into state space. The dynamic model is reduced for further analysis using Hankel norm for designing the controller. The optimal control technique is used to control the vibration of the plate.

  20. Method and apparatus for a nuclear reactor for increasing reliability to scram control elements

    International Nuclear Information System (INIS)

    Bevilacqua, F.

    1976-01-01

    A description is given of a method and apparatus for increasing the reliability of linear drive devices of a nuclear reactor to scram the control elements held in a raised position thereby. Each of the plurality of linear drive devices includes a first type of holding means associated with the drive means of the linear drive device and a second type of holding means distinct and operatively dissimilar from the first type. The system of linear drive devices having both types of holding means are operated in such a manner that the control elements of a portion of the linear drive devices are only held in a raised position by the first holding means and the control elements of the remaining portion of linear drive devices are held in a raised position by only the second type of holding means. Since the two types of holding means are distinct from one another and are operatively dissimilar, the probability of failure of both systems to scram as a result of common mode failure will be minimized. Means may be provided to positively detect disengagement of the first type of holding means and engagement of the second type of holding means for those linear drive devices being operative to hold the control elements in a raised position with the second type of holding means

  1. Evaluation of friction forces between control bars and guide tubes of CAREM fuel element

    International Nuclear Information System (INIS)

    Ghiselli, Alberto M.; Fiori, Jose M.; Yedros, Pablo A.

    2003-01-01

    The design of the MSAC (Mecanismo del Sistema de ajuste y control, Mechanism of the Adjustment and control system, MACS) for CAREM reactor shall consider all loads that the reactor shall support during its operation. Several charges are originated by friction forces produced on contact points of the control Bars/Guide tubes assembly against other components. A test facility was designed and manufactured for the determination of friction components and the damping characteristics of the assembly formed by guide tubes fuel element, the control bars and the guide of the bar of the MACS. In this work a description of the test performed and the results obtained is presented. (author)

  2. Environmental controls on the elemental composition of a Southern Hemisphere strain of the coccolithophore Emiliania huxleyi

    Science.gov (United States)

    Feng, Yuanyuan; Roleda, Michael Y.; Armstrong, Evelyn; Law, Cliff S.; Boyd, Philip W.; Hurd, Catriona L.

    2018-01-01

    A series of semi-continuous incubation experiments were conducted with the coccolithophore Emiliania huxleyi strain NIWA1108 (Southern Ocean isolate) to examine the effects of five environmental drivers (nitrate and phosphate concentrations, irradiance, temperature, and partial pressure of CO2 (pCO2)) on both the physiological rates and elemental composition of the coccolithophore. Here, we report the alteration of the elemental composition of E. huxleyi in response to the changes in these environmental drivers. A series of dose-response curves for the cellular elemental composition of E. huxleyi were fitted for each of the five drivers across an environmentally representative gradient. The importance of each driver in regulating the elemental composition of E. huxleyi was ranked using a semi-quantitative approach. The percentage variations in elemental composition arising from the change in each driver between present-day and model-projected conditions for the year 2100 were calculated. Temperature was the most important driver controlling both cellular particulate organic and inorganic carbon content, whereas nutrient concentrations were the most important regulator of cellular particulate nitrogen and phosphorus of E. huxleyi. In contrast, elevated pCO2 had the greatest influence on cellular particulate inorganic carbon to organic carbon ratio, resulting in a decrease in the ratio. Our results indicate that the different environmental drivers play specific roles in regulating the elemental composition of E. huxleyi with wide-reaching implications for coccolithophore-related marine biogeochemical cycles, as a consequence of the regulation of E. huxleyi physiological processes.

  3. The Multi-Element Electronstatic Lens Systems for Controlling and Focusing Charged Particle

    International Nuclear Information System (INIS)

    Sise, O.

    2004-01-01

    Particle optics are very close anolog of photon optics and most of the principles of an barged particle beam can be understood by thinking of the particles as rays of light. There are similar behaviours between particle and photon optics in controlling beams of light and charged particles, such as lenses and mirrors. Extensive information about the properties of charged particle optics, from which appropriate systems can be designed for any specific problem. In this way electrostatic lens systems are used to control beams of c/iarged particle with various energy and directions in several fields, for example electron microscopy, cathode ray tubes, ion accelerators and electron impact studies. In an electrostatic lens system quantative information is required over a wide energy range and a zoom-type of optics is needed. If the magnification is to remain constant over a wide range of energies, quite complicated electrostatic lens systems are required, .containing three, four, five, or even more lens elements. We firstly calculated the optical properties of three and four element cylinder electrostatic lenses with the help of the SIMION and LENSYS programs and developed the method for the calculation of the focal properties of five and more element lenses with afocal mode. In this method we used the combination of three and four element lenses to derive focal properties of multi-element lenses and presented this data over a wide range of energy

  4. Use of reference materials for quality control of elemental analysis by neutron activation with radiochemical separation

    International Nuclear Information System (INIS)

    Woittiez, J.R.W.

    1990-01-01

    This paper describes the use of certified reference materials to monitor the long-term quality of radiochemical separations. The practical limitations which determine the actual design of the quality control are discussed. The hypothesis that the high yield of the radiochemical separation will be constant with time has been checked and validated for the elements Zn, Fe, Co, Cd, Mo and to a lesser extent for W and Th using NBS SRM 1577A, BCR CRM 274 and IAEA RM A-11. This validation could not be made for the elements Cr, Au, and Ag. Especially for Cr there is a serious lack of appropiate certified reference materials. (orig.)

  5. Optically Controlled Reconfigurable Antenna Array Based on E-Shaped Elements

    Directory of Open Access Journals (Sweden)

    Arismar Cerqueira Sodré Junior

    2014-01-01

    Full Text Available This work presents the development of optically controlled reconfigurable antenna arrays. They are based on two patch elements with E-shaped slots, a printed probe, and a photoconductive switch made from an intrinsic silicon die. Numerical simulations and experiments have been shown to be in agreement, and both demonstrate that the frequency response of the antenna arrays can be efficiently reconfigured over two different frequency ISM bands, namely, 2.4 and 5 GHz. A measured gain of 12.5 dBi has been obtained through the use of two radiating elements printed in a low-cost substrate and a dihedral corner reflector.

  6. Device for moving fuel elements and control bars from one place to another in reactor core

    International Nuclear Information System (INIS)

    Hoffmeister, B.

    1976-01-01

    A description is given of a device, including a gripper, for manipulation of fuel elements and control bars, or rods, in a reactor core in which a vertical mast is provided in which the gripper is nonrotatably reciprocable. The mast is rotatable on a work platform and latch elements are provided to halt the mast in selected rotated positions on the platform. Abutment means are also provided to limit the rotary movement of the mast on the platform to 360 0 . 11 Claims, 6 drawing figures

  7. Phylogeny based discovery of regulatory elements

    Directory of Open Access Journals (Sweden)

    Cohen Barak A

    2006-05-01

    Full Text Available Abstract Background Algorithms that locate evolutionarily conserved sequences have become powerful tools for finding functional DNA elements, including transcription factor binding sites; however, most methods do not take advantage of an explicit model for the constrained evolution of functional DNA sequences. Results We developed a probabilistic framework that combines an HKY85 model, which assigns probabilities to different base substitutions between species, and weight matrix models of transcription factor binding sites, which describe the probabilities of observing particular nucleotides at specific positions in the binding site. The method incorporates the phylogenies of the species under consideration and takes into account the position specific variation of transcription factor binding sites. Using our framework we assessed the suitability of alignments of genomic sequences from commonly used species as substrates for comparative genomic approaches to regulatory motif finding. We then applied this technique to Saccharomyces cerevisiae and related species by examining all possible six base pair DNA sequences (hexamers and identifying sequences that are conserved in a significant number of promoters. By combining similar conserved hexamers we reconstructed known cis-regulatory motifs and made predictions of previously unidentified motifs. We tested one prediction experimentally, finding it to be a regulatory element involved in the transcriptional response to glucose. Conclusion The experimental validation of a regulatory element prediction missed by other large-scale motif finding studies demonstrates that our approach is a useful addition to the current suite of tools for finding regulatory motifs.

  8. Digital remote control system for power supplies of particle channel magnetooptical elements

    International Nuclear Information System (INIS)

    Vetrov, P.B.; Ermolina, G.P.; Kuznetsov, V.S.; Mojbenko, A.N.

    1986-01-01

    Current control of magnetooptical elements of accelerator particle channels is based on control of reference voltage of current stabilizers. Advent of industrial multidigit (12 bits) integral analog-to-digital converters permitted to develop simple digital sources of reference voltage. A digital control system of 30 spatially remoted power supplies of magnetooptical elements of particle channels on the basis of the ''Elektronika-60'' microcomputer is described. The microcomputer is connected by the standard communication line (20 mA) with the SM-4 computer. The ''Summa'' crate is connected with the microcomputer through the branch driver. Digit data are transmitted by the multibranch trunk of sequential communication (Manchester-2 code) at the rate of 0.5 Mband. Feedback was realized by connection of analog signals through the distributed commutator to the measuring line with a digital voltmeter

  9. Electromagnetic and thermal analysis of electromagnet for SMART control element drive mechanism

    International Nuclear Information System (INIS)

    Huh, H.; Kim, J. H.; Park, J. S.; Kim, Y. W.; Kim, J. I.

    1999-01-01

    A numerical electromagnetic and thermal analysis was performed for the electromagnet which is installed in the control element drive mechanism(CEDM) of the integral reactor SMART. A model for the electromagnetic analysis of the electromagnet was developed and theoretical bases for the model were established. Design parameters related to thrust force were identified, and the optimum design point was determined by analyzing the trend of the magnetic saturation with finite element method. Also It is important that the temperature of the electomagnet windings be maintained within the allowable limit of the insulation, since the electromagnet of CEDM is always supplied with current during the reactor operation. So the thermal analysis of the winding insulation which is composed of polyimide and air were performed by finite element method. The electromagnetic and thermal properties obtained here will be used as input for the optimization analysis of the electromagnet

  10. Control of criticality risk in the manufacture of fuel elements for research reactors

    International Nuclear Information System (INIS)

    Friedenthal, M.; Cardenas Yucra, H.R.; Marajofsky, A.; La Gamma de Batistoni, A.M.

    1987-01-01

    The control of criticality risk in a chemical plant adopts different forms according to the quantities of fissile material and the type of compounds used. This work presents the treatment of the critical excursion risk adopted in production plants of U 3 O 8 and manufacturing plants of fuel elements for research reactors, located in Constituyentes Atomic Center. The possible events and accidents related to the fissile material control are analyzed, and the systems of administrative control and intrinsic safety through engineering are described. (Author)

  11. Production and quality control of optical elements for the end cap hadron calorimeter of the CMS setup

    CERN Document Server

    Abramov, V V; Korablev, A V; Korneev, Yu P; Krinitsyn, A N; Kryshkin, V I; Markov, A A; Talov, VV; Turchanovich, L K; Volkov, A A; Zaichenko, A A

    2005-01-01

    An end cap hadron calorimeter, in which scintillators with wavelength-shifting fibers are used as the active elements, has been designed for the compact muon spectrometer (CMS) now under construction at CERN. A total of 1368 optical elements containing 21 096 scintillators have already been manufactured. The production and quality control procedures for these optical elements are described. copy 2005 Pleiades Publishing, Inc.

  12. Manipulator for fuel elements and control rods in a nuclear reactor

    International Nuclear Information System (INIS)

    Voss, S.H.K.; Kipp, T.

    1974-01-01

    The manipulator serves for the transport and shuffling of fuel elements or control rods. It has a two-piece grab telescope which can be vertically rotated and on which an interior telescopic tube can be moved within a telescopic jacket if the grab head is raised or lowered. For unlimited rotation of the grab telescope a lifting traverse with supporting rocker and control rocker is used, on which the grab head is mounted by means of a hook suspension. On the grab head, two double pawls are arranged which are operated together and which open and close each other. The pawl device is operated by the control rocker. If the grab head is lowered, the double pawls, swinging outwards, with the aid of carrier bolts lock the rotating pawls of a guide matrix with the interior telescopic tube. The guide matrix has slots and bore holes for guiding the elements as well as centering bars for the heads of the fuel elements or control rods to be gripped. In the lowest position, it rests on the centering collar of the telescopic tube. (DG) [de

  13. Manipulator for fuel elements and control rods in a nuclear reactor

    International Nuclear Information System (INIS)

    Voss, S.H.K.; Kipp, T.

    1977-01-01

    The manipulator serves for the transport and shuffling of fuel elements or control rods. It has a two-piece grab telescope which can be vertically rotated and on which an interior telescopic tube can be moved within a telescopic jacket if the grab head is raised or lowered. For unlimited rotation of the grab telescope a lifting traverse with supporting rocker and control rocker is used, on which the grab head is mounted by means of a hook suspension. On the grab head, two double pawls are arranged which are operated together and which open and close each other. The pawl device is operated by the control rocker. If the grab head is lowered, the double pawls, swinging outward with the aid of carrier bolts lock the rotating pawls of a guide matrix with the interior telescopic tube. The guide matrix has slots and bore holes for guiding the elements as well as centering bars for the heads of the fuel elements or control rods to be gripped. In the lowest position, it rests on the centering collar of the telescopic tube. (DG) [de

  14. A biomedical application of PIXE. Studies of track elements in human hair, in control and hyperactive children

    International Nuclear Information System (INIS)

    Shakir, N.S.

    1987-07-01

    Hair samples from hyperactive and control children have been analyzed for their trace elemental contents by PIXE. The main elements examined are S, K, Ca, Fe, Co, Ni, Cu, Zn, Se, Br, Hg and Pb. The significant difference between the elements in control population and in patients suffering from pathological conditions are examined. Investigations of the possible linear and multiple correlations between elements in each population are made. The work indicates that some elements do exhibit variation with pathological state. (author). 5 refs, 5 figs, 6 tabs

  15. Deposition of elemental sulfur in city gate Pressure Control Valves (PCVs)

    Energy Technology Data Exchange (ETDEWEB)

    Quinto, Thiago C. do; Veiga, Leandro S. da; Silva, Marcos J.M. da; Lemos, Marcelo C. de; Goncalves, Luciane T. [PETROBRAS Transporte S.A. (TRANSPETRO), Rio de Janeiro, RJ (Brazil)

    2009-12-19

    Deposition of elemental sulfur has been observed in city gate pressure control valves (PCV s), a phenomenon that causes operational problems in these facilities. This article discusses the problems caused by this deposition, especially in pilots of pressure control valves. While passing through PCV s, the flow of natural gas is subjected to a sharp drop in temperature due to the reduction of pressure (Joule-Thompson). When this happens, the elemental sulfur that is in balance with the flow of natural gas is deposited inside the PCV s and the obstacles ahead. Since PCV s are self-operated and use natural gas as the working fluid, the elemental sulfur is also deposited in the pilots as well. Elemental sulfur in powder form has very small particles - around 20 {mu}m - that prevent the perfect operation of the small moving parts of pilots. Because of this, the affected pilot cannot operate the PCV satisfactorily to regulate the pressure of the natural gas supplied to the customer. There are two possible consequences of this situation: when the customer increases consumption, the pressure will decline to less than below the limit established under the supply contract, which can lead to fines; and the pressure can rise above the limit tolerated by pipes, which can lead to dangerous ruptures. (author)

  16. Tests of a sodium bonded type control element of 'Monju' with the actual conditions. Pt. 1

    International Nuclear Information System (INIS)

    Katoh, Jungo; Tanaka, Masako; Ikarimoto, Iwao

    2004-03-01

    This report provides a summary of the following three experimental and analytical results conducted on the sodium bonded double porous-plug type control element: the pretest of retention of the absorber in the double C-type shroud tube (the ASMI test); the stress analysis of the double C-type shroud tube; and the long-term submersion test of the sodium bonded type control element. The objective of the ASMI test and the stress analysis is to define the shroud tube's bottom structure. First, simulating the absorber shroud mechanical interaction (ASMI), we checked the function of absorber holding of the double C-type shroud tube. Second, we conducted the stress analysis, changing the distance between the end plug of the tube and the bottom end of the absorber, to determine proper position of the absorber. In addition, we conducted the long-term submersion test of the control element on which sodium residues had been left, and confirmed that no trouble occurred even though the element was submerged for a long time. The results of the above tests and analysis are as follows: (1) On the conditions that the end plug of the shroud tube was fitted from outside of the double C-type shroud tube was double-layered, we checked through the ASMI test that no absorber leaked and the holding property was secured even though the absorber be powdery. (2) The stress analysis showed that the structural integrity was satisfied when the distance between the end plug of the tube and the bottom end of the absorber was 40 mm or longer, and that the stress in the shroud tube was within the elastic range when the distance was 50 mm or longer. From these results, we could assure the structure integrity of 50 mm distance case. (3) The result of the long-term submersion test showed that no trouble occurred when the sodium bonded type control rod assembly (control element) is stored under water with sodium residues after cleaning in the sodium cleansing facility, the temperature increase and the

  17. Computerised weld strength testing machine for PHWR fuel elements with a versatile control system

    International Nuclear Information System (INIS)

    Gupta, U.C.; Sastry, V.S.; Rasheed, Jawad; Bibawe, S.R.

    1994-01-01

    Spacer pads and bearing pads are resistance spot welded on PHWR fuel elements to ensure inter-element gap for coolant flow. These welds are subjected to destructive tests as per SQC specifications while qualifying a machine and during production. The testing machine used earlier over the years was tedious involving manual operations of clamping, tool actuation, increasing and decreasing the pressure, referring to charts and statistical calculations. To carry out the destructive testing of the welds conveniently and reliably, an automatic machine is developed in-house in which are incorporated a quartz force transducer and a computerized data-acquisition and processing system together with a very versatile electronic control system based on a single-chip microcomputer. This paper describes the salient features of the machine and the control system. (author). 4 figs

  18. Special equipment for the fabrication and quality control of nuclear fuel elements

    International Nuclear Information System (INIS)

    Guse, K.; Herbert, W.; Jaeger, K.

    1989-01-01

    For the fabrication of LWR fuel elements, columns are packed of up to 4 m in length, consisting of fuel pellets with different uranium enrichment, their weight and total length to be measured prior to further processing to fuel rods. An automated column packing device has been developed for this purpose. The packing jobs and other tasks are computer-controlled, measured data are stored and are printed out for quality documentation. The forces in the springs of fuel spacers of LWR fuel elements are to be measured and compared with the standard requirements, deviations to be documented. For this task, another computer-controlled, automated device has been developed for measuring the spring forces at all required positions after positioning and fixation of the spacers. (orig./DG) [de

  19. Thermal Effects on Vibration and Control of Piezocomposite Kirchhoff Plate Modeled by Finite Elements Method

    OpenAIRE

    Sanbi, M.; Saadani, R.; Sbai, K.; Rahmoune, M.

    2015-01-01

    Theoretical and numerical results of the modeling of a smart plate are presented for optimal active vibration control. The smart plate consists of a rectangular aluminum piezocomposite plate modeled in cantilever configuration with surface bonded thermopiezoelectric patches. The patches are symmetrically bonded on top and bottom surfaces. A generic thermopiezoelastic theory for piezocomposite plate is derived, using linear thermopiezoelastic theory and Kirchhoff assumptions. Finite element eq...

  20. Environmental controls on the elemental composition of a Southern Hemisphere strain of the coccolithophore Emiliania huxleyi

    Directory of Open Access Journals (Sweden)

    Y. Feng

    2018-01-01

    Full Text Available A series of semi-continuous incubation experiments were conducted with the coccolithophore Emiliania huxleyi strain NIWA1108 (Southern Ocean isolate to examine the effects of five environmental drivers (nitrate and phosphate concentrations, irradiance, temperature, and partial pressure of CO2 (pCO2 on both the physiological rates and elemental composition of the coccolithophore. Here, we report the alteration of the elemental composition of E. huxleyi in response to the changes in these environmental drivers. A series of dose–response curves for the cellular elemental composition of E. huxleyi were fitted for each of the five drivers across an environmentally representative gradient. The importance of each driver in regulating the elemental composition of E. huxleyi was ranked using a semi-quantitative approach. The percentage variations in elemental composition arising from the change in each driver between present-day and model-projected conditions for the year 2100 were calculated. Temperature was the most important driver controlling both cellular particulate organic and inorganic carbon content, whereas nutrient concentrations were the most important regulator of cellular particulate nitrogen and phosphorus of E. huxleyi. In contrast, elevated pCO2 had the greatest influence on cellular particulate inorganic carbon to organic carbon ratio, resulting in a decrease in the ratio. Our results indicate that the different environmental drivers play specific roles in regulating the elemental composition of E. huxleyi with wide-reaching implications for coccolithophore-related marine biogeochemical cycles, as a consequence of the regulation of E. huxleyi physiological processes.

  1. Simulation and control element design for a coupled aerodynamic/magnetic system

    Energy Technology Data Exchange (ETDEWEB)

    Schneider, E

    1982-11-01

    Aerodynamic effects are among the many problems raised by the Maglev technique and its industrial application, but until recently they were only regarded as disturbances. Theoretical studies as well as model experiments in wind and water tunnels were only interested in optimizing the shape of the vehicle cell. The most important goals of development were low sensitivity to side-wind and a neutral aerodynamic design of the vehicle nose. The present paper investigates the aerodynamic effects by means of extended models. Aerodynamic effects on the elevation control system are considered by a suitable control element structure.

  2. Analysis and Implementation of an Open Programmable Router Based on Forwarding and Control Element Separation

    Institute of Scientific and Technical Information of China (English)

    Wei-Ming Wang; Li-Gang Dong; Bin Zhuge

    2008-01-01

    A router architecture based upon ForCES (Forwarding and Control Element Separation), which is being standardized by IETF ForCES working group, gains its competitive advantage over traditional router architectures in flexibility, programmability, and cost-effectiveness. In this paper, design and implementation of a ForCES-based router (ForTER) is illustrated. Firstly, the implementation architecture of ForTER is discussed. Then, a layered software model,which well illustrates ForCES features, is proposed. Based on the model, design and implementation of Control Element (CE) and Forwarding Element (FE) in ForTER are introduced in detail. Moreover, security for ForTER is considered and an algorithm to prevent DoS attacks is presented. Lastly, experiments of ForTER are illustrated for routing and running routing protocols, network management, DoS attack prevention, etc. The experimental results show the feasibility of the ForTER design. Consequently, the ForTER implementation basically testifies the feasibility of ForCES architecture and some IETF ForCES specifications.

  3. The control of artificial radio-elements of medical use in France; Le controle des radioelements artificiels a usage medical en France

    Energy Technology Data Exchange (ETDEWEB)

    Cohen, Y. [Commissariat a l' energie atomique et aux energies alternatives - CEA, Centre d' etudes nucleaires de Saclay, Service des Radio-elements artificiels (France)

    1960-07-01

    Artificial radio-elements are sometimes used in hospitals or laboratories possessing specific equipment and certified staff. These radio-elements are produced within the Saclay Nuclear Centre, and, if they are aimed to a medical use, are submitted to a pharmaceutical control which the issue is addressed in this report. After a recall of the preparation of these radio-elements, the author describes physical controls (determination of radioactivity, measurement of colloidal particle size, impurity content), and biological controls performed on these radio-elements. Reprint of a paper published in Annales pharmaceutiques francaises, tom. XVII, p. 250-260, 1959.

  4. Sodium lauryl sulfate - a biocide for controlling acidity development in bulk commercially formed solid elemental sulfur

    Energy Technology Data Exchange (ETDEWEB)

    Hyne, J. B. [Calgary Univ., AB (Canada). Dept. of Biological Sciences

    1996-04-01

    Acidification of bulk elemental sulfur caused by Thiobacillus species which consume elemental sulfur by converting it into oxidized sulfur forms, was studied. Contributory factors, such as length of time in transit or in storage, warm temperatures, the presence of air and moisture, particle size and form of sulfur, and the presence of sources of carbon, nitrogen and phosphorus nutrients, were reviewed. Laboratory experiments with adding sodium lauryl sulfate (SLS), a known biocide, to sulfur inoculated with Thiobacillus, proved to be an efficient method for controlling acidity development. At the concentration required for effectiveness SLS did not interfere with purity specifications, had negligible effect on moisture, and appeared to be compatible with current dust suppression application practices. 2 tabs., 3 figs.

  5. Finite element analysis-based design of a fluid-flow control nano-valve

    International Nuclear Information System (INIS)

    Grujicic, M.; Cao, G.; Pandurangan, B.; Roy, W.N.

    2005-01-01

    A finite element method-based procedure is developed for the design of molecularly functionalized nano-size devices. The procedure is aimed at the single-walled carbon nano-tubes (SWCNTs) used in the construction of such nano-devices and utilizes spatially varying nodal forces to represent electrostatic interactions between the charged groups of the functionalizing molecules. The procedure is next applied to the design of a fluid-flow control nano-valve. The results obtained suggest that the finite element-based procedure yields the results, which are very similar to their molecular modeling counterparts for small-size nano-valves, for which both types of analyses are feasible. The procedure is finally applied to optimize the design of a larger-size nano-valve, for which the molecular modeling approach is not practical

  6. Experimental verification of active IR stealth technology by controlling the surface temperature using a thermoelectric element

    Energy Technology Data Exchange (ETDEWEB)

    Kim, Dong Geon; Han, Kuk Il; Choi, Jun Hyuk; Kim, Tae Kuk [Dept. of Mechanical Engineering, Chung Ang University, Seoul (Korea, Republic of)

    2016-10-15

    In this paper, we propose a technique for IR low-observability that uses an active IR signal tuning through the real time control of the object surface temperature according to the varying background environment. This is achieved by applying the proper object surface temperature obtained to result in the minimum radiance difference between the object and the background. Experimental verification by using the thermoelectric temperature control element shows that the IR radiance contrast between the object and the background can be reduced up to 99% during the night and up to 95% during the day time as compared to the un-tuned original radiance contrast values. The stealth technology demonstrated in this paper may be applied for many military systems needed for the IR stealth performance when a suitable temperature control unit is developed.

  7. Experimental verification of active IR stealth technology by controlling the surface temperature using a thermoelectric element

    International Nuclear Information System (INIS)

    Kim, Dong Geon; Han, Kuk Il; Choi, Jun Hyuk; Kim, Tae Kuk

    2016-01-01

    In this paper, we propose a technique for IR low-observability that uses an active IR signal tuning through the real time control of the object surface temperature according to the varying background environment. This is achieved by applying the proper object surface temperature obtained to result in the minimum radiance difference between the object and the background. Experimental verification by using the thermoelectric temperature control element shows that the IR radiance contrast between the object and the background can be reduced up to 99% during the night and up to 95% during the day time as compared to the un-tuned original radiance contrast values. The stealth technology demonstrated in this paper may be applied for many military systems needed for the IR stealth performance when a suitable temperature control unit is developed

  8. Solving ill-posed control problems by stabilized finite element methods: an alternative to Tikhonov regularization

    Science.gov (United States)

    Burman, Erik; Hansbo, Peter; Larson, Mats G.

    2018-03-01

    Tikhonov regularization is one of the most commonly used methods for the regularization of ill-posed problems. In the setting of finite element solutions of elliptic partial differential control problems, Tikhonov regularization amounts to adding suitably weighted least squares terms of the control variable, or derivatives thereof, to the Lagrangian determining the optimality system. In this note we show that the stabilization methods for discretely ill-posed problems developed in the setting of convection-dominated convection-diffusion problems, can be highly suitable for stabilizing optimal control problems, and that Tikhonov regularization will lead to less accurate discrete solutions. We consider some inverse problems for Poisson’s equation as an illustration and derive new error estimates both for the reconstruction of the solution from the measured data and reconstruction of the source term from the measured data. These estimates include both the effect of the discretization error and error in the measurements.

  9. Structural elements in achieving legislative tobacco control in NSW, 1955-95: political reflections and implications.

    Science.gov (United States)

    Hooker, Claire; Chapman, Simon

    2006-02-01

    To analyse structural factors revealed by politicians that shaped legislation on tobacco control in New South Wales, 1955-95. Parliamentary debates and other records were collected. Open-ended interviews were conducted with 17 Members of Parliament (MPs) who were significantly involved, and then analysed for structural elements. Tobacco industry lobbying had a significant but limited influence on policy making, being exerted largely through social interactions with executives and based on concerns about the economic impact on third parties. MPs saw health advocates' chief functions as (1) generating community concern about the issue and support for control measures, and (2) bringing any new information to political attention, providing pro-control arguments and data through the media. Factors that delayed tobacco control policies included: the conservative stance of Premiers and major parties, commitments to unanimous federal action, and rivalry between parties. Factors that facilitated control policies included: reforms that gave the Legislative Council increased power, the use of parliamentary committees, and backbencher and grass roots support. Tobacco control policy and legislation has been the product of political structures that gave power to those MPs in the least powerful positions--minor parties, Members of the Legislative Council (MLCs), backbenchers, women and party rank and file--rather than to major parties and their executives. Advocates should make the most of their access points to the political process, providing information, arguments and support and demonstrating public opinion in favour of further control.

  10. Evaluations of Silica Aerogel-Based Flexible Blanket as Passive Thermal Control Element for Spacecraft Applications

    Science.gov (United States)

    Hasan, Mohammed Adnan; Rashmi, S.; Esther, A. Carmel Mary; Bhavanisankar, Prudhivi Yashwantkumar; Sherikar, Baburao N.; Sridhara, N.; Dey, Arjun

    2018-03-01

    The feasibility of utilizing commercially available silica aerogel-based flexible composite blankets as passive thermal control element in applications such as extraterrestrial environments is investigated. Differential scanning calorimetry showed that aerogel blanket was thermally stable over - 150 to 126 °C. The outgassing behavior, e.g., total mass loss, collected volatile condensable materials, water vapor regained and recovered mass loss, was within acceptable range recommended for the space applications. ASTM tension and tear tests confirmed the material's mechanical integrity. The thermo-optical properties remained nearly unaltered in simulated space environmental tests such as relative humidity, thermal cycling and thermo-vacuum tests and confirmed the space worthiness of the aerogel. Aluminized Kapton stitched or anchored to the blanket could be used to control the optical transparency of the aerogel. These outcomes highlight the potential of commercial aerogel composite blankets as passive thermal control element in spacecraft. Structural and chemical characterization of the material was also done using scanning electron microscopy, Fourier transform infrared spectroscopy and x-ray photoelectron spectroscopy.

  11. Core elements of hospital antibiotic stewardship programs from the Centers for Disease Control and Prevention.

    Science.gov (United States)

    Pollack, Loria A; Srinivasan, Arjun

    2014-10-15

    The proven benefits of antibiotic stewardship programs (ASPs) for optimizing antibiotic use and minimizing adverse events, such as Clostridium difficile and antibiotic resistance, have prompted the Centers for Disease Control and Prevention (CDC) to recommend that all hospitals have an ASP. This article summarizes Core Elements of Hospital Antibiotic Stewardship Programs, a recently released CDC document focused on defining the infrastructure and practices of coordinated multidisciplinary programs to improve antibiotic use and patient care in US hospitals. Published by Oxford University Press on behalf of the Infectious Diseases Society of America 2014. This work is written by (a) US Government employee(s) and is in the public domain in the US.

  12. Conceptual Design of Angular Position Detector for Control Element Drive Mechanism of Small and Medium Reactor

    International Nuclear Information System (INIS)

    Yu, Je-Yong; Huh, Hyung; Kim, Ji-Ho; Choi, Suhn

    2007-01-01

    When the small and medium reactor is designed with a soluble boron free operation and nuclear heating for the reactor start-up, the design features require a Control Element Drive Mechanism (CEDM) to have a fine-step movement capability as well as a high reliability for a fine reactivity control. Also the reliability and accuracy of the information for the control rod position is important to the reactor safety as well as to design of the core protection system. The position signal of control rod is classified as a Class 1E because the rod position signal is used in the safety related systems. Therefore it will be separated from the control systems to the extent that a failure of any single control system component of a channel and shall have sufficient independence, redundancy, and testability to perform its safety functions assuming a single failure. The position indicator is composed of a permanent magnet, reed switches and a voltage divider. Four independent position indicators around the upper pressure housing provide an indication of the position of a control rod comprising of a permanent magnet with a magnetic field concentrator which moves with the extension shaft connected to the control rod. The zigzag arranged reed switches are positioned along a line parallel to the path of the movement of the permanent magnet and it is activated selectively when the permanent magnet passes by. A voltage divider electrically connected to the reed switches provides a signal commensurate with the position of the control rod. The signal may then be transmitted to a position indicating device. But position indicator can not recognize the malfunction of the rotary step motor of CEDM instantly because its signal output is changed after the control rod moves more than a distance of reed switch interval

  13. Biogeochemical interactions control a temporal succession in the elemental composition of marine communities

    KAUST Repository

    Martiny, Adam C.; Talarmin, Agathe Anne Gaelle; Mouginot, Cé line; Lee, Jeanette A.; Huang, Jeremy S.; Gellene, Alyssa G.; Caron, David A.

    2015-01-01

    Recent studies have revealed clear regional differences in the particulate organic matter composition and stoichiometry of plankton communities. In contrast, less is known about potential mechanisms and patterns of temporal changes in the elemental composition of marine systems. Here, we monitored weekly changes in environmental conditions, phytoplankton abundances, and particulate organic carbon, nitrogen, and phosphorus concentrations over a 3-yr period. We found that variation in the particulate organic matter (POM) concentrations and ratios were related to seasonal oscillations of environmental conditions and phytoplankton abundances. Periods with low temperature, high nutrient concentrations and a dominance of large phytoplankton corresponded to low C : N : P and vice-versa for warmer periods during the summer and fall. In addition to seasonal changes, we observed a multiyear increase in POM C : P and N : P that might be associated with the Pacific Decadal Oscillation. Finally, there was substantial short-term variability in all factors but similar linkages between environmental variability and elemental composition as observed on seasonal and interannual time-scales. Using a feed-forward neural network, we could explain a large part of the variation in POM concentrations and ratios based on changes in environmental conditions and phytoplankton abundances. The apparent links across all time-scales between changes in physics, chemistry, phytoplankton, and POM concentrations and ratios suggest we have identified key controls of the elemental composition of marine communities in this region.

  14. New implantable therapeutic device for the control of an atrial fibrillation attack using the Peltier element.

    Science.gov (United States)

    Yambe, Tomoyuki; Sumiyoshi, Taketada; Koga, Chihiro; Shiraishi, Yasuyuki; Miura, Hidekazu; Sugita, Norihiro; Tanaka, Akira; Yoshizawa, Makoto

    2012-01-01

    For the development of the new therapeutic device for the atrial fibrillation, implantable cooling device using Peltier element was developed in this study. An implantable cooling device had been consisted from Peltier element with transcutaneous energy transmission system (TETS). 1st coil can be contacted from outside of the body, when the patients will feel palpitation. Electrical current will be induced to the implanted 2nd coil. Peltier element will able to cool the surface of the atrium. For the confirmation of the effect of the cooling device, trial manufacture model was developed. Animal experiments using six healthy adult goats after animal ethical committee allowance was carried out. Fourth intercostals space had been opened after anesthesia inhalation, and various sensors had been inserted. AF was induced by the electrical current with battery. As the results, AF had been recovered to the normal sinus rhythm after cooling in all six goats. So, this cooling system for the control of AF showed evident effect in these experiments. Smaller size cooling device has been under development aiming at totally implantable type. Catheter type cooling device for the insertion by the use of fiber-scope type is now under planning for the clinical application. This new type device may be able to become good news for the patients with uncontrollable AF.

  15. Biogeochemical interactions control a temporal succession in the elemental composition of marine communities

    KAUST Repository

    Martiny, Adam C.

    2015-11-23

    Recent studies have revealed clear regional differences in the particulate organic matter composition and stoichiometry of plankton communities. In contrast, less is known about potential mechanisms and patterns of temporal changes in the elemental composition of marine systems. Here, we monitored weekly changes in environmental conditions, phytoplankton abundances, and particulate organic carbon, nitrogen, and phosphorus concentrations over a 3-yr period. We found that variation in the particulate organic matter (POM) concentrations and ratios were related to seasonal oscillations of environmental conditions and phytoplankton abundances. Periods with low temperature, high nutrient concentrations and a dominance of large phytoplankton corresponded to low C : N : P and vice-versa for warmer periods during the summer and fall. In addition to seasonal changes, we observed a multiyear increase in POM C : P and N : P that might be associated with the Pacific Decadal Oscillation. Finally, there was substantial short-term variability in all factors but similar linkages between environmental variability and elemental composition as observed on seasonal and interannual time-scales. Using a feed-forward neural network, we could explain a large part of the variation in POM concentrations and ratios based on changes in environmental conditions and phytoplankton abundances. The apparent links across all time-scales between changes in physics, chemistry, phytoplankton, and POM concentrations and ratios suggest we have identified key controls of the elemental composition of marine communities in this region.

  16. Genome-wide analysis of ABA-responsive elements ABRE and CE3 reveals divergent patterns in Arabidopsis and rice

    Directory of Open Access Journals (Sweden)

    Riaño-Pachón Diego

    2007-08-01

    Full Text Available Abstract Background In plants, complex regulatory mechanisms are at the core of physiological and developmental processes. The phytohormone abscisic acid (ABA is involved in the regulation of various such processes, including stomatal closure, seed and bud dormancy, and physiological responses to cold, drought and salinity stress. The underlying tissue or plant-wide control circuits often include combinatorial gene regulatory mechanisms and networks that we are only beginning to unravel with the help of new molecular tools. The increasing availability of genomic sequences and gene expression data enables us to dissect ABA regulatory mechanisms at the individual gene expression level. In this paper we used an in-silico-based approach directed towards genome-wide prediction and identification of specific features of ABA-responsive elements. In particular we analysed the genome-wide occurrence and positional arrangements of two well-described ABA-responsive cis-regulatory elements (CREs, ABRE and CE3, in thale cress (Arabidopsis thaliana and rice (Oryza sativa. Results Our results show that Arabidopsis and rice use the ABA-responsive elements ABRE and CE3 distinctively. Earlier reports for various monocots have identified CE3 as a coupling element (CE associated with ABRE. Surprisingly, we found that while ABRE is equally abundant in both species, CE3 is practically absent in Arabidopsis. ABRE-ABRE pairs are common in both genomes, suggesting that these can form functional ABA-responsive complexes (ABRCs in Arabidopsis and rice. Furthermore, we detected distinct combinations, orientation patterns and DNA strand preferences of ABRE and CE3 motifs in rice gene promoters. Conclusion Our computational analyses revealed distinct recruitment patterns of ABA-responsive CREs in upstream sequences of Arabidopsis and rice. The apparent absence of CE3s in Arabidopsis suggests that another CE pairs with ABRE to establish a functional ABRC capable of

  17. Genome-wide analysis of ABA-responsive elements ABRE and CE3 reveals divergent patterns in Arabidopsis and rice.

    Science.gov (United States)

    Gómez-Porras, Judith L; Riaño-Pachón, Diego Mauricio; Dreyer, Ingo; Mayer, Jorge E; Mueller-Roeber, Bernd

    2007-08-01

    In plants, complex regulatory mechanisms are at the core of physiological and developmental processes. The phytohormone abscisic acid (ABA) is involved in the regulation of various such processes, including stomatal closure, seed and bud dormancy, and physiological responses to cold, drought and salinity stress. The underlying tissue or plant-wide control circuits often include combinatorial gene regulatory mechanisms and networks that we are only beginning to unravel with the help of new molecular tools. The increasing availability of genomic sequences and gene expression data enables us to dissect ABA regulatory mechanisms at the individual gene expression level. In this paper we used an in-silico-based approach directed towards genome-wide prediction and identification of specific features of ABA-responsive elements. In particular we analysed the genome-wide occurrence and positional arrangements of two well-described ABA-responsive cis-regulatory elements (CREs), ABRE and CE3, in thale cress (Arabidopsis thaliana) and rice (Oryza sativa). Our results show that Arabidopsis and rice use the ABA-responsive elements ABRE and CE3 distinctively. Earlier reports for various monocots have identified CE3 as a coupling element (CE) associated with ABRE. Surprisingly, we found that while ABRE is equally abundant in both species, CE3 is practically absent in Arabidopsis. ABRE-ABRE pairs are common in both genomes, suggesting that these can form functional ABA-responsive complexes (ABRCs) in Arabidopsis and rice. Furthermore, we detected distinct combinations, orientation patterns and DNA strand preferences of ABRE and CE3 motifs in rice gene promoters. Our computational analyses revealed distinct recruitment patterns of ABA-responsive CREs in upstream sequences of Arabidopsis and rice. The apparent absence of CE3s in Arabidopsis suggests that another CE pairs with ABRE to establish a functional ABRC capable of interacting with transcription factors. Further studies will be

  18. System of the optic-electronic sensors for control position of the radio telescope elements

    Science.gov (United States)

    Konyakhin, Igor; Stepashkin, Ivan; Petrochenko, Andrey

    2016-04-01

    A promising area of modern astronomy is the study of the field of millimeter waves. The use of this band is due to a large extent the spectrum characteristics of the propagation of waves in the atmosphere, short wavelength. Currently, Russia jointly with Uzbekistan is implementing a project to build a radio astronomy observatory on the Suffa plateau (Uzbekistan). The main instrument of the observatory is fully steerable radio telescope RT-70 type. Main mirror telescope is a fragment of an axisymmetric parabolic with a focal length of 21 m, consisting of 1200 reflecting panels; main mirror diameter - 70 m; diameter of counter reflector - 3 m. A feature of the radio telescope as a means of research in the millimeter wavelength range are high for the quality requirements parabolic surface of the primary mirror (standard deviation of points on the surface of the theoretical parabolic is not more than 0.05 mm), to the stability of the mutual arrangement of the primary mirror and the counter reflector (not more than 0, 07 mm) for precision guidance in the corners of the mirror system azimuth and elevation (margin of error 1.5-2"). Weight of structure, temperature changes and air shock result in significant deformation elements radio telescope construction (progressive linear displacements of points of the surface of the main mirror), reaching in the marginal zone of 30 mm; counter reflector shift of up to 60 mm; Unlike the angular position of the axis of the beam pattern of the radio telescope of the measured angle transducers can reach 10 ". Therefore, to ensure the required quality of the reflective elements RT-70 systems, as well as the implementation of precision-guided munitions needs complex measuring deformation elements telescope design. This article deals with the construction of opto-electronic system of remote optoelectronic displacement sensor control elements mirror telescope system.

  19. Precise integration of inducible transcriptional elements (PrIITE) enables absolute control of gene expression

    DEFF Research Database (Denmark)

    Pinto, Rita; Hansen, Lars; Hintze, John

    2017-01-01

    to be a limitation. Here, we report that the combined use of genome editing tools and last generation Tet-On systems can resolve these issues. Our principle is based on precise integration of inducible transcriptional elements (coined PrIITE) targeted to: (i) exons of an endogenous gene of interest (GOI) and (ii......Tetracycline-based inducible systems provide powerful methods for functional studies where gene expression can be controlled. However, the lack of tight control of the inducible system, leading to leakiness and adverse effects caused by undesirable tetracycline dosage requirements, has proven......) a safe harbor locus. Using PrIITE cells harboring a GFP reporter or CDX2 transcription factor, we demonstrate discrete inducibility of gene expression with complete abrogation of leakiness. CDX2 PrIITE cells generated by this approach uncovered novel CDX2 downstream effector genes. Our results provide...

  20. Device for relocating fuel elements and control rods in a core reactor

    International Nuclear Information System (INIS)

    Hoffmeister, B.; Schwarz, W.

    1976-01-01

    A device is described for changing the location of fuel elements and control rods in a core reactor with a guiding mast which is mounted on a movable working platform for rotation about a vertical axis and which is provided with a gripping body for grasping the fuel elements and control rods, said gripping body being suspended on a lifting mechanism and being displaceable in vertical direction within the guiding mast while being prevented from rotating relative to the guiding mast. The device furthermore comprises winding means for storing supply lines which are introduced at the top into the guiding mast and the gripper body. The device also includes power operated means for actuating the lifting mechanism. The winding means and lifting mechanism rotate with the mast and are so arranged in the mast that any water dripping therefrom runs down the inside of the mast. Supply conduits leading to the mast are connected thereby by slack loops which permit 360 0 of rotation of the mast. 11 claims, 6 drawing figures

  1. Dc microgrid stabilization through fuzzy control of interleaved, heterogeneous storage elements

    Science.gov (United States)

    Smith, Robert David

    As microgrid power systems gain prevalence and renewable energy comprises greater and greater portions of distributed generation, energy storage becomes important to offset the higher variance of renewable energy sources and maximize their usefulness. One of the emerging techniques is to utilize a combination of lead-acid batteries and ultracapacitors to provide both short and long-term stabilization to microgrid systems. The different energy and power characteristics of batteries and ultracapacitors imply that they ought to be utilized in different ways. Traditional linear controls can use these energy storage systems to stabilize a power grid, but cannot effect more complex interactions. This research explores a fuzzy logic approach to microgrid stabilization. The ability of a fuzzy logic controller to regulate a dc bus in the presence of source and load fluctuations, in a manner comparable to traditional linear control systems, is explored and demonstrated. Furthermore, the expanded capabilities (such as storage balancing, self-protection, and battery optimization) of a fuzzy logic system over a traditional linear control system are shown. System simulation results are presented and validated through hardware-based experiments. These experiments confirm the capabilities of the fuzzy logic control system to regulate bus voltage, balance storage elements, optimize battery usage, and effect self-protection.

  2. Numerical Modeling of Cavitating Venturi: A Flow Control Element of Propulsion System

    Science.gov (United States)

    Majumdar, Alok; Saxon, Jeff (Technical Monitor)

    2002-01-01

    In a propulsion system, the propellant flow and mixture ratio could be controlled either by variable area flow control valves or by passive flow control elements such as cavitating venturies. Cavitating venturies maintain constant propellant flowrate for fixed inlet conditions (pressure and temperature) and wide range of outlet pressures, thereby maintain constant, engine thrust and mixture ratio. The flowrate through the venturi reaches a constant value and becomes independent of outlet pressure when the pressure at throat becomes equal to vapor pressure. In order to develop a numerical model of propulsion system, it is necessary to model cavitating venturies in propellant feed systems. This paper presents a finite volume model of flow network of a cavitating venturi. The venturi was discretized into a number of control volumes and mass, momentum and energy conservation equations in each control volume are simultaneously solved to calculate one-dimensional pressure, density, and flowrate and temperature distribution. The numerical model predicts cavitations at the throat when outlet pressure was gradually reduced. Once cavitation starts, with further reduction of downstream pressure, no change in flowrate is found. The numerical predictions have been compared with test data and empirical equation based on Bernoulli's equation.

  3. THE HYDROVINYLATION AND RELATED REACTIONS: NEW PROTOCOLS AND CONTROL ELEMENTS IN SEARCH OF GREATER SYNTHETIC EFFICIENCY AND SELECTIVITY. (R826120)

    Science.gov (United States)

    New reaction conditions and stereochemical control elements for heterodimerization between ethylene (or propylene) and functionalized vinyl arenes are highlighted (see equation). For example, an enantioselective version of the hydrovinylation reaction uses [{(allyl)NiBr}...

  4. Test Functions for Three-Dimensional Control-Volume Mixed Finite-Element Methods on Irregular Grids

    National Research Council Canada - National Science Library

    Naff, R. L; Russell, T. F; Wilson, J. D

    2000-01-01

    .... For control-volume mixed finite-element methods, vector shape functions are used to approximate the distribution of velocities across cells and vector test functions are used to minimize the error...

  5. The significance of oxygen as oxides and hydroxides in controlling the abundance and residence times of elements in seawater

    Digital Repository Service at National Institute of Oceanography (India)

    DileepKumar, M.

    A model is presented which signifies the role of oxygen (as oxides and hydroxides) in controlling the composition of seawater. respective concentration and residence times for the unknown elements can be estimated. Geometric and statistical indices...

  6. Traffic control on a railway crossing with elements of utility theory

    Directory of Open Access Journals (Sweden)

    Abramova L.S.

    2016-08-01

    Full Text Available An approach to the management of vehicles at a railway crossing in order to improve the road safety is considered. To do this, it is suggested to introduce the dynamic motion control modes on the road, which consist in reducing the speed at a certain distance from the railway crossing and depends on its condition. The value of the recommended speed is displayed on the managed road signs and is calculated in real-time traffic controller at the railway crossing control point. The mark location is determined based on traffic intensity equalization that affects both the traffic intensity of the railway crossing and the road section on the approach to it. To analyze such events directed to improve the traffic on level crossings it is suggested to use the elements of utility theory to further develop the traffic control algorithm. For this purpose there was built a decision tree for the existing conditions at the railway crossing and at the introduction of the dynamic management, which indicates the result of decision taken by the change in the selected criteria of efficiency of traffic management at the railway crossing. Such an approach can reduce the number of road accidents and to increase the capacity of vehicular traffic at a particular road section to the technical means of attracting the driver's attention to the complex road by forced reduction in speed not only before the railway crossing, but also in at the approach to it.

  7. Spectral-element Method for 3D Marine Controlled-source EM Modeling

    Science.gov (United States)

    Liu, L.; Yin, C.; Zhang, B., Sr.; Liu, Y.; Qiu, C.; Huang, X.; Zhu, J.

    2017-12-01

    As one of the predrill reservoir appraisal methods, marine controlled-source EM (MCSEM) has been widely used in mapping oil reservoirs to reduce risk of deep water exploration. With the technical development of MCSEM, the need for improved forward modeling tools has become evident. We introduce in this paper spectral element method (SEM) for 3D MCSEM modeling. It combines the flexibility of finite-element and high accuracy of spectral method. We use Galerkin weighted residual method to discretize the vector Helmholtz equation, where the curl-conforming Gauss-Lobatto-Chebyshev (GLC) polynomials are chosen as vector basis functions. As a kind of high-order complete orthogonal polynomials, the GLC have the characteristic of exponential convergence. This helps derive the matrix elements analytically and improves the modeling accuracy. Numerical 1D models using SEM with different orders show that SEM method delivers accurate results. With increasing SEM orders, the modeling accuracy improves largely. Further we compare our SEM with finite-difference (FD) method for a 3D reservoir model (Figure 1). The results show that SEM method is more effective than FD method. Only when the mesh is fine enough, can FD achieve the same accuracy of SEM. Therefore, to obtain the same precision, SEM greatly reduces the degrees of freedom and cost. Numerical experiments with different models (not shown here) demonstrate that SEM is an efficient and effective tool for MSCEM modeling that has significant advantages over traditional numerical methods.This research is supported by Key Program of National Natural Science Foundation of China (41530320), China Natural Science Foundation for Young Scientists (41404093), and Key National Research Project of China (2016YFC0303100, 2017YFC0601900).

  8. Ants: Major Functional Elements in Fruit Agro-Ecosystems and Biological Control Agents

    Directory of Open Access Journals (Sweden)

    Lamine Diamé

    2017-12-01

    Full Text Available Ants are a very diverse taxonomic group. They display remarkable social organization that has enabled them to be ubiquitous throughout the world. They make up approximately 10% of the world’s animal biomass. Ants provide ecosystem services in agrosystems by playing a major role in plant pollination, soil bioturbation, bioindication, and the regulation of crop-damaging insects. Over recent decades, there have been numerous studies in ant ecology and the focus on tree cropping systems has given added importance to ant ecology knowledge. The only missing point in this knowledge is the reasons underlying difference between the positive and negative effects of ants in tree cropping systems. This review article provides an overview of knowledge of the roles played by ants in orchards as functional elements, and on the potential of Oecophylla weaver ants as biological control agents. It also shows the potential and relevance of using ants as an agro-ecological diagnosis tool in orchards. Lastly, it demonstrates the potential elements which may determine the divergent negative and positive of their effects on cropping systems.

  9. HEP - A semaphore-synchronized multiprocessor with central control. [Heterogeneous Element Processor

    Science.gov (United States)

    Gilliland, M. C.; Smith, B. J.; Calvert, W.

    1976-01-01

    The paper describes the design concept of the Heterogeneous Element Processor (HEP), a system tailored to the special needs of scientific simulation. In order to achieve high-speed computation required by simulation, HEP features a hierarchy of processes executing in parallel on a number of processors, with synchronization being largely accomplished by hardware. A full-empty-reserve scheme of synchronization is realized by zero-one-valued hardware semaphores. A typical system has, besides the control computer and the scheduler, an algebraic module, a memory module, a first-in first-out (FIFO) module, an integrator module, and an I/O module. The architecture of the scheduler and the algebraic module is examined in detail.

  10. Friction control using ultrasonic oscillation for rolling-element linear-motion guide

    International Nuclear Information System (INIS)

    Oiwa, Takaaki

    2006-01-01

    This article reports a friction-control method for rolling-element linear-motion guides used for precision positioning. In general, static friction greater than dynamic friction generates stick-slip motion and diminishes the positioning accuracy. Two ultrasonic actuators excite both the rail and the carriage of the guide to give relative displacements to bearing surfaces. In order to effectively propagate the vibration over the entire rail without damping, the actuator drives at that frequency with a half wavelength corresponding to the distances between the rail mounting bolts. This also minimizes undesirable vibration of the machine structure. Moreover, the bearing surfaces of the carriage are resonated by a second ultrasonic actuator. The experiments using a force sensor showed that the static and dynamic friction forces were reduced by approximately 25% at any place on the 600-mm-long rail. Moreover, excitation only at very low velocity decreased the static friction peak

  11. Spectral finite element method wave propagation, diagnostics and control in anisotropic and inhomogeneous structures

    CERN Document Server

    Gopalakrishnan, Srinivasan; Roy Mahapatra, Debiprosad

    2008-01-01

    The use of composites and Functionally Graded Materials (FGMs) in structural applications has increased. FGMs allow the user to design materials for a specified functionality and have many uses in structural engineering. However, the behaviour of these structures under high-impact loading is not well understood. This book is the first to apply the Spectral Finite Element Method (SFEM) to inhomogeneous and anisotropic structures in a unified and systematic manner. It focuses on some of the problems with this media which were previously thought unmanageable. Types of SFEM for regular and damaged 1-D and 2-D waveguides, solution techniques, methods of detecting the presence of damages and their locations, and methods for controlling the wave propagation responses are discussed. Tables, figures and graphs support the theory and case studies are included. This book is of value to senior undergraduates and postgraduates studying in this field, and researchers and practicing engineers in structural integrity.

  12. Finite Element Method-Based Kinematics and Closed-Loop Control of Soft, Continuum Manipulators.

    Science.gov (United States)

    Bieze, Thor Morales; Largilliere, Frederick; Kruszewski, Alexandre; Zhang, Zhongkai; Merzouki, Rochdi; Duriez, Christian

    2018-06-01

    This article presents a modeling methodology and experimental validation for soft manipulators to obtain forward kinematic model (FKM) and inverse kinematic model (IKM) under quasi-static conditions (in the literature, these manipulators are usually classified as continuum robots. However, their main characteristic of interest in this article is that they create motion by deformation, as opposed to the classical use of articulations). It offers a way to obtain the kinematic characteristics of this type of soft robots that is suitable for offline path planning and position control. The modeling methodology presented relies on continuum mechanics, which does not provide analytic solutions in the general case. Our approach proposes a real-time numerical integration strategy based on finite element method with a numerical optimization based on Lagrange multipliers to obtain FKM and IKM. To reduce the dimension of the problem, at each step, a projection of the model to the constraint space (gathering actuators, sensors, and end-effector) is performed to obtain the smallest number possible of mathematical equations to be solved. This methodology is applied to obtain the kinematics of two different manipulators with complex structural geometry. An experimental comparison is also performed in one of the robots, between two other geometric approaches and the approach that is showcased in this article. A closed-loop controller based on a state estimator is proposed. The controller is experimentally validated and its robustness is evaluated using Lypunov stability method.

  13. Possibility evaluation of eliminating the saturated control fuel element from Tehran research reactor core

    International Nuclear Information System (INIS)

    Mirvakili, S.M.; Keyvani, M.; Arshi, S. Safaei; Khalafi, H.

    2012-01-01

    Highlights: ► We show safe operation of Tehran research reactor without one of its control rods. ► We propose an optimum new core configuration by fuel management calculations. ► We calculate neutronic and thermal hydraulic parameters of the new core. ► Parameters are consistent with the safety criteria. - Abstract: In this study the possibility of safe operation of Tehran research reactor (TRR) providing the elimination of one control rod is evaluated. One of the control fuel elements (CFEs) of TRR has been reached the maximum permissible burn-up and due to the impossibility of fresh fuel assembly provision under current situation, providing an optimum core configuration which satisfies safe operation conditions by applying fuel management calculations is essential. In order to ensure the safe and stable operation of recently proposed configuration for TRR core, neutronic and thermal hydraulic parameters of the new core are calculated and compared with the safety criteria. The results show good compatibility with reactor safety criteria, and provide desired shutdown margin and safety reactivity factor.

  14. Distribution of indoor radon concentrations and elements of a strategy for control

    International Nuclear Information System (INIS)

    Nero, A.V. Jr.

    1986-05-01

    Indoor radon concentrations vary widely in the US housing stock, with normal concentrations estimated to cause a significant risk of lung cancer by comparison with environmental exposures normally considered, and high concentrations causing risks that exceed even those from cigarette smoking. The probability distribution, i.e., the number of houses at various concentrations, can be estimated from an analysis of the US indoor radon data accumulated to date. Such an analysis suggests that in about a million houses, occupants are receiving exposures greater than those experienced by uranium miners. The form of the frequency distribution, including not only the average concentration, but also the number of houses with high levels, has substantial influence on strategies for control of indoor radon. Such strategies require three major elements: formulation of control objectives in terms of guidelines for remedial action and for new houses; selection of means for identifying homes with high concentrations; and a framework for deciding what types of control measures are appropriate to particular circumstances and how rapidly they should be employed

  15. Strategic elements of steam cycle chemistry control practices at TXU's Comanche Peak steam electric station

    International Nuclear Information System (INIS)

    Fellers, B.; Stevens, J.; Nichols, G.

    2002-01-01

    Early industry experience defined the critical importance of Chemistry Control Practices to maintaining long-term performance of PWR steam generators. These lessons provided the impetus for a number of innovations and alternate practices at Comanche Peak. For example, advanced amine investigations and implementation of results provided record low iron transport and deposition. The benefits of the surface-active properties of dimethyl-amine exceeded initial expectations. Operation of pre-coat polishers and steam generator blowdown demineralizers in the amine cycle enabled optimization of amine concentrations and stable pH control. The strategy for coordinated control of oxygen and hydrazine dosing complemented the advanced amine program for protective oxide stabilization. Additionally, a proactive chemical cleaning was performed on Unit 1 to prevent degradations from general fouling of steam generator tube-tube support plate (TSP) and top-of-tubesheet (TTS) crevices. This paper shares the results of these innovations and practices. Also, the bases, theory, and philosophy supporting the strategic elements of program will be presented. (authors)

  16. Trace element control in binary Ni-25Cr and ternary Ni-30Co-30Cr master alloy castings

    Energy Technology Data Exchange (ETDEWEB)

    Detrois, Martin [National Energy Technology Lab. (NETL), Albany, OR (United States); Oak Ridge Inst. for Science and Education (ORISE), Oak Ridge, TN (United States); Jablonski, Paul D. [National Energy Technology Lab. (NETL), Albany, OR (United States);

    2017-10-23

    Electro-slag remelting (ESR) is used for control of unwanted elements in commercial alloys. This study focuses on master alloys of Ni-25Cr and Ni-30Co-30Cr, processed through a combination of vacuum induction melting (VIM) and electro-slag remelting (ESR). Minor additions were made to control tramp element levels and modify the melting characteristics. Nitrogen and sulfur levels below 10 ppm and oxygen levels below 100 ppm were obtained in the final products. The role of the alloy additions in lowering the tramp element content, the resulting residual inclusions and the melting characteristics were determined computationally and confirmed experimentally. Additions of titanium were beneficial to the control of oxygen levels during VIM and nitrogen levels during ESR. Aluminum additions helped to control oxygen levels during remelting, however, aluminum pickup occurred when excess titanium was present during ESR. The usefulness of these master alloys for use as experimental remelt stock will also be discussed.

  17. SH2 and SH3 domains: elements that control interactions of cytoplasmic signaling proteins.

    Science.gov (United States)

    Koch, C A; Anderson, D; Moran, M F; Ellis, C; Pawson, T

    1991-05-03

    Src homology (SH) regions 2 and 3 are noncatalytic domains that are conserved among a series of cytoplasmic signaling proteins regulated by receptor protein-tyrosine kinases, including phospholipase C-gamma, Ras GTPase (guanosine triphosphatase)-activating protein, and Src-like tyrosine kinases. The SH2 domains of these signaling proteins bind tyrosine phosphorylated polypeptides, implicated in normal signaling and cellular transformation. Tyrosine phosphorylation acts as a switch to induce the binding of SH2 domains, thereby mediating the formation of heteromeric protein complexes at or near the plasma membrane. The formation of these complexes is likely to control the activation of signal transduction pathways by tyrosine kinases. The SH3 domain is a distinct motif that, together with SH2, may modulate interactions with the cytoskeleton and membrane. Some signaling and transforming proteins contain SH2 and SH3 domains unattached to any known catalytic element. These noncatalytic proteins may serve as adaptors to link tyrosine kinases to specific target proteins. These observations suggest that SH2 and SH3 domains participate in the control of intracellular responses to growth factor stimulation.

  18. Dynamics and control of robotic spacecrafts for the transportation of flexible elements

    International Nuclear Information System (INIS)

    Wen, Hao; Chen, Ti; Yu, Bensong; Jin, Dongping

    2016-01-01

    The technology of robotic spacecrafts has been identified as one of the most appealing solutions to the on-orbit construction of large space structures in future space missions. As a prerequisite of a successful on-orbit construction, it is needed to use small autonomous spacecrafts for the transportation of flexible elements. To this end, the paper presents an energy-based scheme to control a couple of robotic spacecrafts carrying a flexible slender structure to its desired position. The flexible structure is modelled as a long beam based on the formulation of absolute nodal coordinates to account for the geometrical nonlinearity due to large displacement. Meanwhile, the robotic spacecrafts are actuated on their rigid-body degrees of freedom and modelled as two rigid bodies attached to the flexible beam. The energy-based controller is designed using the technique of energy shaping and damping injection such that translational and rotational maneuvers can be achieved with the suppression of the flexible vibrations of the beam. Finally, numerical case studies are performed to demonstrate the proposed schemes. (paper)

  19. Casein kinase 1 regulates sterol regulatory element-binding protein (SREBP) to control sterol homeostasis.

    Science.gov (United States)

    Brookheart, Rita T; Lee, Chih-Yung S; Espenshade, Peter J

    2014-01-31

    Sterol homeostasis is tightly controlled by the sterol regulatory element-binding protein (SREBP) transcription factor that is highly conserved from fungi to mammals. In fission yeast, SREBP functions in an oxygen-sensing pathway to promote adaptation to decreased oxygen supply that limits oxygen-dependent sterol synthesis. Low oxygen stimulates proteolytic cleavage of the SREBP homolog Sre1, generating the active transcription factor Sre1N that drives expression of sterol biosynthetic enzymes. In addition, low oxygen increases the stability and DNA binding activity of Sre1N. To identify additional signals controlling Sre1 activity, we conducted a genetic overexpression screen. Here, we describe our isolation and characterization of the casein kinase 1 family member Hhp2 as a novel regulator of Sre1N. Deletion of Hhp2 increases Sre1N protein stability and ergosterol levels in the presence of oxygen. Hhp2-dependent Sre1N degradation by the proteasome requires Hhp2 kinase activity, and Hhp2 binds and phosphorylates Sre1N at specific residues. Our results describe a role for casein kinase 1 as a direct regulator of sterol homeostasis. Given the role of mammalian Hhp2 homologs, casein kinase 1δ and 1ε, in regulation of the circadian clock, these findings may provide a mechanism for coordinating circadian rhythm and lipid metabolism.

  20. Elemental and Isotopic Incorporation into the Aragonitic Shells of Arctica Islandica: Insights from Temperature Controlled Experiments

    Science.gov (United States)

    Wanamaker, A. D.; Gillikin, D. P.

    2014-12-01

    The long-lived ocean quahog, Arctica islandica, is a fairly well developed and tested marine proxy archive, however, the utility of elemental ratios in A. islandica shell material as environmental proxies remains questionable. To further evaluate the influence of seawater temperature on elemental and isotopic incorporation during biomineralization, A. islandica shells were grown at constant temperatures under two regimes during a 16-week period from March 27 to July 21, 2011. Seawater from the Darling Marine Center in Walpole, Maine was pumped into temperature and flow controlled tanks that were exposed to ambient food and salinity conditions. A total of 20 individual juvenile clams with an average shell height of 36 mm were stained with calcein (a commonly used biomarker) and cultured at 10.3 ± 0.3 °C for six weeks. After this, shell heights were measured and the clams were again stained with calcein and cultured at 15.0 ± 0.4 °C for an additional 9.5 weeks. The average shell growth during the first phase of the experiment was 2.4 mm with a linear extension rate of 0.40 mm/week. The average shell growth during the second phase of the experiment was 3.2 mm with an extension rate of 0.34 mm/week. Average salinity values were 30.2 ± 0.7 and 30.7 ±0.7 in the first and second phases of the experiment, respectively. Oxygen isotopes from the cultured seawater were collected throughout the experiment and provide the basis for establishing if shells grew in oxygen isotopic equilibrium. Elemental ratios (primarily Ba/Ca, Mg/Ca, Sr/Ca) in the aragonitic shells were determined via laser ablation inductively coupled plasma mass spectrometry (LA-ICP-MS), while stable oxygen and carbon isotope ratios were measured using continuous flow isotope ratio mass spectrometry. Continuous sampling within and across the temperature conditions (from 10 °C to 15 °C) coupled with the calcein markings provides the ability to place each sample into a precise temporal framework. The

  1. "Braingame Brian": Toward an Executive Function Training Program with Game Elements for Children with ADHD and Cognitive Control Problems.

    Science.gov (United States)

    Prins, Pier J M; Brink, Esther Ten; Dovis, Sebastiaan; Ponsioen, Albert; Geurts, Hilde M; de Vries, Marieke; van der Oord, Saskia

    2013-02-01

    In the area of childhood attention-deficit hyperactivity disorder, there is an urgent need for new, innovative, and child-focused treatments. A computerized executive functioning training with game elements aimed at enhancing self-control was developed. The first results are promising, and the next steps involve replication with larger samples, evaluating transfer of training effects to daily life, and enhancing motivation through more gaming elements.

  2. Subtask 4.8 - Fate and Control of Mercury and Trace Elements

    Energy Technology Data Exchange (ETDEWEB)

    Pavlish, John; Lentz, Nicholas; Martin, Christopher; Ralston, Nicholas; Zhuang, Ye; Hamre, Lucinda

    2011-12-31

    The Center for Air Toxic Metals® (CATM®) Program at the Energy & Environmental Research Center (EERC) continues to focus on vital basic and applied research related to the fate, behavior, measurement, and control of trace metals, especially mercury, and the impact that these trace metals have on human health and the environment. For years, the CATM Program has maintained an international perspective, performing research and providing results that apply to both domestic and international audiences, with reports distributed in the United States and abroad. In addition to trace metals, CATM’s research focuses on other related emissions and issues that impact trace metal releases to the environment, such as SOx, NOx, CO2, ash, and wastewater streams. Of paramount interest and focus has been performing research that continues to enable the power and industrial sectors to operate in an environmentally responsible manner to meet regulatory standards. The research funded by the U.S. Department of Energy’s (DOE’s) National Energy Technology Laboratory (NETL) through CATM has allowed significant strides to be made to gain a better understanding of trace metals and other emissions, improve sampling and measurement techniques, fill data gaps, address emerging technical issues, and develop/test control technologies that allow industry to cost-effectively meet regulatory standards. The DOE NETL–CATM research specifically focused on the fate and control of mercury and trace elements in power systems that use CO2 control technologies, such as oxycombustion and gasification systems, which are expected to be among those technologies that will be used to address climate change issues. In addition, research addressed data gaps for systems that use conventional and multipollutant control technologies, such as electrostatic precipitators, selective catalytic reduction units, flue gas desulfurization systems, and flue gas

  3. A 20 bp cis-acting element is both necessary and sufficient to mediate elicitor response of a maize PRms gene.

    Science.gov (United States)

    Raventós, D; Jensen, A B; Rask, M B; Casacuberta, J M; Mundy, J; San Segundo, B

    1995-01-01

    Transient gene expression assays in barley aleurone protoplasts were used to identify a cis-regulatory element involved in the elicitor-responsive expression of the maize PRms gene. Analysis of transcriptional fusions between PRms 5' upstream sequences and a chloramphenicol acetyltransferase reporter gene, as well as chimeric promoters containing PRms promoter fragments or repeated oligonucleotides fused to a minimal promoter, delineated a 20 bp sequence which functioned as an elicitor-response element (ERE). This sequence contains a motif (-246 AATTGACC) similar to sequences found in promoters of other pathogen-responsive genes. The analysis also indicated that an enhancing sequence(s) between -397 and -296 is required for full PRms activation by elicitors. The protein kinase inhibitor staurosporine was found to completely block the transcriptional activation induced by elicitors. These data indicate that protein phosphorylation is involved in the signal transduction pathway leading to PRms expression.

  4. PELTIER ELEMENTS

    CERN Document Server

    Tani, Laurits

    2015-01-01

    To control Peltier elements, temperature controller was used. I used TEC-1091 that was manufactured my Meerstetter Engineering. To gain control with the temperature controller, software had to be intalled on a controlling PC. There were different modes to control the Peltier: Tempererature controller to control temperature, Static current/voltage to control voltage and current and LIVE ON/OFF to auto-tune the controller respectively to the system. Also, since near the collision pipe there is much radiation, radiation-proof Peltier elements have to be used. To gain the best results, I had to find the most efficient Peltier elements and try to get their cold side to -40 degrees Celsius.

  5. Switching sliding mode force tracking control of piezoelectric-hydraulic pump-based friction element actuation systems for automotive transmissions

    Science.gov (United States)

    Kim, Gi-Woo; Wang, K. W.

    2009-08-01

    In this study, a nonlinear sliding-mode controller is designed for force tracking of a piezoelectric-hydraulic pump (PHP)-based actuation system, which is developed to replace the current electro-hydraulic actuation systems for automatic transmission (AT) friction elements, such as band brakes or clutches. By utilizing the PHP, one can eliminate the various hydraulic components (oil pump, regulating valve and control valve) in current ATs and achieve a simpler configuration with more efficient operation. With the derived governing equation of motion of the PHP-based actuation system integrated with the friction element (band brake), a switching control law is synthesized based on the sliding-mode theory. To evaluate the effectiveness of the proposed control law, its force tracking performance for the engagement of a friction element during an AT 1\\to 2 up-shift is examined experimentally. It is shown that one can successfully track the desired force trajectory for AT shift control with small tracking error. This study demonstrates the potential of the PHP as a new controllable actuation system for AT friction elements.

  6. Switching sliding mode force tracking control of piezoelectric-hydraulic pump-based friction element actuation systems for automotive transmissions

    International Nuclear Information System (INIS)

    Kim, Gi-Woo; Wang, K W

    2009-01-01

    In this study, a nonlinear sliding-mode controller is designed for force tracking of a piezoelectric-hydraulic pump (PHP)-based actuation system, which is developed to replace the current electro-hydraulic actuation systems for automatic transmission (AT) friction elements, such as band brakes or clutches. By utilizing the PHP, one can eliminate the various hydraulic components (oil pump, regulating valve and control valve) in current ATs and achieve a simpler configuration with more efficient operation. With the derived governing equation of motion of the PHP-based actuation system integrated with the friction element (band brake), a switching control law is synthesized based on the sliding-mode theory. To evaluate the effectiveness of the proposed control law, its force tracking performance for the engagement of a friction element during an AT 1→2 up-shift is examined experimentally. It is shown that one can successfully track the desired force trajectory for AT shift control with small tracking error. This study demonstrates the potential of the PHP as a new controllable actuation system for AT friction elements

  7. Utilization of air pollution control residues for the stabilization/solidification of trace element contaminated soil.

    Science.gov (United States)

    Travar, I; Kihl, A; Kumpiene, J

    2015-12-01

    The aim of this study was to evaluate the stabilization/solidification (S/S) of trace element-contaminated soil using air pollution control residues (APCRs) prior to disposal in landfill sites. Two soil samples (with low and moderate concentrations of organic matter) were stabilized using three APCRs that originated from the incineration of municipal solid waste, bio-fuels and a mixture of coal and crushed olive kernels. Two APCR/soil mixtures were tested: 30% APCR/70% soil and 50% APCR/50% soil. A batch leaching test was used to study immobilization of As and co-occurring metals Cr, Cu, Pb and Zn. Solidification was evaluated by measuring the unconfined compression strength (UCS). Leaching of As was reduced by 39-93% in APCR/soil mixtures and decreased with increased amounts of added APCR. Immobilization of As positively correlated with the amount of Ca in the APCR and negatively with the amount of soil organic matter. According to geochemical modelling, the precipitation of calcium arsenate (Ca3(AsO4)2/4H2O) and incorporation of As in ettringite (Ca6Al2(SO4)3(OH)12 · 26H2O) in soil/APCR mixtures might explain the reduced leaching of As. A negative effect of the treatment was an increased leaching of Cu, Cr and dissolved organic carbon. Solidification of APCR/soil was considerably weakened by soil organic matter.

  8. Development of linear pulse motor type control element drive mechanism for smart

    International Nuclear Information System (INIS)

    Je-Yong, Yu; Jong-in, Kim; Ji-ho, Kim; Hyung, Huh; Moon-Hee, Chang

    2001-01-01

    The system-integrated modular advanced reactor (SMART) currently under development at the Korea Atomic Energy Research Institute is being designed with soluble boron free operation and the use of nuclear heating for reactor start-up. These design features require a Control Element Drive Mechanism(CEDM) for SMART to have fine-step movement capability as well as high reliability for fine reactivity control. In this paper, the design characteristics of a new concept CEDM driven by a Linear Pulse Motor (LPM) which meets the design requirements of the integral reactor SMART are introduced. The primary dimensions of the linear pulse motor are determined by electro-magnetic analysis and the results are also presented. In parallel with the electro-magnetic analysis, the conceptual design of the CEDM is visualized and checked for interferences among parts by assembling three dimensional (3D) models on computer. A prototype of the LPM with double air-gaps for the CEDM sub-assemblies to lift 100 kg is designed, analysed, manufactured and tested to confirm the validity of the CEDM design concept. A converter and test facility are manufactured to verify the dynamic performance of the LPM. The mover of the LPM is welded with ferromagnetic material and non-ferromagnetic material to get the magnetic flux path between the inner stator and outer stator. The thrust forces of LPM predicted by the analytic model have shown good agreement with experimental results from the prototype LPM. It is found that the LPM type CEDM has high force density and a simple drive mechanism to reduce volume and satisfy reactor operating circumstances with high pressure and temperature. (authors)

  9. Linear pulse motor type control element drive mechanism for the integral reactor

    International Nuclear Information System (INIS)

    Yu, J. Y.; Choi, S.; Kim, J. H.; Huh, H.; Park, K. B.

    2007-01-01

    The integral reactor SMART currently under development at Korea Atomic Energy Research Institute is designed with soluble boron free operation and use of nuclear heating for reactor startup. These design features require the Control Element Drive Mechanism (CEDM) for SMART to have fine-step movement capability as well as high reliability for the fine reactivity control. In this paper, design characteristics of a new concept CEDM driven by the Linear Pulse Motor (LPM) which meets the design requirements of the integral reactor SMART are introduced. The primary dimensions of the linear pulse motor are determined by the electro-magnetic analysis and the results are also presented. In parallel with the electro-magnetic analysis, the conceptual design of the CEDM is visualized and checked for interferences among parts by assembling three dimensional (3D) models on the computer. Prototype of LPM with double air-gaps for the CEDM sub-assemblies to lift 100 kg is designed, analysed, manufactured and tested to confirm the validity of the CEDM design concept. A converter and a test facility are manufactured to verify the dynamic performance of the LPM. The mover of the LPM is welded with ferromagnetic material and non-ferromagnetic material to get the magnetic flux path between inner stator and outer stator. The thrust forces of LPM predicted by analytic model have shown good agreement with experimental results from the prototype LPM. It is found that the LPM type CEDM has high force density and simple drive mechanism to reduce volume and satisfy the reactor operating circumstances with high pressure and temperature

  10. Architecture of vagal motor units controlling striated muscle of esophagus: peripheral elements patterning peristalsis?

    Science.gov (United States)

    Powley, Terry L; Mittal, Ravinder K; Baronowsky, Elizabeth A; Hudson, Cherie N; Martin, Felecia N; McAdams, Jennifer L; Mason, Jacqueline K; Phillips, Robert J

    2013-12-01

    Little is known about the architecture of the vagal motor units that control esophageal striated muscle, in spite of the fact that these units are necessary, and responsible, for peristalsis. The present experiment was designed to characterize the motor neuron projection fields and terminal arbors forming esophageal motor units. Nucleus ambiguus compact formation neurons of the rat were labeled by bilateral intracranial injections of the anterograde tracer dextran biotin. After tracer transport, thoracic and abdominal esophagi were removed and prepared as whole mounts of muscle wall without mucosa or submucosa. Labeled terminal arbors of individual vagal motor neurons (n=78) in the esophageal wall were inventoried, digitized and analyzed morphometrically. The size of individual vagal motor units innervating striated muscle, throughout thoracic and abdominal esophagus, averaged 52 endplates per motor neuron, a value indicative of fine motor control. A majority (77%) of the motor terminal arbors also issued one or more collateral branches that contacted neurons, including nitric oxide synthase-positive neurons, of local myenteric ganglia. Individual motor neuron terminal arbors co-innervated, or supplied endplates in tandem to, both longitudinal and circular muscle fibers in roughly similar proportions (i.e., two endplates to longitudinal for every three endplates to circular fibers). Both the observation that vagal motor unit collaterals project to myenteric ganglia and the fact that individual motor units co-innervate longitudinal and circular muscle layers are consistent with the hypothesis that elements contributing to peristaltic programming inhere, or are "hardwired," in the peripheral architecture of esophageal motor units. © 2013.

  11. Mass distribution and elemental analysis of the resultant atmospheric aerosol particles generated in controlled biomass burning processes

    Science.gov (United States)

    Ordou, N.; Agranovski, I. E.

    2017-12-01

    Air contamination resulting from bushfires is becoming increasingly important research question, as such disasters frequently occur in many countries. The objectives of this project were focused on physical and chemical characterisations of particulate emission resulting from burning of common representatives of Australian vegetation under controlled laboratory conditions. It was found that leaves are burned mostly with flaming phase and producing black smoke resulting in larger particles compared to white smoke in case of branches and grass, dominated by smouldering phase, producing finer particles. Following elemental analysis determined nine main elements in three different size fractions of particulate matter for each category of burning material, ranging from 14.1 μm to particle sizes below 2.54 μm. Potassium was found to be one of the main biomass markers, and sulphur was the ubiquitous element among the smoke particles followed by less prevalent trace elements like Na, Al, Mg, Zn, Si, Ca, and Fe.

  12. ABFs, a family of ABA-responsive element binding factors.

    Science.gov (United States)

    Choi, H; Hong, J; Ha, J; Kang, J; Kim, S Y

    2000-01-21

    Abscisic acid (ABA) plays an important role in environmental stress responses of higher plants during vegetative growth. One of the ABA-mediated responses is the induced expression of a large number of genes, which is mediated by cis-regulatory elements known as abscisic acid-responsive elements (ABREs). Although a number of ABRE binding transcription factors have been known, they are not specifically from vegetative tissues under induced conditions. Considering the tissue specificity of ABA signaling pathways, factors mediating ABA-dependent stress responses during vegetative growth phase may thus have been unidentified so far. Here, we report a family of ABRE binding factors isolated from young Arabidopsis plants under stress conditions. The factors, isolated by a yeast one-hybrid system using a prototypical ABRE and named as ABFs (ABRE binding factors) belong to a distinct subfamily of bZIP proteins. Binding site selection assay performed with one ABF showed that its preferred binding site is the strong ABRE, CACGTGGC. ABFs can transactivate an ABRE-containing reporter gene in yeast. Expression of ABFs is induced by ABA and various stress treatments, whereas their induction patterns are different from one another. Thus, a new family of ABRE binding factors indeed exists that have the potential to activate a large number of ABA/stress-responsive genes in Arabidopsis.

  13. A gene regulatory network controlling hhex transcription in the anterior endoderm of the organizer

    Science.gov (United States)

    Rankin, Scott A.; Kormish, Jay; Kofron, Matt; Jegga, Anil; Zorn, Aaron M.

    2011-01-01

    The homeobox gene hhex is one of the earliest markers of the anterior endoderm, which gives rise to foregut organs such as the liver, ventral pancreas, thyroid, and lungs. The regulatory networks controlling hhex transcription are poorly understood. In an extensive cis-regulatory analysis of the Xenopus hhex promoter we determined how the Nodal, Wnt, and BMP pathways and their downstream transcription factors regulate hhex expression in the gastrula organizer. We show that Nodal signaling, present throughout the endoderm, directly activates hhex transcription via FoxH1/Smad2 binding sites in the proximal −0.44 Kb promoter. This positive action of Nodal is suppressed in the ventral-posterior endoderm by Vent 1 and Vent2, homeodomain repressors that are induced by BMP signaling. Maternal Wnt/β-catenin on the dorsal side of the embryo cooperates with Nodal and indirectly activate hhex expression via the homeodomain activators Siamois and Twin. Siamois/Twin stimulate hhex transcription through two mechanisms: 1) They induce the expression of Otx2 and Lim1 and together Siamois, Twin, Otx2 and Lim1 appear to promote hhex transcription through homeobox sites in a Wnt-responsive element located between −0.65 to −0.55 Kb of the hhex promoter. 2) Siamois/Twin also induce the expression of the BMP-antagonists Chordin and Noggin, which are required to exclude Vents from the organizer allowing hhex transcription. This work reveals a complex network regulating anterior endoderm transcription in the early embryo. PMID:21215263

  14. Control in fabrication of PWR and BWR type reactor fuel elements

    International Nuclear Information System (INIS)

    Gorskij, V.V.

    1981-01-01

    Both destructive and non-destructive testing methods now in use in fabrication of BWR and PWR type reactor fuel elements at foreign plants are reviewed. Technological procedures applied in fabrication of fuel elements and fuel assemblies are described. Major attention is paid to radiographic, ultrasonic, metallographic, visual and autoclavic testings. A correspondence of the methods applied to the ASTM standards is discussed. The most part of the countries are concluded the apply similar testing methods enabling one to reliably evaluate the quality of primary materials and fabricated fuel elements and thus meeting the demands to contemporary PWR and BWR type reactor fuel elements. Practically all fuel element and pipe fabrication plants in Western Europe, Asia and America use the ASTM standards as the basis for the quality contr [ru

  15. High user control in game design elements increases compliance and in-game performance in a memory training game

    Directory of Open Access Journals (Sweden)

    Aniket eNagle

    2015-11-01

    Full Text Available Computer games are increasingly being used for training cognitive functions like working memory and attention among the growing population of older adults. While cognitive training games often include elements like difficulty adaptation, rewards, and visual themes to make the games more enjoyable and effective, the effect of different degrees of afforded user control in manipulating these elements has not been systematically studied. To address this issue, two distinct implementations of the three aforementioned game elements were tested among healthy older adults (N = 21, 69.9 ± 6.4 years old playing a game-like version of the n-back task on a tablet at home for three weeks. Two modes were considered, differentiated by the afforded degree of user control of the three elements: user control of difficulty vs. automatic difficulty adaptation, difficulty-dependent rewards vs. automatic feedback messages, and user choice of visual theme vs. no choice. The two modes (USER-CONTROL and AUTO were compared for frequency of play, duration of play, and performance. Participants were free to play the game whenever and for however long they wished. Participants in USER-CONTROL exhibited significantly higher frequency of playing, total play duration, and performance than participants in AUTO. The results of the present study demonstrate the efficacy of providing user control in the three game elements, while validating a home-based study design in which participants were not bound by any training regimen, and could play the game whenever they wished. The results have implications for designing cognitive training games that elicit higher compliance and better performance, with an emphasis on home-based training.

  16. High User Control in Game Design Elements Increases Compliance and In-game Performance in a Memory Training Game.

    Science.gov (United States)

    Nagle, Aniket; Riener, Robert; Wolf, Peter

    2015-01-01

    Computer games are increasingly being used for training cognitive functions like working memory and attention among the growing population of older adults. While cognitive training games often include elements like difficulty adaptation, rewards, and visual themes to make the games more enjoyable and effective, the effect of different degrees of afforded user control in manipulating these elements has not been systematically studied. To address this issue, two distinct implementations of the three aforementioned game elements were tested among healthy older adults (N = 21, 69.9 ± 6.4 years old) playing a game-like version of the n-back task on a tablet at home for 3 weeks. Two modes were considered, differentiated by the afforded degree of user control of the three elements: user control of difficulty vs. automatic difficulty adaptation, difficulty-dependent rewards vs. automatic feedback messages, and user choice of visual theme vs. no choice. The two modes ("USER-CONTROL" and "AUTO") were compared for frequency of play, duration of play, and in-game performance. Participants were free to play the game whenever and for however long they wished. Participants in USER-CONTROL exhibited significantly higher frequency of playing, total play duration, and in-game performance than participants in AUTO. The results of the present study demonstrate the efficacy of providing user control in the three game elements, while validating a home-based study design in which participants were not bound by any training regimen, and could play the game whenever they wished. The results have implications for designing cognitive training games that elicit higher compliance and better in-game performance, with an emphasis on home-based training.

  17. 3D controlled-source electromagnetic modeling in anisotropic medium using edge-based finite element method

    DEFF Research Database (Denmark)

    Cai, Hongzhu; Xiong, Bin; Han, Muran

    2014-01-01

    This paper presents a linear edge-based finite element method for numerical modeling of 3D controlled-source electromagnetic data in an anisotropic conductive medium. We use a nonuniform rectangular mesh in order to capture the rapid change of diffusive electromagnetic field within the regions of...... are in a good agreement with the solutions obtained by the integral equation method....

  18. "Braingame Brian": Toward an Executive Function Training Program with Game Elements for Children with ADHD and Cognitive Control Problems

    NARCIS (Netherlands)

    Prins, P.J.M.; ten Brink, E.; Dovis, S.; Ponsioen, A.; Geurts, H.M.; de Vries, M.; van der Oord, S.

    2013-01-01

    In the area of childhood attention-deficit hyperactivity disorder, there is an urgent need for new, innovative, and child-focused treatments. A computerized executive functioning training with game elements aimed at enhancing self-control was developed. The first results are promising, and the next

  19. A preliminary evaluation of the generalized likelihood ratio for detecting and identifying control element failures in a transport aircraft

    Science.gov (United States)

    Bundick, W. T.

    1985-01-01

    The application of the Generalized Likelihood Ratio technique to the detection and identification of aircraft control element failures has been evaluated in a linear digital simulation of the longitudinal dynamics of a B-737 aircraft. Simulation results show that the technique has potential but that the effects of wind turbulence and Kalman filter model errors are problems which must be overcome.

  20. High User Control in Game Design Elements Increases Compliance and In-game Performance in a Memory Training Game

    Science.gov (United States)

    Nagle, Aniket; Riener, Robert; Wolf, Peter

    2015-01-01

    Computer games are increasingly being used for training cognitive functions like working memory and attention among the growing population of older adults. While cognitive training games often include elements like difficulty adaptation, rewards, and visual themes to make the games more enjoyable and effective, the effect of different degrees of afforded user control in manipulating these elements has not been systematically studied. To address this issue, two distinct implementations of the three aforementioned game elements were tested among healthy older adults (N = 21, 69.9 ± 6.4 years old) playing a game-like version of the n-back task on a tablet at home for 3 weeks. Two modes were considered, differentiated by the afforded degree of user control of the three elements: user control of difficulty vs. automatic difficulty adaptation, difficulty-dependent rewards vs. automatic feedback messages, and user choice of visual theme vs. no choice. The two modes (“USER-CONTROL” and “AUTO”) were compared for frequency of play, duration of play, and in-game performance. Participants were free to play the game whenever and for however long they wished. Participants in USER-CONTROL exhibited significantly higher frequency of playing, total play duration, and in-game performance than participants in AUTO. The results of the present study demonstrate the efficacy of providing user control in the three game elements, while validating a home-based study design in which participants were not bound by any training regimen, and could play the game whenever they wished. The results have implications for designing cognitive training games that elicit higher compliance and better in-game performance, with an emphasis on home-based training. PMID:26635681

  1. Development of carbon/carbon composite control rod for HTTR. 1. Preparation of elements and their fracture tests

    International Nuclear Information System (INIS)

    Eto, Motokuni; Ishiyama, Shintaro; Ugachi, Hirokazu

    1996-08-01

    For the High Temperature Engineering Test Reactor(HTTR) the control rod sleeve is made of Alloy 800H for which a particular process is imposed when the reactor needs to be scrammed. The less restricted operation of the reactor would be attained if there would be the control rod more resistant to high temperature and neutron irradiation. This report summarizes the results which have been obtained as of March 1996 in the course of the development of the C/C composite control rod. Materials used were pitch- or PAN-based fiber-reinforced 2-dimensional carbon composites, from which preforms of the elements of a control rod were fabricated. The preforms were carbonized at 1000degC after being impregnated with pitch. Then they were graphitized at 3000degC, followed by a purification treatment with halogen. The elements included the pellet holder, lace truck and pin. The pin was fabricated by the fiber laminating technique. A control rod is to consist of pellet holders which are connected by the lace trucks with pins. Various strength tests were carried out on these elements. An irradiation of the elements made of PAN-based material was performed in JRR-3 at 900±50degC to a neutron fluence of 1x10 25 n/m 2 (E>29fJ). As for the strength tests on the elements, there were some differences between PAN- and pitch-based composites: In general, elements made of PAN-based composite showed the more plastic behavior before they fractured, whereas those of pitch-based material behaved in the more brittle manner. Fracture tests of the irradiated elements showed that fracture load and fracture displacement enough for assuring the integrity of the control rod structure were maintained even after the irradiation. It was also found that if the applied load was parallel to the fiber felt plane both fracture load and strain increased, whereas the load increase and strain decrease were observed for the applied load against the plane. (J.P.N.)

  2. Development of carbon/carbon composite control rod for HTTR. 1. Preparation of elements and their fracture tests

    Energy Technology Data Exchange (ETDEWEB)

    Eto, Motokuni; Ishiyama, Shintaro; Ugachi, Hirokazu [Japan Atomic Energy Research Inst., Tokai, Ibaraki (Japan). Tokai Research Establishment

    1996-08-01

    For the High Temperature Engineering Test Reactor(HTTR) the control rod sleeve is made of Alloy 800H for which a particular process is imposed when the reactor needs to be scrammed. The less restricted operation of the reactor would be attained if there would be the control rod more resistant to high temperature and neutron irradiation. This report summarizes the results which have been obtained as of March 1996 in the course of the development of the C/C composite control rod. Materials used were pitch- or PAN-based fiber-reinforced 2-dimensional carbon composites, from which preforms of the elements of a control rod were fabricated. The preforms were carbonized at 1000degC after being impregnated with pitch. Then they were graphitized at 3000degC, followed by a purification treatment with halogen. The elements included the pellet holder, lace truck and pin. The pin was fabricated by the fiber laminating technique. A control rod is to consist of pellet holders which are connected by the lace trucks with pins. Various strength tests were carried out on these elements. An irradiation of the elements made of PAN-based material was performed in JRR-3 at 900{+-}50degC to a neutron fluence of 1x10{sup 25} n/m{sup 2} (E>29fJ). As for the strength tests on the elements, there were some differences between PAN- and pitch-based composites: In general, elements made of PAN-based composite showed the more plastic behavior before they fractured, whereas those of pitch-based material behaved in the more brittle manner. Fracture tests of the irradiated elements showed that fracture load and fracture displacement enough for assuring the integrity of the control rod structure were maintained even after the irradiation. It was also found that if the applied load was parallel to the fiber felt plane both fracture load and strain increased, whereas the load increase and strain decrease were observed for the applied load against the plane. (J.P.N.)

  3. Eliminating the human element and the drudgery from control-rod calibrations

    Energy Technology Data Exchange (ETDEWEB)

    Ruby, L; Wang, H -K [Univ. of California, Berkeley (United States)

    1974-07-01

    The Berkeley TRIGA Mark III Reactor has three distinct reflector arrangements, depending on the position of the core in the pool. The control rods must be calibrated in each position, making 12 rod calibrations required, in all. To eliminate the human element and the drudgery involved in this repetitious task, a computer-assisted semi-automatic method has been devised to perform the necessary period methods, and to produce the resultant rod-calibration curves. The method is based on the use of a signal from the linear-power-channel recorder to feed a voltage comparator which generates a pulse at a preselected voltage 'B' and also at '1.50V'. The 2 pulses are used to start and stop pulses for an electronic timer, which easily measures the time difference to 0.01 second. The comparator actually consists of two such pulse-pair generating circuits, so that 2 measurements of t{sub 50} can be obtained on each range of the linear-power channel. Before the comparator is used for a series of rod calibrations, the voltage discrimination levels are checked with a precision voltage source to verify that they are set at 3.50, 5.25, 6.00, and 9.00 volts. Corrections in the discrimination levels can be made by means of front-panel potentiometer adjustments. As voltage is gradually increased past each of the pre-set discrimination levels, a panel light comes on, indicating that a pulse has been formed. The comparator circuit also accepts a reset command from a push button held in the hand of the reactor operator, which command is then converted into an electrical reset signal for the electronic timer. The system provides non-prejudiced measurements for t{sub 50} as short as 5 seconds, with no concern about pen lag. The only manipulation of the data is to determine the best value of t{sub 50}, which is done by averaging those values which agree to within 0.1 second. The program ''RODCALN'' is used to calculate the rod worth remaining (in dollar units) versus control rod position

  4. Intercomparison tests and internal control samples as substantial elements of the quality control system: practical insights; Ringversuche und interne Kontrollproben als Elemente der Qualitaetssicherung: Erfahrungen aus der Praxis

    Energy Technology Data Exchange (ETDEWEB)

    Beyer, D.; Hartmann, M. [Bundesamt fuer Strahlenschutz, Berlin (Germany). Inst. fuer Angewandten Strahlenschutz

    2002-07-01

    The contribution highlights the practical experience accumulated in implementing the statutory ordinance on the monitoring of incorporated ionizing radiation by official monitoring stations, effective in Germany since 1996, focusing on the quality assurance system to be maintained by those stations. The examples used to illustrate practical aspects are: participation in intercomparison tests, sampling for internal control purposes, and the monitoring by way of excretion analyses of individuals handling alpha and beta emitters (nuclides) at their place of work. (orig./CB) [German] Im Jahre 1996 trat in Deutschland die 'Richtlinie ueber Anforderungen an Inkorporationsmessstellen' (Anforderungsrichtlinie) in Kraft. Danach werden fuer die Durchfuehrung der Inkorporationsueberwachung nur noch Messstellen amtlich anekannt, die unter anderem den dort gegebenen Anforderungen an Qualitaetssicherungsmassnahmen genuegen. Im Einzelnen betrifft dies die Teilnahme an Ringversuchen sowie die vorgeschriebenen internen Eigenkontrollen. Am Beispiel der Inkorporationsueberwachung durch Ausscheidungsanalyse, die bevorzugt beim Umgang mit alpha- und betastrahlenden Nukliden durchgefuehrt wird, werden die bisherigen Erfahrungen bei Anwendung der Anforderungsrichtlinie vorgestellt. (orig.)

  5. Variable Delay Element For Jitter Control In High Speed Data Links

    Science.gov (United States)

    Livolsi, Robert R.

    2002-06-11

    A circuit and method for decreasing the amount of jitter present at the receiver input of high speed data links which uses a driver circuit for input from a high speed data link which comprises a logic circuit having a first section (1) which provides data latches, a second section (2) which provides a circuit generates a pre-destorted output and for compensating for level dependent jitter having an OR function element and a NOR function element each of which is coupled to two inputs and to a variable delay element as an input which provides a bi-modal delay for pulse width pre-distortion, a third section (3) which provides a muxing circuit, and a forth section (4) for clock distribution in the driver circuit. A fifth section is used for logic testing the driver circuit.

  6. Adaptive evolution of conserved noncoding elements in mammals.

    Directory of Open Access Journals (Sweden)

    Su Yeon Kim

    2007-09-01

    Full Text Available Conserved noncoding elements (CNCs are an abundant feature of vertebrate genomes. Some CNCs have been shown to act as cis-regulatory modules, but the function of most CNCs remains unclear. To study the evolution of CNCs, we have developed a statistical method called the "shared rates test" to identify CNCs that show significant variation in substitution rates across branches of a phylogenetic tree. We report an application of this method to alignments of 98,910 CNCs from the human, chimpanzee, dog, mouse, and rat genomes. We find that approximately 68% of CNCs evolve according to a null model where, for each CNC, a single parameter models the level of constraint acting throughout the phylogeny linking these five species. The remaining approximately 32% of CNCs show departures from the basic model including speed-ups and slow-downs on particular branches and occasionally multiple rate changes on different branches. We find that a subset of the significant CNCs have evolved significantly faster than the local neutral rate on a particular branch, providing strong evidence for adaptive evolution in these CNCs. The distribution of these signals on the phylogeny suggests that adaptive evolution of CNCs occurs in occasional short bursts of evolution. Our analyses suggest a large set of promising targets for future functional studies of adaptation.

  7. Retroviral vectors encoding ADA regulatory locus control region provide enhanced T-cell-specific transgene expression.

    Science.gov (United States)

    Trinh, Alice T; Ball, Bret G; Weber, Erin; Gallaher, Timothy K; Gluzman-Poltorak, Zoya; Anderson, French; Basile, Lena A

    2009-12-30

    in T-cell specific gene expression were observed with the incorporation of additional cis-regulatory elements, such as a human polyadenylation signal and intron 7 from the human ADA gene. These studies suggest that the combination of an authentically regulated ADA gene in a murine retroviral vector, together with additional locus-specific regulatory refinements, will yield a vector with a safer profile and greater efficacy in terms of high-level, therapeutic, regulated gene expression for the treatment of ADA-deficient severe combined immunodeficiency.

  8. Retroviral vectors encoding ADA regulatory locus control region provide enhanced T-cell-specific transgene expression

    Science.gov (United States)

    2009-01-01

    -cell lines. Further improvements in T-cell specific gene expression were observed with the incorporation of additional cis-regulatory elements, such as a human polyadenylation signal and intron 7 from the human ADA gene. Conclusion These studies suggest that the combination of an authentically regulated ADA gene in a murine retroviral vector, together with additional locus-specific regulatory refinements, will yield a vector with a safer profile and greater efficacy in terms of high-level, therapeutic, regulated gene expression for the treatment of ADA-deficient severe combined immunodeficiency. PMID:20042112

  9. Finite Element Analysis for Active-force Control on Vibration of a Flexible Single-link Manipulator

    Directory of Open Access Journals (Sweden)

    Abdul Kadir Muhammad

    2015-10-01

    Full Text Available The purposes of this research are to formulate the equations of motion of the system, to develop computational codes by a finite element analysis in order to perform dynamics simulation with vibration control, to propose an effective control scheme using active-force (AF control a flexible single-link manipulator. The system used in this paper consists of an aluminum beam as a flexible link, a clamp-part, a servo motor to rotate the link and a piezoelectric actuator to control vibration. Computational codes on time history responses, FFT (Fast Fourier Transform processing and eigenvalues-eigenvectors analysis were developed to calculate dynamic behavior of the link. Furthermore, the AF control was designed to drive the piezoelectric actuator. Calculated results have revealed that the vibration of the system can be suppressed effectively.

  10. Alterations of serum macro-minerals and trace elements are associated with major depressive disorder: a case-control study.

    Science.gov (United States)

    Islam, Md Rabiul; Islam, Md Reazul; Shalahuddin Qusar, M M A; Islam, Mohammad Safiqul; Kabir, Md Humayun; Mustafizur Rahman, G K M; Islam, Md Saiful; Hasnat, Abul

    2018-04-10

    Major depressive disorder (MDD) is a mixed disorder with the highly irregular course, inconsistent response to treatment and has no well-known mechanism for the pathophysiology. Major causes of depression are genetic, neurobiological, and environmental. However, over the past few years, altered serum levels of macro-minerals (MM) and trace elements (TE) have been recognized as major causative factors to the pathogenesis of many mental disorders. The purpose of this study was to determine the serum levels of MM (calcium and magnesium) and TE (copper, iron, manganese, selenium, and zinc) in MDD patients and find out their associations with depression risk. This prospective case-control study recruited 247 patients and 248 healthy volunteers matched by age and sex. The serum levels of MM and TE were analyzed by atomic absorption spectroscopy (AAS). Statistical analysis was performed with independent sample t-tests and Pearson's correlation test. We found significantly decreased concentrations of calcium and magnesium, iron, manganese, selenium, and zinc in MDD patients compared with control subjects (p < 0.05). But the concentration of copper was significantly increased in the patients than control subjects (p < 0.05). Data obtained from different inter-element relations in MDD patients and control subjects strongly suggest that there is a disturbance in the element homeostasis. Our study suggests that altered serum concentrations of MM and TE are major contributing factors for the pathogenesis of MDD. Alterations of these elements in serum levels of MDD patients arise independently and they may provide a prognostic tool for the assessment of depression risk.

  11. Development of Decision-Making Automated System for Optimal Placement of Physical Access Control System’s Elements

    Science.gov (United States)

    Danilova, Olga; Semenova, Zinaida

    2018-04-01

    The objective of this study is a detailed analysis of physical protection systems development for information resources. The optimization theory and decision-making mathematical apparatus is used to formulate correctly and create an algorithm of selection procedure for security systems optimal configuration considering the location of the secured object’s access point and zones. The result of this study is a software implementation scheme of decision-making system for optimal placement of the physical access control system’s elements.

  12. Nonlinear finite element modeling of vibration control of plane rod-type structural members with integrated piezoelectric patches

    Science.gov (United States)

    Chróścielewski, Jacek; Schmidt, Rüdiger; Eremeyev, Victor A.

    2018-05-01

    This paper addresses modeling and finite element analysis of the transient large-amplitude vibration response of thin rod-type structures (e.g., plane curved beams, arches, ring shells) and its control by integrated piezoelectric layers. A geometrically nonlinear finite beam element for the analysis of piezolaminated structures is developed that is based on the Bernoulli hypothesis and the assumptions of small strains and finite rotations of the normal. The finite element model can be applied to static, stability, and transient analysis of smart structures consisting of a master structure and integrated piezoelectric actuator layers or patches attached to the upper and lower surfaces. Two problems are studied extensively: (i) FE analyses of a clamped semicircular ring shell that has been used as a benchmark problem for linear vibration control in several recent papers are critically reviewed and extended to account for the effects of structural nonlinearity and (ii) a smart circular arch subjected to a hydrostatic pressure load is investigated statically and dynamically in order to study the shift of bifurcation and limit points, eigenfrequencies, and eigenvectors, as well as vibration control for loading conditions which may lead to dynamic loss of stability.

  13. Control device for can failures of liquid cooled nuclear reactor fuel elements

    International Nuclear Information System (INIS)

    Althaus, D.; Mohm, F.; Nyhof, M.

    1974-01-01

    Checking of the fuel or breeding elements of, e.g., sodium-cooled reactors is done by detecting fission products in the coolant, with a flushing gas like argon removing the fission products from the coolant and carrying them to a detector system. In order to increase the escape rate of the fission products from the elements, these are lifted by a hoisting unit into a pit reaching down below the coolant level and are then heated. Heating is achieved by the decay heat or by an additional heating in the receiving pit which at this point is thermically insulated from the exterior. The flushing gas is blown radially into the receiving pit from below. The rising bubbles take along the fission products to a scintillation counter mounted on the head of the receiving vessel. This vessel may have double walls with coolant flowing through the interspace. (DG) [de

  14. Finite element time domain modeling of controlled-Source electromagnetic data with a hybrid boundary condition

    DEFF Research Database (Denmark)

    Cai, Hongzhu; Hu, Xiangyun; Xiong, Bin

    2017-01-01

    method which is unconditionally stable. We solve the diffusion equation for the electric field with a total field formulation. The finite element system of equation is solved using the direct method. The solutions of electric field, at different time, can be obtained using the effective time stepping...... method with trivial computation cost once the matrix is factorized. We try to keep the same time step size for a fixed number of steps using an adaptive time step doubling (ATSD) method. The finite element modeling domain is also truncated using a semi-adaptive method. We proposed a new boundary...... condition based on approximating the total field on the modeling boundary using the primary field corresponding to a layered background model. We validate our algorithm using several synthetic model studies....

  15. The controlled incorporation of foreign elements in metal surfaces by means of quantitative ion implantation

    International Nuclear Information System (INIS)

    Gries, W.H.

    1977-01-01

    Quantitative ion implantation is a powerful new method for the doping of metal surfaces with accurately known quantities of an element or one of its isotopes. It can be applied for the preparation of standards for various uses in instrumental methods of surface and bulk analysis. This paper provides selected information on some theoretical and practical aspects of quantitative ion implantation with the object of promoting the application of the method and stimulating further purposeful research on the subject. (Auth.)

  16. ACINO: Report on the design of programmability elements for in-operation network control

    OpenAIRE

    Sköldström Pontus; Junique Stéphane; Marsico Antonio

    2017-01-01

    This ACINO deliverable presents the work performed in task “Design of the programmability elements for in-operation network control” to design the northbound interface of the ACINO orchestrator. The document begins with a review of the requirements of the northbound interface, derived from previous work done related to use cases and application requirements and the expected properties of the ACINO framework (see report "ACINO: The framework for the application-centric network orchestra...

  17. Active Vibration Control Method for Space Truss Using Piezoelectric Actuators and Finite Elements

    National Research Council Canada - National Science Library

    Pantling, Carey

    1999-01-01

    .... With the use of a dSPACE data acquisition and processing system, quartz force transducer and piezoelectric actuator, active controls using an integral plus double integral control law were used...

  18. Trace elements in tourmalines from massive sulfide deposits and tourmalinites: Geochemical controls and exploration applications

    Science.gov (United States)

    Griffin, W.L.; Slack, J.F.; Ramsden, A.R.; Win, T.T.; Ryan, C.G.

    1996-01-01

    Trace element contents of tourmalines from massive sulfide deposits and tourmalinites have been determined in situ by proton microprobe; >390 analyses were acquired from 32 polished thin sections. Concentrations of trace elements in the tourmalines vary widely, from Sr, Ba, and Ca). Base metal proportions in the tourmalines show systematic patterns on ternary Cu-Pb-Zn diagrams that correlate well with the major commodity metals in the associated massive sulfide deposits. For example, data for tourmalines from Cu-Zn deposits (e.g., Ming mine, Newfoundland) fall mainly on the Cu-Zn join, whereas those from Pb-Zn deposits (e.g., Broken Hill, Australia) plot on the Pb-Zn join; no data fall on the Cu-Pb join, consistent with the lack of this metal association in massive sulfide deposits. The systematic relationship between base metal proportions in the tourmalines and the metallogeny of the host massive sulfide deposits indicates that the analyzed tourmalines retain a strong chemical signature of their original hydrothermal formation, in spite of variable metamorphic recrystallization. Such trace element patterns in massive sulfide tourmalines may be useful in mineral exploration, specifically for the evaluation of tourmaline concentrations in rocks, soils, and stream sediments.

  19. AKORT-1 on-line system for technological control of the mixed fuel distribution in fuel elements

    International Nuclear Information System (INIS)

    Baklanov, V.S.; Besednov, G.Yu.; Gadzhiev, G.I.

    1982-01-01

    An on-line system for technological control of experimental fuel elements with vibrocompacted UO 2 -PuO 2 fuel rods fabricated for the BOR-60 reactor is described. Equipment and performance specific features of the system mechanical part and electronic circuits are considered. The results of the system performance testing are given. The fuel element quality sorting is made on the base of the analysis of Pu and fuel density distributions in the rod length. Gamma-absorption method for density measuring and the method of Pu content determination by its own gamma radiation are used in the system simultaneously. The system has the following main characteristics: tested fuel element diameter is 6 mm; the range of fuel rod mean densities is 7-10 g/cm 3 ; Pu content in the fuel is more than 20%; gamma detectors are the NaI(Tl) detectors with dimensions 40x40 and 25x25 mm; energy resolution is 137 Cs gamma line. Electronic circuits of the system operating on-line with the D3-28 microcomputer are made using the VECTOR standard. The system testing has shown that the error in the fuel density determination is less than 1%, that for Pu content measuring is 4%, the system capacity is 6 fuel elements per hour

  20. A Modular Framework for Modeling Hardware Elements in Distributed Engine Control Systems

    Science.gov (United States)

    Zinnecker, Alicia M.; Culley, Dennis E.; Aretskin-Hariton, Eliot D.

    2015-01-01

    Progress toward the implementation of distributed engine control in an aerospace application may be accelerated through the development of a hardware-in-the-loop (HIL) system for testing new control architectures and hardware outside of a physical test cell environment. One component required in an HIL simulation system is a high-fidelity model of the control platform: sensors, actuators, and the control law. The control system developed for the Commercial Modular Aero-Propulsion System Simulation 40k (C-MAPSS40k) provides a verifiable baseline for development of a model for simulating a distributed control architecture. This distributed controller model will contain enhanced hardware models, capturing the dynamics of the transducer and the effects of data processing, and a model of the controller network. A multilevel framework is presented that establishes three sets of interfaces in the control platform: communication with the engine (through sensors and actuators), communication between hardware and controller (over a network), and the physical connections within individual pieces of hardware. This introduces modularity at each level of the model, encouraging collaboration in the development and testing of various control schemes or hardware designs. At the hardware level, this modularity is leveraged through the creation of a SimulinkR library containing blocks for constructing smart transducer models complying with the IEEE 1451 specification. These hardware models were incorporated in a distributed version of the baseline C-MAPSS40k controller and simulations were run to compare the performance of the two models. The overall tracking ability differed only due to quantization effects in the feedback measurements in the distributed controller. Additionally, it was also found that the added complexity of the smart transducer models did not prevent real-time operation of the distributed controller model, a requirement of an HIL system.

  1. Finite Element Analysis for Active-force Control on Vibration of a Flexible Single-link Manipulator

    Directory of Open Access Journals (Sweden)

    Abdul Kadir Muhammad

    2017-03-01

    Full Text Available The purposes of this research are to formulate theequations of motion of the system, to develop computationalcodes by a finite element analysis in order to perform dynamicssimulation with vibration control, to propose an effective controlscheme using active-force (AF control a flexible single-linkmanipulator. The system used in this paper consists of analuminum beam as a flexible link, a clamp-part, a servo motor torotate the link and a piezoelectric actuator to control vibration.Computational codes on time history responses, FFT (FastFourier Transform processing and eigenvalues-eigenvectorsanalysis were developed to calculate dynamic behavior of thelink. Furthermore, the AF control was designed to drive thepiezoelectric actuator. Calculated results have revealed that thevibration of the system can be suppressed effectively

  2. Processes controlling trace element geochemistry of Arabian Sea sediments during the last 25,000 years

    Science.gov (United States)

    Sirocko, Frank; Garbe-Schönberg, Dieter; Devey, Colin

    2000-11-01

    Thirty seven deep-sea sediment cores from the Arabian Sea were studied geochemically (49 major and trace elements) for four time slices during the Holocene and the last glacial, and in one high sedimentation rate core (century scale resolution) to detect tracers of past variations in the intensity of the atmospheric monsoon circulation and its hydrographic expression in the ocean surface. This geochemical multi-tracer approach, coupled with additional information on the grain size composition of the clastic fraction, the bulk carbonate and biogenic opal contents makes it possible to characterize the sedimentological regime in detail. Sediments characterized by a specific elemental composition (enrichment) originated from the following sources: river suspensions from the Tapti and Narbada, draining the Indian Deccan traps (Ti, Sr); Indus sediments and dust from Rajasthan and Pakistan (Rb, Cs); dust from Iran and the Persian Gulf (Al, Cr); dust from central Arabia (Mg); dust from East Africa and the Red Sea (Zr/Hf, Ti/Al). C org, Cd, Zn, Ba, Pb, U, and the HREE are associated with the intensity of upwelling in the western Arabian Sea, but only those patterns that are consistently reproduced by all of these elements can be directly linked with the intensity of the southwest monsoon. Relying on information from a single element can be misleading, as each element is affected by various other processes than upwelling intensity and nutrient content of surface water alone. The application of the geochemical multi-tracer approach indicates that the intensity of the southwest monsoon was low during the LGM, declined to a minimum from 15,000-13,000 14C year BP, intensified slightly at the end of this interval, was almost stable during the Bölling, Alleröd and the Younger Dryas, but then intensified in two abrupt successions at the end of the Younger Dryas (9900 14C year BP) and especially in a second event during the early Holocene (8800 14C year BP). Dust discharge by

  3. Multilevel Control System of Regional Power Consumption: Analysis of Infrastructure Elements Interconnections, Efficiency Evaluation

    Directory of Open Access Journals (Sweden)

    Marina Nikolaevna Myznikova

    2016-10-01

    Full Text Available Fundamental strategic programs in the spheres of power and economics adopted at various levels of management, are not always capable to solve the problem of power efficiency. The changes of systemic connections of economy and power elements are one of the basic problems of management at the regional level. The development of market relations has caused the growth of uncertainty factors at all levels of power consumption management. An insufficient estimation of system infrastructural interrelations and an individualization of organizational-economic relations of economic subjects and their localization, have generated the intersystem conflictness in distribution of power resources and have aggravated the problem of estimating power consumption efficiency at a systemic level. The restriction of application of the traditional management methods based on the principles of technological efficiency of the processes of energy manufacture and consumption, is connected with the information ruptures caused by the growth of factors of uncertainty and inconsistency of efficiency criteria. Application of modern methods of power consumption forecasting has a number of essential restrictions. At the present stage the management of power consumption in multilevel systems is aimed at realisation of system integrity and economic coordination of manufacture elements, transfer and consumption at regional level and demands working out of the new effective management methods based on the analysis of system interrelations. Allocation of system interrelations depends on features of development of electropower sector, active and passive elements of the structure of consumption, power balance. The analysis and estimation of interrelations of power and economic sphere allow to improve methodology of management of power consumption at the regional level in the conditions of uncertainty.

  4. Adaptive Finite Element Method for Optimal Control Problem Governed by Linear Quasiparabolic Integrodifferential Equations

    Directory of Open Access Journals (Sweden)

    Wanfang Shen

    2012-01-01

    Full Text Available The mathematical formulation for a quadratic optimal control problem governed by a linear quasiparabolic integrodifferential equation is studied. The control constrains are given in an integral sense: Uad={u∈X;∫ΩUu⩾0, t∈[0,T]}. Then the a posteriori error estimates in L∞(0,T;H1(Ω-norm and L2(0,T;L2(Ω-norm for both the state and the control approximation are given.

  5. HCPWR type fuel elements design with respect to its control rods

    International Nuclear Information System (INIS)

    Abbate, M.J.; Sbaffoni, M.M.; Patino, N.E.; Torasso, O.

    1992-01-01

    The high conversion reactors (HCPWR) can improve the nuclear fuel utilization. One of its present problems is the optimization of the control rods' worth and its relationship with the void coefficient. This investigation means, starting from one reference's design, to analyze several possibilities on the number and distribution of the control rods. As main result, one design including 24 control rods in an optimized distribution, is recommended. (author)

  6. Report on the quality control study NAT-6 for the determination of trace and minor elements in two moss samples

    International Nuclear Information System (INIS)

    Beise, A.; Smodis, A.

    2001-12-01

    A quality control study was organized on two moss materials. The materials were Pleuroziurn Schreberi species, a carpet forming moss which can be found throughout northern Europe. One material was collected from an unpolluted area and the other from a mining area in Scandinavia. 17 laboratories from 16 countries participated in the study, providing 26 sets of results. The following analytical methods were used: neutron activation analysis (NAA), inductive coupled plasma atomic emission spectrometry (ICP - AES), inductively coupled plasma mass spectrometry (ICP-MS), isotope-dilution thermal ionisation mass spectrometry IDTIMS) atomic absorption spectrometry (AAS), atomic fluorescence spectrometry (AFS) voltainetry V) and X-ray fluorescence spectrometry XRF). The results were evaluated following the standard IAEA procedures for (1) an interlaboratory comparison exercise and (2) a proficiency test using target values from the literature. For the moss sample M-1, 409 laboratory mean values for 47 elements were reported. More than 4 mean values were obtained for 28 measurands and these were statistically evaluated. Only 7 % 27 values) of the results were detected as outliers by the statistical data evaluation. There was good agreement for the results obtained by different methods for 21 elements (Al, Ba, Ca, Cd, Co, Cs, Cu, Fe, K, La, Mg, Mn, Na, Ni, Pb, Rb, Sb, Sc, Se, V, and Zn). Results for Br, Ce, Sn and Th were obtained only by NAA. Statistical evaluation of the data revealed satisfactory values for As, Hg and Cr. The results and statistical parameters are listed in the appendices I and II. The results were also evaluated as a proficiency test using target values from the literature. Precision and accuracy criteria were applied to 15 elements. 234 laboratory mean values were reported for these elements, 47 values (20%) did not pass the set proficiency test criteria. The individual laboratory results are listed in appendix IV. For the moss sample M-2, 347 laboratory

  7. Infinite fuel element simulation of pin power distributions and control blade history in a BWR fuel assembly

    Energy Technology Data Exchange (ETDEWEB)

    Li, J.; Nuenighoff, K.; Allelein, H.J. [Forschungszentrum Juelich GmbH (DE). Inst. fuer Energie- und Klimaforschung (IEK), Sicherheitsforschung und Reaktortechnik (IEK-6)

    2011-07-01

    Pellet-Cladding Interaction (PCI) is a well known effect in fuel pins. One possible reason for PCI-effects could be local power excursions in the fuel pins, which can led to a rupture of the fuel cladding tube. From a reactor safety point of view this has to be considered as a violence of the barrier principal in order to retain fission products in the fuel pins. This paper focuses on the pin power distributions in a 2D infinite lattice of a BWR fuel element. Lots of studies related PCI effect can be found in the literature. In this compact, coupled neutronic depletion calculations taking the control history effect into account are described. Depletion calculations of an infinite fuel element of a BWR were carried out with controlled, uncontrolled and temporarily controlled scenarios. Later ones are needed to describe the control blade history (CBH) effect. A Monte-Carlo approach is mandatory to simulate the neutron physics. The VESTA code was applied to couple the Monte-Carlo-Code MCNP(X) with the burnup code ORIGEN. Additionally, CASMO-4 is also employed to verify the method of simulation results from VESTA. The cross sections for Monte Carlo and burn-up calculations are derived from ENDF/B-VII.0. (orig.)

  8. Upgraded acceptance criteria from transient thermography control for the W7-X divertor target elements

    Energy Technology Data Exchange (ETDEWEB)

    Missirlian, M. [CEA, IRFM, F-13108 Saint-Paul-Lez-Durance (France)], E-mail: marc.missirlian@cea.fr; Boscary, J. [Max-Planck-Institut fuer Plasmaphysik, Euratom Association, Boltzmannstr. 2, D-85748 Garching (Germany); Guigon, R.; Schlosser, J.; Durocher, A. [CEA, IRFM, F-13108 Saint-Paul-Lez-Durance (France); Greuner, H. [Max-Planck-Institut fuer Plasmaphysik, Euratom Association, Boltzmannstr. 2, D-85748 Garching (Germany)

    2009-06-15

    The commissioning of plasma-facing component fields needs advanced non-destructive methods to detect in a reliable way the defects, which can impair the component performances and/or integrity during operation. Within this framework, CEA developed a dedicated non-destructive examination method based on active infrared thermography (SATIR facility) to inspect the bonding between armour material and metallic heat sink. Used with successful in the commissioning of the toroidal pump limiter of Tore Supra, this technique was applied in the frame of the pre-series activities of the Wendelstein 7-X high heat flux divertor elements to assess the bonding quality of the delivered components. This paper presents the methodology adopted to define an acceptance criterion based on SATIR test bed possibly applied for a serial inspection of the Wendelstein 7-X elements. Using the well-tried acceptance test based on the DTref{sub m}ax parameter, the new method includes advanced data post-processing techniques from thermo-signal SATIR and a data merging method to help the decision-making and to optimise the reliability of the binary response expected for a final decision in terms of acceptance test.

  9. Upgraded acceptance criteria from transient thermography control for the W7-X divertor target elements

    International Nuclear Information System (INIS)

    Missirlian, M.; Boscary, J.; Guigon, R.; Schlosser, J.; Durocher, A.; Greuner, H.

    2009-01-01

    The commissioning of plasma-facing component fields needs advanced non-destructive methods to detect in a reliable way the defects, which can impair the component performances and/or integrity during operation. Within this framework, CEA developed a dedicated non-destructive examination method based on active infrared thermography (SATIR facility) to inspect the bonding between armour material and metallic heat sink. Used with successful in the commissioning of the toroidal pump limiter of Tore Supra, this technique was applied in the frame of the pre-series activities of the Wendelstein 7-X high heat flux divertor elements to assess the bonding quality of the delivered components. This paper presents the methodology adopted to define an acceptance criterion based on SATIR test bed possibly applied for a serial inspection of the Wendelstein 7-X elements. Using the well-tried acceptance test based on the DTref m ax parameter, the new method includes advanced data post-processing techniques from thermo-signal SATIR and a data merging method to help the decision-making and to optimise the reliability of the binary response expected for a final decision in terms of acceptance test.

  10. Preparation and characterization of novel functionalized prochloraz microcapsules using silica-alginate-elements as controlled release carrier materials.

    Science.gov (United States)

    Zhang, Wenbing; He, Shun; Liu, Yao; Geng, Qianqian; Ding, Guanglong; Guo, Mingcheng; Deng, Yufang; Zhu, Juanli; Li, Jianqiang; Cao, Yongsong

    2014-07-23

    Controlled release formulation of pesticides is an effective approach to achieve the desirable purpose of increasing the utilization of pesticides and reducing the environmental residuals. In this work, a novel functionalized microcapsule using silica cross-linked with alginate, and some beneficial elements to crops, was prepared. The microcapsules were structurally characterized by Fourier transform infrared spectroscopy, scanning electron microscopy, thermogravimetric analysis, and X-ray photoelectron spectroscopy. The results showed that the microcapsules had a high loading efficiency of prochloraz (about 30% w/w) and could effectively protect prochloraz against degradation under UV irradiation and alkaline conditions, showed sustainable release for at least 60 days, and also likely increased disease resistance due to the element on the surface. Given the advantages of the microcapsules, this delivery system may be extended to other photosensitive or pH-sensitive pesticides in the future.

  11. Controlled burn and immediate mobilization of potentially toxic elements in soil, from a legacy mine site in Central Victoria, Australia.

    Science.gov (United States)

    Abraham, Joji; Dowling, Kim; Florentine, Singarayer

    2018-03-01

    Conducting controlled burns in fire prone areas is an efficient and economic method for forest management, and provides relief from the incidence of high severity wild fires and the consequent damage to human property and ecosystems. However, similar to wild fires, controlled burns also affect many of the physical and biogeochemical properties of the forest soil and may facilitate remobilization of potentially toxic elements (PTEs) sequestered in vegetation and soil organic matter. The objective of the current study is to investigate the mobilization of PTEs, in Central Victorian forest soils in Australia after a controlled burn. Surface soil samples were collected two days before and after the controlled burn to determine the concentration of PTEs and to examine the physicochemical properties. Results show that As, Cd, Mn, Ni and Zn concentrations increased 1.1, 1.6, 1.7, 1.1 and 1.9 times respectively in the post-burn environment, whereas the concentrations of Hg, Cr and Pb decreased to 0.7, 0.9 and 0.9 times respectively, highlighting considerable PTE mobility during and after a controlled burn. Whilst these results do not identify very strong correlations between physicochemical properties of soil and PTEs in the pre- and post-burn environments, PTEs themselves demonstrated very strong and significant correlations. The mobilization of As, Hg and other toxic elements raise potential health concerns as the number of controlled burns are projected to increase in response to climate change. Due to this increased level of PTE release and remobilization, the use of any kinds of controlled burn must be carefully considered before being used as a forest management strategy in mining-affected landscapes which include areas with high PTE concentrations. Copyright © 2017 Elsevier B.V. All rights reserved.

  12. Discovery of cis-elements between sorghum and rice using co-expression and evolutionary conservation

    Directory of Open Access Journals (Sweden)

    Haberer Georg

    2009-06-01

    Full Text Available Abstract Background The spatiotemporal regulation of gene expression largely depends on the presence and absence of cis-regulatory sites in the promoter. In the economically highly important grass family, our knowledge of transcription factor binding sites and transcriptional networks is still very limited. With the completion of the sorghum genome and the available rice genome sequence, comparative promoter analyses now allow genome-scale detection of conserved cis-elements. Results In this study, we identified thousands of phylogenetic footprints conserved between orthologous rice and sorghum upstream regions that are supported by co-expression information derived from three different rice expression data sets. In a complementary approach, cis-motifs were discovered by their highly conserved co-occurrence in syntenic promoter pairs. Sequence conservation and matches to known plant motifs support our findings. Expression similarities of gene pairs positively correlate with the number of motifs that are shared by gene pairs and corroborate the importance of similar promoter architectures for concerted regulation. This strongly suggests that these motifs function in the regulation of transcript levels in rice and, presumably also in sorghum. Conclusion Our work provides the first large-scale collection of cis-elements for rice and sorghum and can serve as a paradigm for cis-element analysis through comparative genomics in grasses in general.

  13. Ancient Transposable Elements Transformed the Uterine Regulatory Landscape and Transcriptome during the Evolution of Mammalian Pregnancy

    Directory of Open Access Journals (Sweden)

    Vincent J. Lynch

    2015-02-01

    Full Text Available A major challenge in biology is determining how evolutionarily novel characters originate; however, mechanistic explanations for the origin of new characters are almost completely unknown. The evolution of pregnancy is an excellent system in which to study the origin of novelties because mammals preserve stages in the transition from egg laying to live birth. To determine the molecular bases of this transition, we characterized the pregnant/gravid uterine transcriptome from tetrapods to trace the evolutionary history of uterine gene expression. We show that thousands of genes evolved endometrial expression during the origins of mammalian pregnancy, including genes that mediate maternal-fetal communication and immunotolerance. Furthermore, thousands of cis-regulatory elements that mediate decidualization and cell-type identity in decidualized stromal cells are derived from ancient mammalian transposable elements (TEs. Our results indicate that one of the defining mammalian novelties evolved from DNA sequences derived from ancient mammalian TEs co-opted into hormone-responsive regulatory elements distributed throughout the genome.

  14. Thermal analysis of linear pulse motor for SMART control element drive mechanism

    International Nuclear Information System (INIS)

    Hur, H.; Kim, J. H.; Kim, J. I.; Jang, K. C.; Kang, D. H.

    1999-01-01

    It is important that the temperature of the motor windings be maintained within the allowable limit of the insulation, since the linear pulse motor of CEDM is always supplied with current during the reactor operation. In this study three motor windings were fabricated with three different diameters of coil wires, and the temperatures inside the windings were measured with different current values. As the insulation of the windings is composed of teflon, glass fiber, and air, it is not an easy task to determine experimentally the thermal properties of the complex insulation. In this study, the thermal properties of the insulation were obtained by comparing the results of finite element thermal analyses and those of experiment. The thermal properties obtained here will be used as input for the optimization analysis of the motor

  15. Finite element analysis for structural modification and control resonance of a vertical pump

    Directory of Open Access Journals (Sweden)

    Dalia M. El-Gazzar

    2017-12-01

    Full Text Available The main objective of this research was to evaluate and enhance dynamic performance for a vertical pumping unit. The original electric motor of the pump unit had been replaced by another one different in design and weights. Vibration has been increased greatly after installing the new motor. Consequently, it is necessary to estimate the change in the vibration characteristics owing to the difference in the boundary conditions of the new motor. Measured vibration levels and frequency analysis were dangerous at 1× due to resonance problem. Finite Element Analysis was used to model the motor structure in order to find its natural frequencies and mode shapes. The results confirm that the third natural frequency is very close to 1× operating speed with deviation about 1%. To solve the resonance problem, it was recommended to increase the structure stiffness. The results after modifications confirmed that the overall vibration level decreases by 89%. Keywords: Vibration, Vertical pump, Modal analysis

  16. A Novel Approach for Automatic Control of Piezoelectric Elements Used for Lorentz Force Detuning Compensation

    CERN Document Server

    Przygoda, K; Napieralski, A; Grecki, M

    2010-01-01

    Abstract: Linear accelerators such as Free Electron Lasers (FELs) use superconducting (SC) resonant cavities to accelerate electron beam to high energies. TESLA type resonators are extremely sensitive to detuning induced by mechanical deformations – Lorentz force detuning (LFD), mainly due to the extremely high quality factor (Q) of the 1.3 GHz resonance mode, in the range of 1e6. The resulting modulation of a resonance frequency of the cavity makes power consumption and stability performances of the Low-Latency Radio Frequency (LLRF) control more critical. In order to minimize the RF control efforts and desired stabilities, the fast piezoelectric actuators with digital control systems are commonly used. The paper presents a novel approach for automatic control of piezoelectric actuators used for compensation of Lorentz force detuning, the practical application and carried out tests in accelerating module ACC6 in Free-Electron Laser in Hamburg (FLASH).

  17. Critical element study on autonomous position control of articulated-arm type manipulator

    International Nuclear Information System (INIS)

    Oka, Kiyoshi; Kakudate, Satoshi; Nakahira, Masataka

    1994-10-01

    An articulated-arm type manipulator can be operated effectively in a restricted space due to its flexibility and it can be attractive for a wide range of in-vessel maintenance such as viewing, inspection and limiter handling in fusion experimental reactors. In case of the in-vessel maintenance using a flexible manipulator, it is quite essential to develop an autonomous control method for compensating a deflection of manipulator so as to minimize the maintenance time with high precision. For this purpose, a new position control method using a combination of neural network predictor with a rigid inverse kinematics is being developed. The key features of this method are to simplify a kinematics modeling of flexible manipulator, to enable quick position compensation in stead of ordinary large matrix compensation, and to be applicable to a wide variety of manipulator characteristics. A sub-scaled model of flexible manipulator with 4 joints has been fabricated for a benchmark experiments of the autonomous position control. Comparing analytical simulation with experiments using the flexible manipulator, it has been demonstrated that the new position control method gives significant improvement in control performance with high precision in order of a figure. In addition, further optimization can be possible by adding other non-linear predictors such as radial basis function and fuzzy modeling. This paper describes the details of a sub-scaled flexible manipulator and a neural network position control system as well as results of analytical simulation and benchmark experiments. (author)

  18. Definition, technology readiness, and development cost of the orbit transfer vehicle engine integrated control and health monitoring system elements

    Science.gov (United States)

    Cannon, I.; Balcer, S.; Cochran, M.; Klop, J.; Peterson, S.

    1991-01-01

    An Integrated Control and Health Monitoring (ICHM) system was conceived for use on a 20 Klb thrust baseline Orbit Transfer Vehicle (OTV) engine. Considered for space used, the ICHM was defined for reusability requirements for an OTV engine service free life of 20 missions, with 100 starts and a total engine operational time of 4 hours. Functions were derived by flowing down requirements from NASA guidelines, previous OTV engine or ICHM documents, and related contracts. The elements of an ICHM were identified and listed, and these elements were described in sufficient detail to allow estimation of their technology readiness levels. These elements were assessed in terms of technology readiness level, and supporting rationale for these assessments presented. The remaining cost for development of a minimal ICHM system to technology readiness level 6 was estimated. The estimates are within an accuracy range of minus/plus 20 percent. The cost estimates cover what is needed to prepare an ICHM system for use on a focussed testbed for an expander cycle engine, excluding support to the actual test firings.

  19. Effects of trace element concentration on enzyme controlled stable isotope fractionation during aerobic biodegradation of toluene.

    Science.gov (United States)

    Mancini, Silvia A; Hirschorn, Sarah K; Elsner, Martin; Lacrampe-Couloume, Georges; Sleep, Brent E; Edwards, Elizabeth A; Lollar, Barbara Sherwood

    2006-12-15

    The effects of iron concentration on carbon and hydrogen isotopic fractionation during aerobic biodegradation of toluene by Pseudomonas putida mt-2 were investigated using a low iron medium and two different high iron media. Mean carbon enrichment factors (epsilonc) determined using a Rayleigh isotopic model were smaller in culture grown under high iron conditions (epsilonc = -1.7+/-0.1%) compared to low iron conditions (epsilonc = -2.5+/-0.3%). Mean hydrogen enrichment factors (epsilonH) were also significantly smaller for culture grown under high iron conditions (epsilonH = -77 +/-4%) versus low iron conditions (EpsilonH = -159+/-11%). A mechanistic model for enzyme kinetics was used to relate differences in the magnitude of isotopic fractionation for low iron versus high iron cultures to the efficiency of the enzymatic transformation. The increase of carbon and hydrogen enrichment factors at low iron concentrations suggests a slower enzyme-catalyzed substrate conversion step (k2) relative to the enzyme-substrate binding step (k-l) at low iron concentration. While the observed differences were subtle and, hence, do not significantly impact the ability to use stable isotope analysis in the field, these results demonstrated that resolvable differences in carbon and hydrogen isotopic fractionation were related to low and high iron conditions. This novel result highlights the need to further investigate the effects of other trace elements known to be key components of biodegradative enzymes.

  20. Systematic Integrated Process Design and Control of Reactive Distillation Processes Involving Multi-elements

    DEFF Research Database (Denmark)

    Mansouri, Seyed Soheil; Sales-Cruz, Mauricio; Huusom, Jakob Kjøbsted

    2016-01-01

    driving force approach. Next, through analytical, steady-state and closed-loop dynamic analysis it is verified that the control structure, disturbance rejection and energy requirement of the reactive distillation column is better than any other operation point that is not at the maximum driving force...

  1. Instrument for bone mineral measurement using a microprocessor as the control and arithmetic element

    International Nuclear Information System (INIS)

    Alberi, J.L.; Hardy, W.H. II.

    1975-11-01

    A self-contained instrument for the determination of bone mineral content by photon absorptometry is described. A high-resolution detection system allows measurements to be made at up to 16 photon energies. Control and arithmetic functions are performed by a microprocessor. Analysis capability and limitations are discussed

  2. TIG source control system when welding point-by-point the elements of the collector

    International Nuclear Information System (INIS)

    Bica, I.

    1997-01-01

    The paper presents a control system designed to equip the mechanized welding installations of the collector winding. The logical function of the technological process is determined the synthesis of the electric current is made, too. The logical circuit is made in the TTL technique. It presents reliability and safety in service. (Author) 3 refs

  3. Influence of meteorological elements on balance control and pain in patients with symptomatic knee osteoarthritis

    Science.gov (United States)

    Peultier, Laetitia; Lion, Alexis; Chary-Valckenaere, Isabelle; Loeuille, Damien; Zhang, Zheng; Rat, Anne-Christine; Gueguen, René; Paysant, Jean; Perrin, Philippe P.

    2017-05-01

    This study aimed to determine if pain and balance control are related to meteorological modifications in patients with knee osteoarthritis (OA). One hundred and thirteen patients with knee OA (mean age = 65 ± 9 years old, 78 women) participated in this study. Static posturography was performed, sway area covered and sway path traveled by the center of foot pressure being recorded under six standing postural conditions that combine three visual situations (eyes open, eyes closed, vision altered) with two platform situations (firm and foam supports). Knee pain score was assessed using a visual analog scale. Balance control and pain measurements recorded in the morning were correlated with the meteorological data. Morning and daily values for temperature, precipitation, sunshine, height of rain in 1 h, wind speed, humidity, and atmospheric pressure were obtained from the nearest data collecting weather station. The relationship between postural control, pain, and weather variations were assessed for each patient on a given day with multiple linear regressions. A decrease of postural stability was observed when atmospheric pressure and maximum humidity decreased in the morning ( p knee pain was more enhanced when it is warmer in the morning ( p < 0.05) and when it is wetter and warmer within a day ( p < 0.05). The relationship between weather, pain, and postural control can help patients and health professionals to better manage daily activities.

  4. OPTIMIZATION OF THE TEMPERATURE CONTROL SCHEME FOR ROLLER COMPACTED CONCRETE DAMS BASED ON FINITE ELEMENT AND SENSITIVITY ANALYSIS METHODS

    Directory of Open Access Journals (Sweden)

    Huawei Zhou

    2016-10-01

    Full Text Available Achieving an effective combination of various temperature control measures is critical for temperature control and crack prevention of concrete dams. This paper presents a procedure for optimizing the temperature control scheme of roller compacted concrete (RCC dams that couples the finite element method (FEM with a sensitivity analysis method. In this study, seven temperature control schemes are defined according to variations in three temperature control measures: concrete placement temperature, water-pipe cooling time, and thermal insulation layer thickness. FEM is employed to simulate the equivalent temperature field and temperature stress field obtained under each of the seven designed temperature control schemes for a typical overflow dam monolith based on the actual characteristics of a RCC dam located in southwestern China. A sensitivity analysis is subsequently conducted to investigate the degree of influence each of the three temperature control measures has on the temperature field and temperature tensile stress field of the dam. Results show that the placement temperature has a substantial influence on the maximum temperature and tensile stress of the dam, and that the placement temperature cannot exceed 15 °C. The water-pipe cooling time and thermal insulation layer thickness have little influence on the maximum temperature, but both demonstrate a substantial influence on the maximum tensile stress of the dam. The thermal insulation thickness is significant for reducing the probability of cracking as a result of high thermal stress, and the maximum tensile stress can be controlled under the specification limit with a thermal insulation layer thickness of 10 cm. Finally, an optimized temperature control scheme for crack prevention is obtained based on the analysis results.

  5. A synthesis of rates and controls on elemental mercury evasion in the Great Lakes Basin

    International Nuclear Information System (INIS)

    Denkenberger, Joseph S.; Driscoll, Charles T.; Branfireun, Brian A.; Eckley, Chris S.; Cohen, Mark; Selvendiran, Pranesh

    2012-01-01

    Rates of surface-air elemental mercury (Hg 0 ) fluxes in the literature were synthesized for the Great Lakes Basin (GLB). For the majority of surfaces, fluxes were net positive (evasion). Digital land-cover data were combined with representative evasion rates and used to estimate annual Hg 0 evasion for the GLB (7.7 Mg/yr). This value is less than our estimate of total Hg deposition to the area (15.9 Mg/yr), suggesting the GLB is a net sink for atmospheric Hg. The greatest contributors to annual evasion for the basin are agricultural (∼55%) and forest (∼25%) land cover types, and the open water of the Great Lakes (∼15%). Areal evasion rates were similar across most land cover types (range: 7.0–21.0 μg/m 2 -yr), with higher rates associated with urban (12.6 μg/m 2 -yr) and agricultural (21.0 μg/m 2 -yr) lands. Uncertainty in these estimates could be partially remedied through a unified methodological approach to estimating Hg 0 fluxes. - Highlights: ► Considerable variability exists across spatial/temporal scales in Hg 0 evasion rates. ► Methodological approaches vary for estimating and reporting gaseous Hg 0 fluxes. ► Hg 0 evasion from the Great Lakes Basin is estimated at 7.7 Mg/yr (10.2 μg/m 2 -yr). ► Hg flux estimates suggest region is a net sink for atmospheric Hg. ► 95% of Hg 0 evasion in the region is from agriculture, forest, and the Great Lakes. - A synthesis of Hg evasion was conducted and this information was used to develop an estimate of Hg evasion for the Great Lakes Basin.

  6. Particle Swarm-Based Translation Control for Immersed Tunnel Element in the Hong Kong-Zhuhai-Macao Bridge Project

    Science.gov (United States)

    Li, Jun-jun; Yang, Xiao-jun; Xiao, Ying-jie; Xu, Bo-wei; Wu, Hua-feng

    2018-03-01

    Immersed tunnel is an important part of the Hong Kong-Zhuhai-Macao Bridge (HZMB) project. In immersed tunnel floating, translation which includes straight and transverse movements is the main working mode. To decide the magnitude and direction of the towing force for each tug, a particle swarm-based translation control method is presented for non-power immersed tunnel element. A sort of linear weighted logarithmic function is exploited to avoid weak subgoals. In simulation, the particle swarm-based control method is evaluated and compared with traditional empirical method in the case of the HZMB project. Simulation results show that the presented method delivers performance improvement in terms of the enhanced surplus towing force.

  7. Design of linear pulse motor for control element drive mechanism of SMART

    International Nuclear Information System (INIS)

    Kim, J. H.; Huh, H.; Kim, J. I.; Jang, M. H.; Kang, D. H.

    1999-01-01

    49 Control Rod Drive Mechanisms(CEDMs) are densely installed on the reactor central head of SMART. The structural design should ensure the space for maintenance/repair, cable routing, and heat release from the motor. In this paper, an improved design is presented to enlarge the space between CEDMs by decreasing the diameter of linear pulse motor. The reduction of motor thrust force due to the decrease of the motor diameter is compensated by resizing the other structural components

  8. Time-domain finite elements in optimal control with application to launch-vehicle guidance. PhD. Thesis

    Science.gov (United States)

    Bless, Robert R.

    1991-01-01

    A time-domain finite element method is developed for optimal control problems. The theory derived is general enough to handle a large class of problems including optimal control problems that are continuous in the states and controls, problems with discontinuities in the states and/or system equations, problems with control inequality constraints, problems with state inequality constraints, or problems involving any combination of the above. The theory is developed in such a way that no numerical quadrature is necessary regardless of the degree of nonlinearity in the equations. Also, the same shape functions may be employed for every problem because all strong boundary conditions are transformed into natural or weak boundary conditions. In addition, the resulting nonlinear algebraic equations are very sparse. Use of sparse matrix solvers allows for the rapid and accurate solution of very difficult optimization problems. The formulation is applied to launch-vehicle trajectory optimization problems, and results show that real-time optimal guidance is realizable with this method. Finally, a general problem solving environment is created for solving a large class of optimal control problems. The algorithm uses both FORTRAN and a symbolic computation program to solve problems with a minimum of user interaction. The use of symbolic computation eliminates the need for user-written subroutines which greatly reduces the setup time for solving problems.

  9. Finding cis-regulatory modules in Drosophila using phylogenetic hidden Markov models

    DEFF Research Database (Denmark)

    Wong, Wendy S W; Nielsen, Rasmus

    2007-01-01

    MOTIVATION: Finding the regulatory modules for transcription factors binding is an important step in elucidating the complex molecular mechanisms underlying regulation of gene expression. There are numerous methods available for solving this problem, however, very few of them take advantage of th...

  10. Confocal quantification of cis-regulatory reporter gene expression in living sea urchin.

    Science.gov (United States)

    Damle, Sagar; Hanser, Bridget; Davidson, Eric H; Fraser, Scott E

    2006-11-15

    Quantification of GFP reporter gene expression at single cell level in living sea urchin embryos can now be accomplished by a new method of confocal laser scanning microscopy (CLSM). Eggs injected with a tissue-specific GFP reporter DNA construct were grown to gastrula stage and their fluorescence recorded as a series of contiguous Z-section slices that spanned the entire embryo. To measure the depth-dependent signal decay seen in the successive slices of an image stack, the eggs were coinjected with a freely diffusible internal fluorescent standard, rhodamine dextran. The measured rhodamine fluorescence was used to generate a computational correction for the depth-dependent loss of GFP fluorescence per slice. The intensity of GFP fluorescence was converted to the number of GFP molecules using a conversion constant derived from CLSM imaging of eggs injected with a measured quantity of GFP protein. The outcome is a validated method for accurately counting GFP molecules in given cells in reporter gene transfer experiments, as we demonstrate by use of an expression construct expressed exclusively in skeletogenic cells.

  11. Identification of cis-regulatory sequences that activate transcription in the suspensor of plant embryos.

    Science.gov (United States)

    Kawashima, Tomokazu; Wang, Xingjun; Henry, Kelli F; Bi, Yuping; Weterings, Koen; Goldberg, Robert B

    2009-03-03

    Little is known about the molecular mechanisms by which the embryo proper and suspensor of plant embryos activate specific gene sets shortly after fertilization. We analyzed the upstream region of the scarlet runner bean (Phaseolus coccineus) G564 gene to understand how genes are activated specifically within the suspensor during early embryo development. Previously, we showed that the G564 upstream region has a block of tandem repeats, which contain a conserved 10-bp motif (GAAAAG(C)/(T)GAA), and that deletion of these repeats results in a loss of suspensor transcription. Here, we use gain-of-function (GOF) experiments with transgenic globular-stage tobacco embryos to show that only 1 of the 5 tandem repeats is required to drive suspensor-specific transcription. Fine-scale deletion and scanning mutagenesis experiments with 1 tandem repeat uncovered a 54-bp region that contains all of the sequences required to activate transcription in the suspensor, including the 10-bp motif (GAAAAGCGAA) and a similar 10-bp-like motif (GAAAAACGAA). Site-directed mutagenesis and GOF experiments indicated that both the 10-bp and 10-bp-like motifs are necessary, but not sufficient to activate transcription in the suspensor, and that a sequence (TTGGT) between the 10-bp and the 10-bp-like motifs is also necessary for suspensor transcription. Together, these data identify sequences that are required to activate transcription in the suspensor of a plant embryo after fertilization.

  12. Systematic identification of cis-regulatory sequences active in mouse and human embryonic stem cells.

    Directory of Open Access Journals (Sweden)

    Marica Grskovic

    2007-08-01

    Full Text Available Understanding the transcriptional regulation of pluripotent cells is of fundamental interest and will greatly inform efforts aimed at directing differentiation of embryonic stem (ES cells or reprogramming somatic cells. We first analyzed the transcriptional profiles of mouse ES cells and primordial germ cells and identified genes upregulated in pluripotent cells both in vitro and in vivo. These genes are enriched for roles in transcription, chromatin remodeling, cell cycle, and DNA repair. We developed a novel computational algorithm, CompMoby, which combines analyses of sequences both aligned and non-aligned between different genomes with a probabilistic segmentation model to systematically predict short DNA motifs that regulate gene expression. CompMoby was used to identify conserved overrepresented motifs in genes upregulated in pluripotent cells. We show that the motifs are preferentially active in undifferentiated mouse ES and embryonic germ cells in a sequence-specific manner, and that they can act as enhancers in the context of an endogenous promoter. Importantly, the activity of the motifs is conserved in human ES cells. We further show that the transcription factor NF-Y specifically binds to one of the motifs, is differentially expressed during ES cell differentiation, and is required for ES cell proliferation. This study provides novel insights into the transcriptional regulatory networks of pluripotent cells. Our results suggest that this systematic approach can be broadly applied to understanding transcriptional networks in mammalian species.

  13. A SINE-derived element constitutes a unique modular enhancer for mammalian diencephalic Fgf8.

    Directory of Open Access Journals (Sweden)

    Akiko Nakanishi

    Full Text Available Transposable elements, including short interspersed repetitive elements (SINEs, comprise nearly half the mammalian genome. Moreover, they are a major source of conserved non-coding elements (CNEs, which play important functional roles in regulating development-related genes, such as enhancing and silencing, serving for the diversification of morphological and physiological features among species. We previously reported a novel SINE family, AmnSINE1, as part of mammalian-specific CNEs. One AmnSINE1 locus, named AS071, showed an enhancer property in the developing mouse diencephalon. Indeed, AS071 appears to recapitulate the expression of diencephalic fibroblast growth factor 8 (Fgf8. Here we established three independent lines of AS071-transgenic mice and performed detailed expression profiling of AS071-enhanced lacZ in comparison with that of Fgf8 across embryonic stages. We demonstrate that AS071 is a distal enhancer that directs Fgf8 expression in the developing diencephalon. Furthermore, enhancer assays with constructs encoding partially deleted AS071 sequence revealed a unique modular organization in which AS071 contains at least three functionally distinct sub-elements that cooperatively direct the enhancer activity in three diencephalic domains, namely the dorsal midline and the lateral wall of the diencephalon, and the ventral midline of the hypothalamus. Interestingly, the AmnSINE1-derived sub-element was found to specify the enhancer activity to the ventral midline of the hypothalamus. To our knowledge, this is the first discovery of an enhancer element that could be separated into respective sub-elements that determine regional specificity and/or the core enhancing activity. These results potentiate our understanding of the evolution of retroposon-derived cis-regulatory elements as well as the basis for future studies of the molecular mechanism underlying the determination of domain-specificity of an enhancer.

  14. Sequence elements controlling expression of Barley stripe mosaic virus subgenomic RNAs in vivo

    International Nuclear Information System (INIS)

    Johnson, Jennifer A.; Bragg, Jennifer N.; Lawrence, Diane M.; Jackson, Andrew O.

    2003-01-01

    Barley stripe mosaic virus (BSMV) contains three positive-sense, single-stranded genomic RNAs, designated α, β, and γ, that encode seven major proteins and one minor translational readthrough protein. Three proteins (αa, βa, and γa) are translated directly from the genomic RNAs and the remaining proteins encoded on RNAβ and RNAγ are expressed via three subgenomic messenger RNAs (sgRNAs). sgRNAβ1 directs synthesis of the triple gene block 1 (TGB1) protein. The TGB2 protein, the TGB2' minor translational readthrough protein, and the TGB3 protein are expressed from sgRNAβ2, which is present in considerably lower abundance than sgRNAβ1. A third sgRNA, sgRNAγ, is required for expression of the γb protein. We have used deletion analyses and site-specific mutations to define the boundaries of promoter regions that are critical for expression of the BSMV sgRNAs in infected protoplasts. The results reveal that the sgRNAβ1 promoter encompasses positions -29 to -2 relative to its transcription start site and is adjacent to a cis-acting element required for RNAβ replication that maps from -107 to -74 relative to the sgRNAβ1 start site. The core sgRNAβ2 promoter includes residues -32 to -17 relative to the sgRNAβ2 transcriptional start site, although maximal activity requires an upstream hexanucleotide sequence residing from positions -64 to -59. The sgRNAγ promoter maps from -21 to +2 relative to its transcription start site and therefore partially overlaps the γa gene. The sgRNAβ1, β2, and γ promoters also differ substantially in sequence, but have similarities to the putative homologous promoters of other Hordeiviruses. These differences are postulated to affect competition for the viral polymerase, coordination of the temporal expression and abundance of the TGB proteins, and constitutive expression of the γb protein

  15. Elements of automata theory and the theory of Markov chains. [Self-organizing control systems

    Energy Technology Data Exchange (ETDEWEB)

    Lind, M

    1975-03-01

    Selected topics from automata theory and the theory of Markov chains are treated. In particular, finite-memory automata are discussed in detail, and the results are used to formulate an automation model of a class of continuous systems. Stochastic automata are introduced as a natural generalization of the deterministic automaton. Markov chains are shown to be closely related to stochastic automata. Results from Markov chain theory are thereby directly applicable to analysis of stochastic automata. This report provides the theoretical foundation for the investigation in Riso Report No. 315 of a class of self-organizing control systems. (25 figures) (auth)

  16. Modelling of nuclear power plant control and instrumentation elements for automatic disturbance and reliability analysis

    International Nuclear Information System (INIS)

    Hollo, E.

    1985-08-01

    Present Final Report summarizes results of R/D work done within IAEA-VEIKI (Institute for Electrical Power Research, Budapest, Hungary) Research Contract No. 3210 during 3 years' period of 01.08.1982 - 31.08.1985. Chapter 1 lists main research objectives of the project. Main results obtained are summarized in Chapters 2 and 3. Outcomes from development of failure modelling methodologies and their application for C/I components of WWER-440 units are as follows (Chapter 2): improvement of available ''failure mode and effect analysis'' methods and mini-fault tree structures usable for automatic disturbance (DAS) and reliability (RAS) analysis; general classification and determination of functional failure modes of WWER-440 NPP C/I components; set up of logic models for motor operated control valves and rod control/drive mechanism. Results of development of methods and their application for reliability modelling of NPP components and systems cover (Chapter 3): development of an algorithm (computer code COMPREL) for component-related failure and reliability parameter calculation; reliability analysis of PAKS II NPP diesel system; definition of functional requirements for reliability data bank (RDB) in WWER-440 units. Determination of RDB input/output data structure and data manipulation services. Methods used are a-priori failure mode and effect analysis, combined fault tree/event tree modelling technique, structural computer programming, probability theory application to nuclear field

  17. Redox control of rotary motions in ferrocene-based elemental ball bearings.

    Science.gov (United States)

    Iordache, Adriana; Oltean, Mircea; Milet, Anne; Thomas, Fabrice; Baptiste, Benoît; Saint-Aman, Eric; Bucher, Christophe

    2012-02-08

    Rotational motions of ferrocene-based carousels have been achieved by electron transfer centered on π-dimerizable 4,4'-bipyridinium substituents introduced on both cyclopentadienyl rings through covalent linkers of different size, geometry, and flexibility. Detailed spectroscopic, electrochemical, and theoretical analyses demonstrate that rigid and fully conjugated linkers allow the quantitative formation of intramolecular π-dimers resulting from optimized orbital overlaps within the HOMO of the electrochemically generated bis-radical species. The tetra-cationic "charge-repelled" conformers, the self-assembled π-dimers, and their electron triggered interconversions have been investigated by UV-vis, NMR, and ESR spectroscopy, electrochemistry, X-ray diffraction analysis, and theoretical calculations. These studies support the conclusion that the rotation of both cyclopentadienyl rings in ferrocene can be controlled electrochemically using noncovalent reversible interactions arising from π-radical coupling processes.

  18. Partial stabilization and control of distributed parameter systems with elastic elements

    CERN Document Server

    Zuyev, Alexander L

    2015-01-01

     This monograph provides a rigorous treatment of problems related to partial asymptotic stability and controllability for models of flexible structures described by coupled nonlinear ordinary and partial differential equations or equations in abstract spaces. The text is self-contained, beginning with some basic results from the theory of continuous semigroups of operators in Banach spaces. The problem of partial asymptotic stability with respect to a continuous functional is then considered for a class of abstract multivalued systems on a metric space. Next, the results of this study are applied to the study of a rotating body with elastic attachments. Professor Zuyev demonstrates that the equilibrium cannot be made strongly asymptotically stable in the general case, motivating consideration of the problem of partial stabilization with respect to the functional that represents “averaged” oscillations. The book’s focus moves on to spillover analysis for infinite-dimensional systems with finite-dimensio...

  19. The benefits of combining elemental sulfur with a DMI fungicide to control Monilinia fructicola isolates resistant to propiconazole.

    Science.gov (United States)

    Holb, Imre J; Schnabel, Guido

    2008-02-01

    Management of demethylation inhibitor (DMI) fungicide resistance in Monilinia fructicola (G. Winter) Honey is a priority in peach orchards of the southeastern United States, but DMI fungicides are still an important component of antiresistance strategies in view of the few effective alternatives. The goal of this study was to investigate potential benefits of a sulfur/propiconazole mixture for the control of propiconazole-resistant isolates. The mixture provided the best control for propiconazole-resistant isolates, regardless of protective or curative application timings, or the presence or absence of fruit injury. Propiconazole-resistant isolates developed disease on detached fruit after protective or curative applications of propiconazole or its mixture with sulfur, but protective applications of the mixture significantly reduced (P = 0.05) disease symptoms compared with the individual compounds. Additive to slightly synergistic effects were observed for the mixture in protective treatments of peaches inoculated with propiconazole-resistant isolates. The results suggest that the addition of elemental sulfur to a DMI fungicide is likely to be a relatively inexpensive means to improve brown rot control in peach production areas where reduced sensitivity to DMI fungicides is suspected but has not led to noticeable control failure.

  20. Microstructural characterization of stainless steel 17-4 PH used in the control element of PWR-Type reactors submitted to different heat treatments

    International Nuclear Information System (INIS)

    Ferreira, Douglas F.A.; Rezende, Renato P.; Turcarelli, Tiago

    2017-01-01

    The Control Element is a set of mechanical components of pressurized water cooled nuclear reactors (PWR), with the function of modifying the reactivity of the nucleus by insertion and withdrawal of neutron absorptive rod, in order to change the flow of neutrons (power) to the necessary and desired levels. The control element also has a safety function when there is a need to have negative reactivity available to shut down the reactor in normal operating or accident situations. In this situation, the control element descends instantly and inserts the rods with absorptive material into the fuel element thus shutting down the reactor. The control element consists of control rods, which carry the neutron absorption material and is supported by the spider, pin, spring and spring retainer assembly. The control element has some components that need to have high resistance to impacts when the safety function is activated, so the material of this component must have high mechanical strength and toughness. One of the materials in which can be specified for this application is martensitic stainless steel 17- 4PH (UNS 17400). This steel, when subjected to the aging heat treatment, has its mechanical properties altered due to the precipitation of dispersed intermetallic compounds in the matrix. In all heat treatments performed the predominant microstructure is lath martensite. The heat treatment of the 620 °C / 4 h presented lower hardness when compared to the other treatments and when increase time and temperature the material presents Nb precipitates that increase the hardness. (author)

  1. Microstructural characterization of stainless steel 17-4 PH used in the control element of PWR-Type reactors submitted to different heat treatments

    Energy Technology Data Exchange (ETDEWEB)

    Ferreira, Douglas F.A.; Rezende, Renato P.; Turcarelli, Tiago, E-mail: ferreira@marinha.mil.br, E-mail: renato.rezende@marinha.mil.br, E-mail: tiago.turcarelli@marinha.mil.br [Centro Tecnológico da Marinha em São Paulo (DDNM/CTMSP), São Paulo, SP (Brazil). Diretoria de Desenvolvimento Nuclear da Marinha

    2017-07-01

    The Control Element is a set of mechanical components of pressurized water cooled nuclear reactors (PWR), with the function of modifying the reactivity of the nucleus by insertion and withdrawal of neutron absorptive rod, in order to change the flow of neutrons (power) to the necessary and desired levels. The control element also has a safety function when there is a need to have negative reactivity available to shut down the reactor in normal operating or accident situations. In this situation, the control element descends instantly and inserts the rods with absorptive material into the fuel element thus shutting down the reactor. The control element consists of control rods, which carry the neutron absorption material and is supported by the spider, pin, spring and spring retainer assembly. The control element has some components that need to have high resistance to impacts when the safety function is activated, so the material of this component must have high mechanical strength and toughness. One of the materials in which can be specified for this application is martensitic stainless steel 17- 4PH (UNS 17400). This steel, when subjected to the aging heat treatment, has its mechanical properties altered due to the precipitation of dispersed intermetallic compounds in the matrix. In all heat treatments performed the predominant microstructure is lath martensite. The heat treatment of the 620 °C / 4 h presented lower hardness when compared to the other treatments and when increase time and temperature the material presents Nb precipitates that increase the hardness. (author)

  2. Evolutionary origin of Rosaceae-specific active non-autonomous hAT elements and their contribution to gene regulation and genomic structural variation.

    Science.gov (United States)

    Wang, Lu; Peng, Qian; Zhao, Jianbo; Ren, Fei; Zhou, Hui; Wang, Wei; Liao, Liao; Owiti, Albert; Jiang, Quan; Han, Yuepeng

    2016-05-01

    Transposable elements account for approximately 30 % of the Prunus genome; however, their evolutionary origin and functionality remain largely unclear. In this study, we identified a hAT transposon family, termed Moshan, in Prunus. The Moshan elements consist of three types, aMoshan, tMoshan, and mMoshan. The aMoshan and tMoshan types contain intact or truncated transposase genes, respectively, while the mMoshan type is miniature inverted-repeat transposable element (MITE). The Moshan transposons are unique to Rosaceae, and the copy numbers of different Moshan types are significantly correlated. Sequence homology analysis reveals that the mMoshan MITEs are direct deletion derivatives of the tMoshan progenitors, and one kind of mMoshan containing a MuDR-derived fragment were amplified predominately in the peach genome. The mMoshan sequences contain cis-regulatory elements that can enhance gene expression up to 100-fold. The mMoshan MITEs can serve as potential sources of micro and long noncoding RNAs. Whole-genome re-sequencing analysis indicates that mMoshan elements are highly active, and an insertion into S-haplotype-specific F-box gene was reported to cause the breakdown of self-incompatibility in sour cherry. Taken together, all these results suggest that the mMoshan elements play important roles in regulating gene expression and driving genomic structural variation in Prunus.

  3. Darwin revisited: The vagus nerve is a causal element in controlling recognition of other's emotions.

    Science.gov (United States)

    Colzato, Lorenza S; Sellaro, Roberta; Beste, Christian

    2017-07-01

    Charles Darwin proposed that via the vagus nerve, the tenth cranial nerve, emotional facial expressions are evolved, adaptive and serve a crucial communicative function. In line with this idea, the later-developed polyvagal theory assumes that the vagus nerve is the key phylogenetic substrate that regulates emotional and social behavior. The polyvagal theory assumes that optimal social interaction, which includes the recognition of emotion in faces, is modulated by the vagus nerve. So far, in humans, it has not yet been demonstrated that the vagus plays a causal role in emotion recognition. To investigate this we employed transcutaneous vagus nerve stimulation (tVNS), a novel non-invasive brain stimulation technique that modulates brain activity via bottom-up mechanisms. A sham/placebo-controlled, randomized cross-over within-subjects design was used to infer a causal relation between the stimulated vagus nerve and the related ability to recognize emotions as indexed by the Reading the Mind in the Eyes Test in 38 healthy young volunteers. Active tVNS, compared to sham stimulation, enhanced emotion recognition for easy items, suggesting that it promoted the ability to decode salient social cues. Our results confirm that the vagus nerve is causally involved in emotion recognition, supporting Darwin's argumentation. Copyright © 2017 Elsevier Ltd. All rights reserved.

  4. G-quadruplexes as novel cis-elements controlling transcription during embryonic development.

    Science.gov (United States)

    David, Aldana P; Margarit, Ezequiel; Domizi, Pablo; Banchio, Claudia; Armas, Pablo; Calcaterra, Nora B

    2016-05-19

    G-quadruplexes are dynamic structures folded in G-rich single-stranded DNA regions. These structures have been recognized as a potential nucleic acid based mechanism for regulating multiple cellular processes such as replication, transcription and genomic maintenance. So far, their transcriptional role in vivo during vertebrate embryonic development has not yet been addressed. Here, we performed an in silico search to find conserved putative G-quadruplex sequences (PQSs) within proximal promoter regions of human, mouse and zebrafish developmental genes. Among the PQSs able to fold in vitro as G-quadruplex, those present in nog3, col2a1 and fzd5 promoters were selected for further studies. In cellulo studies revealed that the selected G-quadruplexes affected the transcription of luciferase controlled by the SV40 nonrelated promoter. G-quadruplex disruption in vivo by microinjection in zebrafish embryos of either small ligands or DNA oligonucleotides complementary to the selected PQSs resulted in lower transcription of the targeted genes. Moreover, zebrafish embryos and larvae phenotypes caused by the presence of complementary oligonucleotides fully resembled those ones reported for nog3, col2a1 and fzd5 morphants. To our knowledge, this is the first work revealing in vivo the role of conserved G-quadruplexes in the embryonic development, one of the most regulated processes of the vertebrates biology. © The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.

  5. Parameter optimization of measuring and control elements in the monitoring systems of complex technical objects

    Science.gov (United States)

    Nekrylov, Ivan; Korotaev, Valery; Blokhina, Anastasia; Kleshchenok, Maksim

    2017-06-01

    In the world is the widespread adoption of measuring equipment of new generation, which is characterized by small size, high automation level, a multi-channel, digital filtering, satellite synchronization, wireless communication, digital record in long-term memory with great resource, powered by long-lived sources, etc. However, modern equipment base of the Russian institutions and the level of development of technical facilities and measuring technologies lag far behind developed countries. For this reason, the vacated niches are actively developed by foreign companies. For example, more than 70% instrumentation performing works on the territory of Russia, equipped with imported equipment (products of Sweden and Germany companies); the amount of work performed with German equipment is more than 70% of the total volume of these works; more than 80% of industrial measurements are performed using HEXAGON equipment (Sweden). These trends show that the Russian sector of measuring technology gradually become import-dependent, which poses a threat to the economic security of the country and consistent with national priorities. The results of the research will allow to develop the theory of formation of control systems of the displacement with high accuracy and unattainable for the existing analogue ergonomic and weight characteristics combined with a comparable or lower cost. These advantages will allow you to be successful competition, and eventually to supplant the existing system, which had no fundamental changes in the last 20 years and, therefore, retained all the drawbacks: large size and weight, high power consumption, the dependence on magnetic fields

  6. Transcription Profiling Demonstrates Epigenetic Control of Non-retroviral RNA Virus-Derived Elements in the Human Genome

    Directory of Open Access Journals (Sweden)

    Kozue Sofuku

    2015-09-01

    Full Text Available Endogenous bornavirus-like nucleoprotein elements (EBLNs are DNA sequences in vertebrate genomes formed by the retrotransposon-mediated integration of ancient bornavirus sequence. Thus, EBLNs evidence a mechanism of retrotransposon-mediated RNA-to-DNA information flow from environment to animals. Although EBLNs are non-transposable, they share some features with retrotransposons. Here, to test whether hosts control the expression of EBLNs similarly to retrotransposons, we profiled the transcription of all Homo sapiens EBLNs (hsEBLN-1 to hsEBLN-7. We could detect transcription of all hsEBLNs in at least one tissue. Among them, hsEBLN-1 is transcribed almost exclusively in the testis. In most tissues, expression from the hsEBLN-1 locus is silenced epigenetically. Finally, we showed the possibility that hsEBLN-1 integration at this locus affects the expression of a neighboring gene. Our results suggest that hosts regulate the expression of endogenous non-retroviral virus elements similarly to how they regulate the expression of retrotransposons, possibly contributing to new transcripts and regulatory complexity to the human genome.

  7. Binding of TFIIIC to sine elements controls the relocation of activity-dependent neuronal genes to transcription factories.

    Directory of Open Access Journals (Sweden)

    Luca Crepaldi

    Full Text Available In neurons, the timely and accurate expression of genes in response to synaptic activity relies on the interplay between epigenetic modifications of histones, recruitment of regulatory proteins to chromatin and changes to nuclear structure. To identify genes and regulatory elements responsive to synaptic activation in vivo, we performed a genome-wide ChIPseq analysis of acetylated histone H3 using somatosensory cortex of mice exposed to novel enriched environmental (NEE conditions. We discovered that Short Interspersed Elements (SINEs located distal to promoters of activity-dependent genes became acetylated following exposure to NEE and were bound by the general transcription factor TFIIIC. Importantly, under depolarizing conditions, inducible genes relocated to transcription factories (TFs, and this event was controlled by TFIIIC. Silencing of the TFIIIC subunit Gtf3c5 in non-stimulated neurons induced uncontrolled relocation to TFs and transcription of activity-dependent genes. Remarkably, in cortical neurons, silencing of Gtf3c5 mimicked the effects of chronic depolarization, inducing a dramatic increase of both dendritic length and branching. These findings reveal a novel and essential regulatory function of both SINEs and TFIIIC in mediating gene relocation and transcription. They also suggest that TFIIIC may regulate the rearrangement of nuclear architecture, allowing the coordinated expression of activity-dependent neuronal genes.

  8. Binding of TFIIIC to sine elements controls the relocation of activity-dependent neuronal genes to transcription factories.

    Science.gov (United States)

    Crepaldi, Luca; Policarpi, Cristina; Coatti, Alessandro; Sherlock, William T; Jongbloets, Bart C; Down, Thomas A; Riccio, Antonella

    2013-01-01

    In neurons, the timely and accurate expression of genes in response to synaptic activity relies on the interplay between epigenetic modifications of histones, recruitment of regulatory proteins to chromatin and changes to nuclear structure. To identify genes and regulatory elements responsive to synaptic activation in vivo, we performed a genome-wide ChIPseq analysis of acetylated histone H3 using somatosensory cortex of mice exposed to novel enriched environmental (NEE) conditions. We discovered that Short Interspersed Elements (SINEs) located distal to promoters of activity-dependent genes became acetylated following exposure to NEE and were bound by the general transcription factor TFIIIC. Importantly, under depolarizing conditions, inducible genes relocated to transcription factories (TFs), and this event was controlled by TFIIIC. Silencing of the TFIIIC subunit Gtf3c5 in non-stimulated neurons induced uncontrolled relocation to TFs and transcription of activity-dependent genes. Remarkably, in cortical neurons, silencing of Gtf3c5 mimicked the effects of chronic depolarization, inducing a dramatic increase of both dendritic length and branching. These findings reveal a novel and essential regulatory function of both SINEs and TFIIIC in mediating gene relocation and transcription. They also suggest that TFIIIC may regulate the rearrangement of nuclear architecture, allowing the coordinated expression of activity-dependent neuronal genes.

  9. Effect of leafhopper Arboridiakurdistanisp.nov on the some grape leaves elements and its chemical control

    Science.gov (United States)

    Amin, Abdulbaset Mohammed; Younis, Sara Dasco

    2017-09-01

    The leafhopper Arboridiakurdistanisucking leaves sap and causes decrease of nitrogen in leaves and lead to inhabiting the chlorophyll then decrease the rate of photosynthesis and drying of the leaf. Chemical analysis of plant leaves showed the decreasing of Nitrogen content and gave the means in July, August and September 2.699%, 2.531% and 2.063% respectively, The phosphors rate is decrease in infested leaves, the mean of phosphors content in infested leaves in July, August and September were 0.532ppm, 0.496ppm and 0.361ppm respectively. At the time of protein is decreased in grape leaves the plants should delay in growth, the proteins content were 16.865%, 15.814% and 14.689%, while the potassium content in infested grape leave in July, August and September were 0.509%, 0.509% and 0.394% respectively. The chemical control showed that the best insecticide was Actara which gave 23.33% mortality for 48hours at 0.5gm/gallon water and raised to 90.00% at rate of 1.5gm/gallon water, Marshal gave 13.33% and 80.00% after 48 hours at rate of 0.5 and 1.5gm/gallon water respectively, but Spear gave 6.67% and 33.33% after 48 hours at 0.5% and 1.5gm/gallon water respectively. Based on LC50 Value, Actara proved to be more effective than Marshal and Spear.

  10. VlincRNAs controlled by retroviral elements are a hallmark of pluripotency and cancer.

    Science.gov (United States)

    St Laurent, Georges; Shtokalo, Dmitry; Dong, Biao; Tackett, Michael R; Fan, Xiaoxuan; Lazorthes, Sandra; Nicolas, Estelle; Sang, Nianli; Triche, Timothy J; McCaffrey, Timothy A; Xiao, Weidong; Kapranov, Philipp

    2013-07-22

    The function of the non-coding portion of the human genome remains one of the most important questions of our time. Its vast complexity is exemplified by the recent identification of an unusual and notable component of the transcriptome - very long intergenic non-coding RNAs, termed vlincRNAs. Here we identify 2,147 vlincRNAs covering 10 percent of our genome. We show they are present not only in cancerous cells, but also in primary cells and normal human tissues, and are controlled by canonical promoters. Furthermore, vlincRNA promoters frequently originate from within endogenous retroviral sequences. Strikingly, the number of vlincRNAs expressed from endogenous retroviral promoters strongly correlates with pluripotency or the degree of malignant transformation. These results suggest a previously unknown connection between the pluripotent state and cancer via retroviral repeat-driven expression of vlincRNAs. Finally, we show that vlincRNAs can be syntenically conserved in humans and mouse and their depletion using RNAi can cause apoptosis in cancerous cells. These intriguing observations suggest that vlincRNAs could create a framework that combines many existing short ESTs and lincRNAs into a landscape of very long transcripts functioning in the regulation of gene expression in the nucleus. Certain types of vlincRNAs participate at specific stages of normal development and, based on analysis of a limited set of cancerous and primary cell lines, they appear to be co-opted by cancer-associated transcriptional programs. This provides additional understanding of transcriptome regulation during the malignant state, and could lead to additional targets and options for its reversal.

  11. American National Standard ANSI/ANS-8.15-1983: Nuclear criticality control of special actinide elements

    International Nuclear Information System (INIS)

    Brewer, R.W.; Pruvost, N.L.; Rombough, C.T.

    1996-01-01

    The American National Standard, 'Nuclear Criticality Safety in Operations with Fissionable Materials Outside Reactors' ANSI/ANS-8.1- 1983 provides guidance for the nuclides [sup 233]U, [sup 235]U, and [sup 239]Pu These three nuclides are of primary interest in out-of-reactor criticality safety since they are the most commonly encountered in the vast majority of operations. However, some operations can involve nuclides other than 'U, 'U, and 'Pu in sufficient quantities that their effect on criticality safety could be of concern. The American National Standard, 'Nuclear Criticality Control of Special Actinide Elements' ANSI/ANS-8.'15-1983 (Ref 2), provides guidance for fifteen such nuclides

  12. Adaptive finite element analysis of incompressible viscous flow using posteriori error estimation and control of node density distribution

    International Nuclear Information System (INIS)

    Yashiki, Taturou; Yagawa, Genki; Okuda, Hiroshi

    1995-01-01

    The adaptive finite element method based on an 'a posteriori error estimation' is known to be a powerful technique for analyzing the engineering practical problems, since it excludes the instinctive aspect of the mesh subdivision and gives high accuracy with relatively low computational cost. In the adaptive procedure, both the error estimation and the mesh generation according to the error estimator are essential. In this paper, the adaptive procedure is realized by the automatic mesh generation based on the control of node density distribution, which is decided according to the error estimator. The global percentage error, CPU time, the degrees of freedom and the accuracy of the solution of the adaptive procedure are compared with those of the conventional method using regular meshes. Such numerical examples as the driven cavity flows of various Reynolds numbers and the flows around a cylinder have shown the very high performance of the proposed adaptive procedure. (author)

  13. Differential trypanosome surface coat regulation by a CCCH protein that co-associates with procyclin mRNA cis-elements.

    Directory of Open Access Journals (Sweden)

    Pegine Walrad

    2009-02-01

    Full Text Available The genome of Trypanosoma brucei is unusual in being regulated almost entirely at the post-transcriptional level. In terms of regulation, the best-studied genes are procyclins, which encode a family of major surface GPI-anchored glycoproteins (EP1, EP2, EP3, GPEET that show differential expression in the parasite's tsetse-fly vector. Although procyclin mRNA cis-regulatory sequences have provided the paradigm for post-transcriptional control in kinetoplastid parasites, trans-acting regulators of procyclin mRNAs are unidentified, despite intensive effort over 15 years. Here we identify the developmental regulator, TbZFP3, a CCCH-class predicted RNA binding protein, as an isoform-specific regulator of Procyclin surface coat expression in trypanosomes. We demonstrate (i that endogenous TbZFP3 shows sequence-specific co-precipitation of EP1 and GPEET, but not EP2 and EP3, procyclin mRNA isoforms, (ii that ectopic overexpression of TbZFP3 does not perturb the mRNA abundance of procyclin transcripts, but rather that (iii their protein expression is regulated in an isoform-specific manner, as evidenced by mass spectrometric analysis of the Procyclin expression signature in the transgenic cell lines. The TbZFP3 mRNA-protein complex (TbZFP3mRNP is identified as a trans-regulator of differential surface protein expression in trypanosomes. Moreover, its sequence-specific interactions with procyclin mRNAs are compatible with long-established predictions for Procyclin regulation. Combined with the known association of TbZFP3 with the translational apparatus, this study provides a long-sought missing link between surface protein cis-regulatory signals and the gene expression machinery in trypanosomes.

  14. Gas-Phase Synthesis of Bimetallic Oxide Nanoparticles with Designed Elemental Compositions for Controlling the Explosive Reactivity of Nanoenergetic Materials

    Directory of Open Access Journals (Sweden)

    Ji Young Ahn

    2011-01-01

    Full Text Available We demonstrate a simple and viable method for controlling the energy release rate and pressurization rate of nanoenergetic materials by controlling the relative elemental compositions of oxidizers. First, bimetallic oxide nanoparticles (NPs with a homogeneous distribution of two different oxidizer components (CuO and Fe2O3 were generated by a conventional spray pyrolysis method. Next, the Al NPs employed as a fuel were mixed with CuO-Fe2O3 bimetallic oxide NPs by an ultrasonication process in ethanol solution. Finally, after the removal of ethanol by a drying process, the NPs were converted into energetic materials (EMs. The effects of the mass fraction of CuO in the CuO-Fe2O3 bimetallic oxide NPs on the explosive reactivity of the resulting EMs were examined by using a differential scanning calorimeter and pressure cell tester (PCT systems. The results clearly indicate that the energy release rate and pressurization rate of EMs increased linearly as the mass fraction of CuO in the CuO-Fe2O3 bimetallic oxide NPs increased. This suggests that the precise control of the stoichiometric proportions of the strong oxidizer (CuO and mild oxidizer (Fe2O3 components in the bimetallic oxide NPs is a key factor in tuning the explosive reactivity of EMs.

  15. Prenatal exposure of mice to diethylstilbestrol disrupts T-cell differentiation by regulating Fas/Fas ligand expression through estrogen receptor element and nuclear factor-κB motifs.

    Science.gov (United States)

    Singh, Narendra P; Singh, Udai P; Nagarkatti, Prakash S; Nagarkatti, Mitzi

    2012-11-01

    Prenatal exposure to diethylstilbestrol (DES) is known to cause altered immune functions and increased susceptibility to autoimmune disease in humans. In the current study, we investigated the effect of prenatal exposure to DES on thymocyte differentiation involving apoptotic pathways. Prenatal DES exposure caused thymic atrophy, apoptosis, and up-regulation of Fas and Fas ligand (FasL) expression in thymocytes. To examine the mechanism underlying DES-mediated regulation of Fas and FasL, we performed luciferase assays using T cells transfected with luciferase reporter constructs containing full-length Fas or FasL promoters. There was significant luciferase induction in the presence of Fas or FasL promoters after DES exposure. Further analysis demonstrated the presence of several cis-regulatory motifs on both Fas and FasL promoters. When DES-induced transcription factors were analyzed, estrogen receptor element (ERE), nuclear factor κB (NF-κB), nuclear factor of activated T cells (NF-AT), and activator protein-1 motifs on the Fas promoter, as well as ERE, NF-κB, and NF-AT motifs on the FasL promoter, showed binding affinity with the transcription factors. Electrophoretic mobility-shift assays were performed to verify the binding affinity of cis-regulatory motifs of Fas or FasL promoters with transcription factors. There was shift in mobility of probes (ERE or NF-κB2) of both Fas and FasL in the presence of nuclear proteins from DES-treated cells, and the shift was specific to DES because these probes failed to shift their mobility in the presence of nuclear proteins from vehicle-treated cells. Together, the current study demonstrates that prenatal exposure to DES triggers significant alterations in apoptotic molecules expressed on thymocytes, which may affect T-cell differentiation and cause long-term effects on the immune functions.

  16. Fabrication, fabrication control and in-core follow up of 4 LEU leader fuel elements based on U3Si2 in RECH-1

    International Nuclear Information System (INIS)

    Chavez, J.C.; Barrera, M.; Olivares, L.; Lisboa, J.

    1999-01-01

    The RECH-1 MTR reactor has been converted from HEU to MEU (45% enrichment) and the decision to a LEU (20% enrichment) conversion was taken some years ago. This LEU conversion decision involved a local fuel development and fabrication based on U 3 Si 2 -Al dispersion fuel, and a fabrication qualification stage that resulted in four fuel elements fully complying with established fabrication standards for this type of fuel. This report-presents relevant points of these four leaders fuel elements fabrication, in particular a fuel plate core homogeneity control development. A summary of the intended in core follow-up studies for the leaders fuel elements is also presented here. (author)

  17. Structure-aided prediction of mammalian transcription factor complexes in conserved non-coding elements

    KAUST Repository

    Guturu, H.

    2013-11-11

    Mapping the DNA-binding preferences of transcription factor (TF) complexes is critical for deciphering the functions of cis-regulatory elements. Here, we developed a computational method that compares co-occurring motif spacings in conserved versus unconserved regions of the human genome to detect evolutionarily constrained binding sites of rigid TF complexes. Structural data were used to estimate TF complex physical plausibility, explore overlapping motif arrangements seldom tackled by non-structure-aware methods, and generate and analyse three-dimensional models of the predicted complexes bound to DNA. Using this approach, we predicted 422 physically realistic TF complex motifs at 18% false discovery rate, the majority of which (326, 77%) contain some sequence overlap between binding sites. The set of mostly novel complexes is enriched in known composite motifs, predictive of binding site configurations in TF-TF-DNA crystal structures, and supported by ChIP-seq datasets. Structural modelling revealed three cooperativity mechanisms: direct protein-protein interactions, potentially indirect interactions and \\'through-DNA\\' interactions. Indeed, 38% of the predicted complexes were found to contain four or more bases in which TF pairs appear to synergize through overlapping binding to the same DNA base pairs in opposite grooves or strands. Our TF complex and associated binding site predictions are available as a web resource at http://bejerano.stanford.edu/complex.

  18. Structure-aided prediction of mammalian transcription factor complexes in conserved non-coding elements

    KAUST Repository

    Guturu, H.; Doxey, A. C.; Wenger, A. M.; Bejerano, G.

    2013-01-01

    Mapping the DNA-binding preferences of transcription factor (TF) complexes is critical for deciphering the functions of cis-regulatory elements. Here, we developed a computational method that compares co-occurring motif spacings in conserved versus unconserved regions of the human genome to detect evolutionarily constrained binding sites of rigid TF complexes. Structural data were used to estimate TF complex physical plausibility, explore overlapping motif arrangements seldom tackled by non-structure-aware methods, and generate and analyse three-dimensional models of the predicted complexes bound to DNA. Using this approach, we predicted 422 physically realistic TF complex motifs at 18% false discovery rate, the majority of which (326, 77%) contain some sequence overlap between binding sites. The set of mostly novel complexes is enriched in known composite motifs, predictive of binding site configurations in TF-TF-DNA crystal structures, and supported by ChIP-seq datasets. Structural modelling revealed three cooperativity mechanisms: direct protein-protein interactions, potentially indirect interactions and 'through-DNA' interactions. Indeed, 38% of the predicted complexes were found to contain four or more bases in which TF pairs appear to synergize through overlapping binding to the same DNA base pairs in opposite grooves or strands. Our TF complex and associated binding site predictions are available as a web resource at http://bejerano.stanford.edu/complex.

  19. Optimizing critical source control of five priority-regulatory trace elements from industrial wastewater in China: Implications for health management.

    Science.gov (United States)

    Wu, Wenjun; Wang, Jinnan; Yu, Yang; Jiang, Hongqiang; Liu, Nianlei; Bi, Jun; Liu, Miaomiao

    2018-04-01

    Anthropogenic emissions of toxic trace elements (TEs) have caused worldwide concern due to their adverse effects on human health and ecosystems. Based on a stochastic simulation of factors' probability distribution, we established a bottom-up model to estimate the amounts of five priority-regulatory TEs released to aquatic environments from industrial processes in China. Total TE emissions in China in 2010 were estimated at approximately 2.27 t of Hg, 310.09 t of As, 318.17 t of Pb, 79.72 t of Cd, and 1040.32 t of Cr. Raw chemicals, smelting, and mining were the leading sources of TE emissions. There are apparent regional differences in TE pollution. TE emissions are much higher in eastern and central China than in the western provinces and are higher in the south than in the north. This spatial distribution was characterized in detail by allocating the emissions to 10 km × 10 km grid cells. Furthermore, the risk control for the overall emission grid was optimized according to each cell's emission and risk rank. The results show that to control 80% of TE emissions from major sources, the number of top-priority control cells would be between 200 and 400, and less than 10% of the total population would be positively affected. Based on TE risk rankings, decreasing the population weighted risk would increase the number of controlled cells by a factor of 0.3-0.5, but the affected population would increase by a factor of 0.8-1.5. In this case, the adverse effects on people's health would be reduced significantly. Finally, an optimized strategy to control TE emissions is proposed in terms of a cost-benefit trade-off. The estimates in this paper can be used to help establish a regional TE inventory and cyclic simulation, and it can also play supporting roles in minimizing TE health risks and maximizing resilience. Copyright © 2018 Elsevier Ltd. All rights reserved.

  20. Element composition and mineralogical characterisation of air pollution control residue from UK energy-from-waste facilities

    Energy Technology Data Exchange (ETDEWEB)

    Bogush, Anna [Centre for Resource Efficiency & the Environment (CREE), Department of Civil, Environmental & Geomatic Engineering (CEGE), University College London UCL, Chadwick Building, Gower Street, London WC1E 6BT (United Kingdom); Stegemann, Julia A., E-mail: j.stegemann@ucl.ac.uk [Centre for Resource Efficiency & the Environment (CREE), Department of Civil, Environmental & Geomatic Engineering (CEGE), University College London UCL, Chadwick Building, Gower Street, London WC1E 6BT (United Kingdom); Wood, Ian [Department of Earth Sciences, University College London UCL, Gower Street, London WC1E 6BT (United Kingdom); Roy, Amitava [J. Bennett Johnston, Sr., Center for Advanced Microstructures & Devices, Louisiana State University, 6980 Jefferson Hwy, Baton Rouge, LA 70806 (United States)

    2015-02-15

    Highlights: • 66 elements, including “critical strategic elements” were determined in UK EfW APC residues. • Metal pollutants (Zn, Pb, As, Cd, Cu, Mo, Sb, Sn, Se, Ag and In) are enriched in APC residues. • Metal pollutants were widely associated with fine deposits of highly soluble CaCl{sub x}OH{sub 2−x}. • Specific metal (Zn, Pb, Cu)-bearing minerals were also detected in APC residues. - Abstract: Air pollution control (APC) residues from energy-from-waste (EfW) are alkaline (corrosive) and contain high concentrations of metals, such as zinc and lead, and soluble salts, such as chlorides and sulphates. The EPA 3050B-extractable concentrations of 66 elements, including critical elements of strategic importance for advanced electronics and energy technologies, were determined in eight APC residues from six UK EfW facilities. The concentrations of Ag (6–15 mg/kg) and In (1–13 mg/kg), as well as potential pollutants, especially Zn (0.26–0.73 wt.%), Pb (0.05–0.2 wt.%), As, Cd, Cu, Mo, Sb, Sn and Se were found to be enriched in all APC residues compared to average crustal abundances. Results from a combination of scanning electron microscopy with energy dispersive X-ray spectroscopy and also powder X-ray diffraction, thermal analysis and Fourier transform infrared spectroscopy give an exceptionally full understanding of the mineralogy of these residues, which is discussed in the context of other results in the literature. The present work has shown that the bulk of the crystalline phases present in the investigated APC residues include Ca-based phases, such as CaCl{sub x}OH{sub 2−x}, CaCO{sub 3}, Ca(OH){sub 2}, CaSO{sub 4}, and CaO, as well as soluble salts, such as NaCl and KCl. Poorly-crystalline aragonite was identified by FTIR. Sulphur appears to have complex redox speciation, presenting as both anhydrite and hannebachite in some UK EfW APC residues. Hazardous elements (Zn and Pb) were widely associated with soluble Ca- and Cl-bearing phases

  1. Estrogen-dependent downregulation of hairy and enhancer of split homolog-1 gene expression in breast cancer cells is mediated via a 3' distal element.

    Science.gov (United States)

    Müller, Patrick; Merrell, Kenneth W; Crofts, Justin D; Rönnlund, Caroline; Lin, Chin-Yo; Gustafsson, Jan-Ake; Ström, Anders

    2009-03-01

    Regulation of hairy and enhancer of split homologue-1 (HES-1) by estradiol and all-trans retinoic acid affects proliferation of human breast cancer cells. Here, we identify and characterize cis-regulatory elements involved in HES-1 regulation. In the distal 5' promoter of the HES-1 gene, we found a retinoic acid response element and in the distal 3' region, an estrogen receptor alpha(ER)alpha binding site. The ERalpha binding site, composed of an estrogen response element (ERE) and an ERE half-site, is important for both ERalpha binding and transcriptional regulation. Chromatin immunoprecipitation assays revealed that ERalpha is recruited to the ERE and associates with the HES-1 promoter. We also show recruitment of nuclear receptor co-regulators to the ERE in response to estradiol, followed by a decrease in histone acetylation and RNA polymerase II docking in the HES-1 promoter region. Our findings are consistent with a novel type of repressive estrogen response element in the distal 3' region of the HES-1 gene.

  2. Control Methods Used in the Department of Metallurgy for Structure and Fuel Elements; Methodes de Controle Utilisees au Departement de Metallurgie pour les Elements de Structure et les Elements Combustibles; Metody kontrolya struktury toplivnykh ehlementov v departamente metallurgii; Metodos de Control Utilizados en el Departamento de Metalurgia para los Elementos Estructurales y Combustibles

    Energy Technology Data Exchange (ETDEWEB)

    Destribats, Marie-Therese; Allain, C.; Prot, A.; Thome, P. [Centre d' Etudes Nucleaires de Saclay (France)

    1965-09-15

    nombreuses methodes de controle non destructif pour les differents materiaux entrant dans leur realisation, en particulier: radiographie et gammagraphie, methodes ultrasonores et courants de Foucault. Le memoire decrit les controles effectues au cours de la fabrication des reacteurs des filieres EDF (graphite- gaz) et EL4 (eau lourde) et des elements colamines. Les auteurs insistent sur quelques points caracteristiques de ces diverses methodes, dont certaines sont bien connues. Filiere EDF: mesure des epaisseurs des parois des tubes en uranium ou uranium allie, par ultrasons; recherche des cavites de ces tubes, par gammagraphie; controle des traitements thermiques de ces tubes, par ultrasons; recherche des defauts (inclusions, criques), par ultrasons dans les billettes et ebauches des gaines en MgZr; controle de l'etancheite des cartouches, par ressuage d'helium. Filiere EL 4: mesure des epaisseurs des parois des tubes de force, et de guidage en Zircaloy, par ultrasons et courants de Foucault; examen des tubes de force en Zircaloy et tube de gaine en acier inoxydable par ultrasons; radiographie sous vide des gaines en Be; controle d'etancheite des crayons, par ressuage d'helium. Elements colamines : mesure de l'epaisseur des gaines, par courants de Foucault puises; recherche de la position de l'ame sur tubes et plaques, par radiographie, comptage gamma et courants de Foucault puises; controle de l'homogeneite.du combustible, par comptage gamma; detection des defauts dans les billettes en ZrU, par ultrasons et gammagraphie; recherche des zones decollees des plaques, par ultrasons, courants de Foucault puises et mesure de resistivite. Ces mises au point ont ete faites en vue de leur utilisation industrielle. Plusieurs de ces controles sont effectues couramment en cours de fabrication, d'autres le seront prochainement et certains sont susceptibles de l'etre a plus longue echeance. (author) [Spanish] Los estudios del Commissariat a l'Energie Atomique sobre diversos tipos de

  3. Expression of the CDR1 efflux pump in clinical Candida albicans isolates is controlled by a negative regulatory element

    International Nuclear Information System (INIS)

    Gaur, Naseem Akhtar; Manoharlal, Raman; Saini, Preeti; Prasad, Tulika; Mukhopadhyay, Gauranga; Hoefer, Milan; Morschhaeuser, Joachim; Prasad, Rajendra

    2005-01-01

    Resistance to azole antifungal drugs in clinical isolates of the human fungal pathogen Candida albicans is often caused by constitutive overexpression of the CDR1 gene, which encodes a multidrug efflux pump of the ABC transporter superfamily. To understand the relevance of a recently identified negative regulatory element (NRE) in the CDR1 promoter for the control of CDR1 expression in the clinical scenario, we investigated the effect of mutation or deletion of the NRE on CDR1 expression in two matched pairs of azole-sensitive and resistant clinical isolates of C. albicans. Expression of GFP or lacZ reporter genes from the wild type CDR1 promoter was much higher in the azole-resistant C. albicans isolates than in the azole-susceptible isolates, reflecting the known differences in CDR1 expression in these strains. Deletion or mutation of the NRE resulted in enhanced reporter gene expression in azole-sensitive strains, but did not further increase the already high CDR1 promoter activity in the azole-resistant strains. In agreement with these findings, electrophoretic mobility shift assays showed a reduced binding to the NRE of nuclear extracts from the resistant C. albicans isolates as compared with extracts from the sensitive isolates. These results demonstrate that the NRE is involved in maintaining CDR1 expression at basal levels and that this repression is overcome in azole-resistant clinical C. albicans isolates, resulting in constitutive CDR1 overexpression and concomitant drug resistance

  4. Torque Control During Intrusion on Upper Central Incisor in Labial and Lingual bracket System - A 3D Finite Element Study.

    Science.gov (United States)

    Pol, Tejas R; Vandekar, Meghna; Patil, Anuradha; Desai, Sanjana; Shetty, Vikram; Hazarika, Saptarshi

    2018-01-01

    The aim of present study was to investigate the difference of torque control during intrusive force on upper central incisors with normal, under and high torque in lingual and labial orthodontic systems through 3D finite element analysis. Six 3D models of an upper right central incisor with different torque were designed in Solid Works 2006. Software ANSYS Version 16.0 was used to evaluate intrusive force on upper central incisor model . An intrusive force of 0.15 N was applied to the bracket slot in different torque models and the displacements along a path of nodes in the upper central incisor was assessed. On application of Intrusive force on under torqued upper central incisor in Labial system produce labial crown movement but in Lingual system caused lingual movement in the apical and incisal parts. The same intrusive force in normal-torqued central incisor led to a palatal movement in apical and labial displacement of incisal edge in Lingual system and a palatal displacement in apical area and a labial movement in the incisal edge in Labial systemin. In overtorqued upper central incisor, the labial crown displacement in Labial system is more than Lingual system. In labial and lingual system on application of the same forces in upper central incisor with different inclinations showed different responses. The magnitudes of torque Loss during intrusive loads in incisors with normal, under and over-torque were higher in Labial system than Lingual orthodontic appliances. Key words: FEM, lingual orthodontics, intrusion, torque control, labial bracket systems.

  5. Molecular and elemental effects underlying the biochemical action of transcranial direct current stimulation (tDCS) in appetite control

    Science.gov (United States)

    Surowka, Artur D.; Ziomber, Agata; Czyzycki, Mateusz; Migliori, Alessandro; Kasper, Kaja; Szczerbowska-Boruchowska, Magdalena

    2018-04-01

    Recent studies highlight that obesity may alter the electric activity in brain areas triggering appetite and craving. Transcranial direct current brain stimulation (tDCS) has recently emerged as a safe alternative for treating food addiction via modulating cortical excitability without any high-risk surgical procedure to be utilized. As for anodal-type tDCS (atDCS), we observe increased excitability and spontaneous firing of the cortical neurons, whilst for the cathodal-type tDCS (ctDCS) a significant decrease is induced. Unfortunately, for the method to be fully used in a clinical setting, its biochemical action mechanism must be precisely defined, although it is proposed that molecular remodelling processes play in concert with brain activity changes involving the ions of: Na, Cl, K and Ca. Herein, we proposed for the first time Fourier transform infrared (FTIR) and synchrotron X-ray fluorescence (SRXRF) microprobes for a combined molecular and elemental analysis in the brain areas implicated appetite control, upon experimental treatment by either atDCS or ctDCS. The study, although preliminary, shows that by stimulating the prefrontal cortex in the rats fed high-caloric nutrients, the feeding behavior can be significantly changed, resulting in significantly inhibited appetite. Both, atDCS and ctDCS produced significant molecular changes involving qualitative and structural properties of lipids, whereas atDCS was found with a somewhat more significant effect on protein secondary structure in all the brain areas investigated. Also, tDCS was reported to reduce surface masses of Na, Cl, K, and Ca in almost all brain areas investigated, although the atDCS deemed to have a stronger neuro-modulating effect. Taken together, one can report that tDCS is an effective treatment technique, and its action mechanism in the appetite control seems to involve a variety of lipid-, protein- and metal/non-metal-ion-driven biochemical changes, regardless the current polarization.

  6. Standard elements; Elements standards

    Energy Technology Data Exchange (ETDEWEB)

    Blanc, B [Commissariat a l' Energie Atomique, Saclay (France). Centre d' Etudes Nucleaires

    1958-07-01

    Following his own experience the author recalls the various advantages, especially in the laboratory, of having pre-fabricated vacuum-line components at his disposal. (author) [French] A la suite de sa propre experience, l'auteur veut rappeler les divers avantages que presente, tout particulierement en laboratoire, le fait d'avoir a sa disposition des elements pre-fabriques de canalisations a vide. (auteur)

  7. Systematic Dissection of Sequence Elements Controlling σ70 Promoters Using a Genomically-Encoded Multiplexed Reporter Assay in E. coli.

    Science.gov (United States)

    Urtecho, Guillaume; Tripp, Arielle D; Insigne, Kimberly; Kim, Hwangbeom; Kosuri, Sriram

    2018-02-01

    Promoters are the key drivers of gene expression and are largely responsible for the regulation of cellular responses to time and environment. In E. coli , decades of studies have revealed most, if not all, of the sequence elements necessary to encode promoter function. Despite our knowledge of these motifs, it is still not possible to predict the strength and regulation of a promoter from primary sequence alone. Here we develop a novel multiplexed assay to study promoter function in E. coli by building a site-specific genomic recombination-mediated cassette exchange (RMCE) system that allows for the facile construction and testing of large libraries of genetic designs integrated into precise genomic locations. We build and test a library of 10,898 σ70 promoter variants consisting of all combinations of a set of eight -35 elements, eight -10 elements, three UP elements, eight spacers, and eight backgrounds. We find that the -35 and -10 sequence elements can explain approximately 74% of the variance in promoter strength within our dataset using a simple log-linear statistical model. Neural network models can explain greater than 95% of the variance in our dataset, and show the increased power is due to nonlinear interactions of other elements such as the spacer, background, and UP elements.

  8. Dimensional measurements and eddy currents control of the sheath integrity for a set of irradiated candu fuel elements

    International Nuclear Information System (INIS)

    Gheorghe, G.; Man, I.

    2015-01-01

    During irradiation in the nuclear reactor, fuel elements undergo dimensional and structural changes, and changes of sheath surface condition as well, which can lead to damages and even loss of integrity. This paper presents the results of dimensional measurements and of examination technique with eddy currents for three fuel elements of an irradiated CANDU fuel bundle. One of the fuel elements (FE), which is studied in detail, presented a crack about 40 mm long. The purpose of these nondestructive examination techniques is to determine those parameters that characterize the behavior and performance of nuclear fuel operation. This paper contains images of defects and interpretations of the causes of their occurrence. (authors)

  9. Checking the sealing of fuel elements by helium sweating - case of the reactors G2 (1960); Controle de l'etancheite des elements combustibles par ressuage d'helium - cas du reacteur G2 (1960)

    Energy Technology Data Exchange (ETDEWEB)

    Blanc, B; D' Orival, M [Commissariat a l' Energie Atomique, Saclay (France). Centre d' Etudes Nucleaires; Choumoff, S [Compagnie Francaise Thomson-Houston, 75 - Paris (France)

    1960-07-01

    The G2 slug is a welded, hermetically sealed unit; the seal is checked by placing the fuel element in a helium atmosphere under pressure, then measuring the quantity of helium it releases in a vessel under vacuum. The theoretical aspect and the conditions of industrial application are reviewed, and the installations described. (author) [French] La cartouche G2 se presente comme un ensemble soude, hermetique; le controle d'etancheite s'effectue en immergeant l'element combustible dans une atmosphere d'helium sous pression puis en mesurant la quantite d'helium qu'il restitue dans une enceinte sous vide. L'aspect theorique et les conditions d'exploitation industrielle sont evoques et les installations decrites. (auteur)

  10. Activity of genes with functions in human Williams-Beuren Syndrome are impacted by mobile element insertions in the gray wolf genome.

    Science.gov (United States)

    vonHoldt, Bridgett M; Ji, Sarah S; Aardema, Matthew L; Stahler, Daniel; Udell, Monique A R; Sinsheimer, Janet S

    2018-06-01

    In canines, transposon dynamics have been associated with a hyper-social behavioral syndrome, although the functional mechanism has yet to be described. We investigate the epigenetic and transcriptional consequences of these behavior-associated mobile element insertions in dogs and Yellowstone wolves. We posit that the transposons themselves may not be the causative feature; rather, their transcriptional regulation may exert the functional impact. We survey four outlier transposons associated with hyper-sociability, with the expectation that they are targeted for epigenetic silencing. We predict hyper-methylation of mobile element insertions (MEIs), suggestive that the epigenetic silencing of and not the MEIs themselves may be driving dysregulation of nearby genes. We found that transposon-derived sequences are significantly hyper-methylated, regardless of their copy number or species. Further, we have assessed transcriptome sequence data and found evidence that mobile element insertions impact the expression levels of six genes (WBSCR17, LIMK1, GTF2I, WBSCR27, BAZ1B, and BCL7B), all of which have known roles in human Williams-Beuren syndrome due to changes in copy number, typically hemizygosity. Although further evidence is needed, our results suggest that a few insertions alter local expression at multiple genes, likely through a cis-regulatory mechanism that excludes proximal methylation.

  11. Location analysis for the estrogen receptor-α reveals binding to diverse ERE sequences and widespread binding within repetitive DNA elements

    Science.gov (United States)

    Mason, Christopher E.; Shu, Feng-Jue; Wang, Cheng; Session, Ryan M.; Kallen, Roland G.; Sidell, Neil; Yu, Tianwei; Liu, Mei Hui; Cheung, Edwin; Kallen, Caleb B.

    2010-01-01

    Location analysis for estrogen receptor-α (ERα)-bound cis-regulatory elements was determined in MCF7 cells using chromatin immunoprecipitation (ChIP)-on-chip. Here, we present the estrogen response element (ERE) sequences that were identified at ERα-bound loci and quantify the incidence of ERE sequences under two stringencies of detection: ERE sequence. We demonstrate that ∼50% of all ERα-bound loci do not have a discernable ERE and show that most ERα-bound EREs are not perfect consensus EREs. Approximately one-third of all ERα-bound ERE sequences reside within repetitive DNA sequences, most commonly of the AluS family. In addition, the 3-bp spacer between the inverted ERE half-sites, rather than being random nucleotides, is C(A/T)G-enriched at bona fide receptor targets. Diverse ERα-bound loci were validated using electrophoretic mobility shift assay and ChIP-polymerase chain reaction (PCR). The functional significance of receptor-bound loci was demonstrated using luciferase reporter assays which proved that repetitive element ERE sequences contribute to enhancer function. ChIP-PCR demonstrated estrogen-dependent recruitment of the coactivator SRC3 to these loci in vivo. Our data demonstrate that ERα binds to widely variant EREs with less sequence specificity than had previously been suspected and that binding at repetitive and nonrepetitive genomic targets is favored by specific trinucleotide spacers. PMID:20047966

  12. Location analysis for the estrogen receptor-alpha reveals binding to diverse ERE sequences and widespread binding within repetitive DNA elements.

    Science.gov (United States)

    Mason, Christopher E; Shu, Feng-Jue; Wang, Cheng; Session, Ryan M; Kallen, Roland G; Sidell, Neil; Yu, Tianwei; Liu, Mei Hui; Cheung, Edwin; Kallen, Caleb B

    2010-04-01

    Location analysis for estrogen receptor-alpha (ERalpha)-bound cis-regulatory elements was determined in MCF7 cells using chromatin immunoprecipitation (ChIP)-on-chip. Here, we present the estrogen response element (ERE) sequences that were identified at ERalpha-bound loci and quantify the incidence of ERE sequences under two stringencies of detection: ERE sequence. We demonstrate that approximately 50% of all ERalpha-bound loci do not have a discernable ERE and show that most ERalpha-bound EREs are not perfect consensus EREs. Approximately one-third of all ERalpha-bound ERE sequences reside within repetitive DNA sequences, most commonly of the AluS family. In addition, the 3-bp spacer between the inverted ERE half-sites, rather than being random nucleotides, is C(A/T)G-enriched at bona fide receptor targets. Diverse ERalpha-bound loci were validated using electrophoretic mobility shift assay and ChIP-polymerase chain reaction (PCR). The functional significance of receptor-bound loci was demonstrated using luciferase reporter assays which proved that repetitive element ERE sequences contribute to enhancer function. ChIP-PCR demonstrated estrogen-dependent recruitment of the coactivator SRC3 to these loci in vivo. Our data demonstrate that ERalpha binds to widely variant EREs with less sequence specificity than had previously been suspected and that binding at repetitive and nonrepetitive genomic targets is favored by specific trinucleotide spacers.

  13. Quantification of Gaseous Elemental Mercury Dry Deposition to Environmental Surfaces using Mercury Stable Isotopes in a Controlled Environment

    Science.gov (United States)

    Rutter, A. P.; Schauer, J. J.; Shafer, M. M.; Olson, M.; Robinson, M.; Vanderveer, P.; Creswell, J. E.; Parman, A.; Mallek, J.; Gorski, P.

    2009-12-01

    Andrew P. Rutter (1) * *, James J, Schauer (1,2) *, Martin M. Shafer(1,2), Michael R. Olson (1), Michael Robinson (1), Peter Vanderveer (3), Joel Creswell (1), Justin L. Mallek (1), Andrew M. Parman (1) (1) Environmental Chemistry and Technology Program, 660 N. Park St, Madison, WI 53705. (2) Wisconsin State Laboratory of Hygiene, 2601 Agriculture Drive, Madison, WI 53718. (3) Biotron, University of Wisconsin - Madison, 2115 Observatory Drive, Madison, WI 53706 * Correspond author(jjschauer@wisc.edu) * *Presenting author (aprutter@wisc.edu) Abstract Gaseous elemental mercury (GEM) is the predominant component of atmospheric mercury outside of arctic depletion events, and locations where anthropogenic point sources are not influencing atmospheric concentrations. GEM constitutes greater than 99% of the mercury mass in most rural and remote locations. While dry and wet deposition of atmospheric mercury is thought to be dominated by oxidized mercury (a.k.a. reactive mercury), only small GEM uptake to environmental surfaces could impact the input of mercury to terrestrial and aquatic ecosystems. Dry deposition and subsequent re-emission of gaseous elemental mercury is a pathway from the atmosphere that remains only partially understood from a mechanistic perspective. In order to properly model GEM dry deposition and re-emission an understanding of its dependence on irradiance, temperature, and relative humidity must be measured and parameterized for a broad spectrum of environmental surfaces colocated with surrogate deposition surfaces used to make field based dry deposition measurements. Measurements of isotopically enriched GEM dry deposition were made with a variety of environmental surfaces in a controlled environment room at the University of Wisconsin Biotron. The experimental set up allowed dry deposition components which are not easily separated in the field to be decoupled. We were able to isolate surface transfer processes from variabilities caused by

  14. Galvanic element. Galvanisches Element

    Energy Technology Data Exchange (ETDEWEB)

    Sprengel, D.; Haelbig, H.

    1980-01-03

    The invention concerns a gas-tight sealed accumulator with positive and negative electrode plates and an auxillary electrode electroconductively bound to the latter for suppressing oxygen pressure. The auxillary electrode is an intermediate film electrode. The film catalysing oxygen reduction is hydrophilic in character and the other film is hydrophobic. A double coated foil has proved to be advantageous, the hydrophilic film being formed from polymer-bound activated carbon and the hydrophrobic film from porous polytetrafluoroethylene. A metallic network of silver or nickel is rolled into the outer side of the activated carbon film. This auxillary electrode can be used to advantage in all galvanic elements. Even primary cells fall within the scope of application for auxillary electrodes because many of these contain a highly oxidized electrodic material which tends to give off oxygen.

  15. Flow Interactions of Two- and Three-Dimensional Networked Bio-Inspired Control Elements in an In-Line Arrangement.

    Science.gov (United States)

    Kurt, Melike; Moored, Keith

    2018-04-19

    -dimensions. These results can aid in the design of networked bio-inspired control elements that through integrated sensing can synchronize to three-dimensional flow interactions. © 2018 IOP Publishing Ltd.

  16. Characterization of a hypoxia-response element in the Epo locus of the pufferfish, Takifugu rubripes.

    Science.gov (United States)

    Kulkarni, Rashmi P; Tohari, Sumanty; Ho, Adrian; Brenner, Sydney; Venkatesh, Byrappa

    2010-06-01

    Animals respond to hypoxia by increasing synthesis of the glycoprotein hormone erythropoietin (Epo) which in turn stimulates the production of red blood cells. The gene encoding Epo has been recently cloned in teleost fishes such as the pufferfish Takifugu rubripes (fugu) and zebrafish (Danio rerio). It has been shown that the transcription levels of Epo in teleost fishes increase in response to anemia or hypoxia in a manner similar to its human ortholog. However, the cis-regulatory element(s) mediating the hypoxia response of Epo gene in fishes has not been identified. In the present study, using the human hepatoma cell line (Hep3B), we have identified and characterized a hypoxia response element (HRE) in the fugu Epo locus. The sequence of the fugu HRE (ACGTGCTG) is identical to that of the HRE in the human EPO locus. However, unlike the HRE in the mammalian Epo locus, which is located in the 3' region of the gene, the fugu HRE is located in the 5' flanking region and on the opposite strand of DNA. This HRE is conserved in other teleosts such as Tetraodon and zebrafish in a similar location. A 365-bp fragment containing the fugu HRE was able to drive GFP expression in the liver of transgenic zebrafish. However, we could not ascertain if the expression of transgene is induced by hypoxia in vivo due to the low and variable levels of GFP expression in transgenic zebrafish. Our investigations also revealed that the Epo locus has experienced extensive rearrangements during vertebrate evolution. Copyright © 2010 Elsevier B.V. All rights reserved.

  17. Synthetic multi-element standards: a good tool for calibration and quality control of irradiation facilities used for neutron activation analysis

    International Nuclear Information System (INIS)

    Vermaercke, P.

    2007-01-01

    Neutron activation analysis (NAA) is a physical technique used for the absolute measurement of the concentration of substances in solids and liquids. The method uses neutron irradiation which is commonly realised using a nuclear reactor in order to activate (make radioactive) different isotopes of the elements present in the sample. The radionuclides produced in this way emit gamma-rays that are characteristic of the elements present in the sample. Using gamma-ray spectrometry these radionuclides can then be identified and quantified, and hence their concentration in the sample can be determined. Although NAA is a straightforward method it requires a sound control of the many physical parameters involved to obtain accurate results and to guarantee a set accuracy in routine analysis. The accuracy of NAA depends on the specific measurement method used. One can perform NAA in a relative way by co-irradiating a known standard and the unknown sample in the same conditions and by comparing the ratio of gamma-rays they emit. Relative NAA has limited applicability since it requires reference standards with a comparable composition as the unknown. A more generally applicable method is the k0-NAA method. In the k0-NAA method all measurements are relative to the element Au resulting in 198Au when irradiated. The k0-NAA method further relies on the fact that the neutron energy spectrum produced in a given position in the reactor can be parameterised with two parameters: the shape factor of the epithermal neutron flux, indicating the deviation of the epithermal neutron spectrum from the ideal 1/E shape approximated by a 1/E1+a distribution, with E the neutron energy; f: the thermal-to-epithermal neutron flux ratio. The parameters f and a are characteristic for the irradiation facility (reactor and irradiation channels) and may change or fluctuate in time according to the irradiation conditions. The way elements activate (become radioactive) when interacting with neutrons is

  18. Controllable circuit

    DEFF Research Database (Denmark)

    2010-01-01

    A switch-mode power circuit comprises a controllable element and a control unit. The controllable element is configured to control a current in response to a control signal supplied to the controllable element. The control unit is connected to the controllable element and provides the control...

  19. Time variation of meteorological elements as controlled by the quasi-biennial periodicity in the solar phenomena

    International Nuclear Information System (INIS)

    Inoue, Michiharu; Sakurai, Kunitomo

    1981-01-01

    It is shown that the quasi-biennial oscillation observed on some meteorological elements as the ozone content at middle latitudes, both north and south, the zonal wind velocity at the equator and the ground-level temperature at middle latitudes, is produced by the variation of the ultraviolet flux emitted from the sun, which is varying with the solar activity with the period of about 26 months. The ozone content is varying in phase with the ultraviolet flux and the solar activity, whereas the other two elements mentioned above are changing out of phase with these phenomena. There is a possibility that both these meteorological elements and the solar activity are varying quasi-biennially while being modulated by the 26 month periodicity in the efficiency of thermonuclear fusions at the central core of the sun. (author)

  20. Highly conserved non-coding elements on either side of SOX9 associated with Pierre Robin sequence.

    Science.gov (United States)

    Benko, Sabina; Fantes, Judy A; Amiel, Jeanne; Kleinjan, Dirk-Jan; Thomas, Sophie; Ramsay, Jacqueline; Jamshidi, Negar; Essafi, Abdelkader; Heaney, Simon; Gordon, Christopher T; McBride, David; Golzio, Christelle; Fisher, Malcolm; Perry, Paul; Abadie, Véronique; Ayuso, Carmen; Holder-Espinasse, Muriel; Kilpatrick, Nicky; Lees, Melissa M; Picard, Arnaud; Temple, I Karen; Thomas, Paul; Vazquez, Marie-Paule; Vekemans, Michel; Roest Crollius, Hugues; Hastie, Nicholas D; Munnich, Arnold; Etchevers, Heather C; Pelet, Anna; Farlie, Peter G; Fitzpatrick, David R; Lyonnet, Stanislas

    2009-03-01

    Pierre Robin sequence (PRS) is an important subgroup of cleft palate. We report several lines of evidence for the existence of a 17q24 locus underlying PRS, including linkage analysis results, a clustering of translocation breakpoints 1.06-1.23 Mb upstream of SOX9, and microdeletions both approximately 1.5 Mb centromeric and approximately 1.5 Mb telomeric of SOX9. We have also identified a heterozygous point mutation in an evolutionarily conserved region of DNA with in vitro and in vivo features of a developmental enhancer. This enhancer is centromeric to the breakpoint cluster and maps within one of the microdeletion regions. The mutation abrogates the in vitro enhancer function and alters binding of the transcription factor MSX1 as compared to the wild-type sequence. In the developing mouse mandible, the 3-Mb region bounded by the microdeletions shows a regionally specific chromatin decompaction in cells expressing Sox9. Some cases of PRS may thus result from developmental misexpression of SOX9 due to disruption of very-long-range cis-regulatory elements.

  1. A method of predicting changes in human gene splicing induced by genetic variants in context of cis-acting elements

    Directory of Open Access Journals (Sweden)

    Hicks Chindo

    2010-01-01

    Full Text Available Abstract Background Polymorphic variants and mutations disrupting canonical splicing isoforms are among the leading causes of human hereditary disorders. While there is a substantial evidence of aberrant splicing causing Mendelian diseases, the implication of such events in multi-genic disorders is yet to be well understood. We have developed a new tool (SpliceScan II for predicting the effects of genetic variants on splicing and cis-regulatory elements. The novel Bayesian non-canonical 5'GC splice site (SS sensor used in our tool allows inference on non-canonical exons. Results Our tool performed favorably when compared with the existing methods in the context of genes linked to the Autism Spectrum Disorder (ASD. SpliceScan II was able to predict more aberrant splicing isoforms triggered by the mutations, as documented in DBASS5 and DBASS3 aberrant splicing databases, than other existing methods. Detrimental effects behind some of the polymorphic variations previously associated with Alzheimer's and breast cancer could be explained by changes in predicted splicing patterns. Conclusions We have developed SpliceScan II, an effective and sensitive tool for predicting the detrimental effects of genomic variants on splicing leading to Mendelian and complex hereditary disorders. The method could potentially be used to screen resequenced patient DNA to identify de novo mutations and polymorphic variants that could contribute to a genetic disorder.

  2. Characterization of a Suppressive Cis-acting Element in the Epstein–Barr Virus LMP1 Promoter

    Directory of Open Access Journals (Sweden)

    Masahiro Yoshida

    2017-11-01

    Full Text Available Latent membrane protein 1 (LMP1 is a major oncogene encoded by Epstein–Barr virus (EBV and is essential for immortalization of B cells by the virus. Previous studies suggested that several transcription factors, such as PU.1, RBP-Jκ, NFκB, EBF1, AP-2 and STAT, are involved in LMP1 induction; however, the means by which the oncogene is negatively regulated remains unclear. Here, we introduced short mutations into the proximal LMP1 promoter that includes recognition sites for the E-box and Ikaros transcription factors in the context of EBV-bacterial artificial chromosome. Upon infection, the mutant exhibited increased LMP1 expression and EBV-mediated immortalization of B cells. However, single mutations of either the E-box or Ikaros sites had limited effects on LMP1 expression and transformation. Our results suggest that this region contains a suppressive cis-regulatory element, but other transcriptional repressors (apart from the E-box and Ikaros transcription factors may remain to be discovered.

  3. Modeling of a fluid-loaded smart shell structure for active noise and vibration control using a coupled finite element–boundary element approach

    International Nuclear Information System (INIS)

    Ringwelski, S; Gabbert, U

    2010-01-01

    A recently developed approach for the simulation and design of a fluid-loaded lightweight structure with surface-mounted piezoelectric actuators and sensors capable of actively reducing the sound radiation and the vibration is presented. The objective of this paper is to describe the theoretical background of the approach in which the FEM is applied to model the actively controlled shell structure. The FEM is also employed to model finite fluid domains around the shell structure as well as fluid domains that are partially or totally bounded by the structure. Boundary elements are used to characterize the unbounded acoustic pressure fields. The approach presented is based on the coupling of piezoelectric and acoustic finite elements with boundary elements. A coupled finite element–boundary element model is derived by introducing coupling conditions at the fluid–fluid and fluid–structure interfaces. Because of the possibility of using piezoelectric patches as actuators and sensors, feedback control algorithms can be implemented directly into the multi-coupled structural–acoustic approach to provide a closed-loop model for the design of active noise and vibration control. In order to demonstrate the applicability of the approach developed, a number of test simulations are carried out and the results are compared with experimental data. As a test case, a box-shaped shell structure with surface-mounted piezoelectric actuators and four sensors and an open rearward end is considered. A comparison between the measured values and those predicted by the coupled finite element–boundary element model shows a good agreement

  4. Quantitative analysis of polycomb response elements (PREs at identical genomic locations distinguishes contributions of PRE sequence and genomic environment

    Directory of Open Access Journals (Sweden)

    Okulski Helena

    2011-03-01

    Full Text Available Abstract Background Polycomb/Trithorax response elements (PREs are cis-regulatory elements essential for the regulation of several hundred developmentally important genes. However, the precise sequence requirements for PRE function are not fully understood, and it is also unclear whether these elements all function in a similar manner. Drosophila PRE reporter assays typically rely on random integration by P-element insertion, but PREs are extremely sensitive to genomic position. Results We adapted the ΦC31 site-specific integration tool to enable systematic quantitative comparison of PREs and sequence variants at identical genomic locations. In this adaptation, a miniwhite (mw reporter in combination with eye-pigment analysis gives a quantitative readout of PRE function. We compared the Hox PRE Frontabdominal-7 (Fab-7 with a PRE from the vestigial (vg gene at four landing sites. The analysis revealed that the Fab-7 and vg PREs have fundamentally different properties, both in terms of their interaction with the genomic environment at each site and their inherent silencing abilities. Furthermore, we used the ΦC31 tool to examine the effect of deletions and mutations in the vg PRE, identifying a 106 bp region containing a previously predicted motif (GTGT that is essential for silencing. Conclusions This analysis showed that different PREs have quantifiably different properties, and that changes in as few as four base pairs have profound effects on PRE function, thus illustrating the power and sensitivity of ΦC31 site-specific integration as a tool for the rapid and quantitative dissection of elements of PRE design.

  5. A new approach to evaluate factors controlling elemental sediment–seawater distribution coefficients (K{sub d}) in coastal regions, Japan

    Energy Technology Data Exchange (ETDEWEB)

    Takata, Hyoe, E-mail: takata@kaiseiken.or.jp [Marine Ecology Research Institute, Central Laboratory, Onjuku, Chiba (Japan); National Institute of Radiological Sciences, Chiba City, Chiba (Japan); Aono, Tatsuo; Tagami, Keiko; Uchida, Shigeo [National Institute of Radiological Sciences, Chiba City, Chiba (Japan)

    2016-02-01

    In numerical models to simulate the dispersion of anthropogenic radionuclides in the marine environment, the sediment–seawater distribution coefficient (K{sub d}) for various elements is an important parameter. In coastal regions, K{sub d} values are largely dependent on hydrographic conditions and physicochemical characteristics of sediment. Here we report K{sub d} values for 36 elements (Na, Mg, Al, K, Ca, V, Mn, Fe, Co, Ni, Cu, Se, Rb, Sr, Y, Mo, Cd, I, Cs, rare earth elements, Pb, {sup 232}Th and {sup 238}U) in seawater and sediment samples from 19 Japanese coastal regions, and we examine the factors controlling the variability of these K{sub d} values by investigating their relationships to hydrographic conditions and sediment characteristics. There was large variability in K{sub d} values for Al, Mn, Fe, Co, Ni, Cu, Se, Cd, I, Pb and Th. Variations of K{sub d} for Al, Mn, Fe, Co, Pb and Th appear to be controlled by hydrographic conditions. Although K{sub d} values for Ni, Cu, Se, Cd and I depend mainly on grain size, organic matter content, and the concentrations of hydrous oxides/oxides of Fe and Mn in sediments, heterogeneity in the surface characteristics of sediment particles appears to hamper evaluation of the relative importance of these factors. Thus, we report a new approach to evaluate the factors contributing to variability in K{sub d} for an element. By this approach, we concluded that the K{sub d} values for Cu, Se, Cd and I are controlled by grain size and organic matter in sediments, and the K{sub d} value for Ni is dependent on grain size and on hydrous oxides/oxides of Fe and Mn. - Highlights: • K{sub d}s for 36 elements were determined in 19 Japanese coastal regions. • K{sub d}s for several elements appeared to be controlled by multiple factors in sediments. • We evaluated these factors based on physico-chemical characteristics of sediments.

  6. Controls on the composition and extraction of rare earth elements and yttrium (REY) in deep sea polymetallic nodules and sediments

    OpenAIRE

    Menendez Gamella, Amaya

    2017-01-01

    Rising demand for metals is driving a search for new mineral resources and mining of seafloor deposits is likely to commence in the next few years. These include polymetallic nodules and crusts that are highly enriched in Mn, Co, Ni, Cu, Mo, Li and Te, and deep-sea clays that can contain high concentrations of the rare earth elements and yttrium (REY). The potential environmental impacts of mining these deposits are, however, poorly constrained and a better understanding of the processes that...

  7. Urban soil geochemistry in Athens, Greece: The importance of local geology in controlling the distribution of potentially harmful trace elements.

    Science.gov (United States)

    Argyraki, Ariadne; Kelepertzis, Efstratios

    2014-06-01

    Understanding urban soil geochemistry is a challenging task because of the complicated layering of the urban landscape and the profound impact of large cities on the chemical dispersion of harmful trace elements. A systematic geochemical soil survey was performed across Greater Athens and Piraeus, Greece. Surface soil samples (0-10cm) were collected from 238 sampling sites on a regular 1×1km grid and were digested by a HNO3-HCl-HClO4-HF mixture. A combination of multivariate statistics and Geographical Information System approaches was applied for discriminating natural from anthropogenic sources using 4 major elements, 9 trace metals, and 2 metalloids. Based on these analyses the lack of heavy industry in Athens was demonstrated by the influence of geology on the local soil chemistry with this accounting for 49% of the variability in the major elements, as well as Cr, Ni, Co, and possibly As (median values of 102, 141, 16 and 24mg kg(-1) respectively). The contribution to soil chemistry of classical urban contaminants including Pb, Cu, Zn, Sn, Sb, and Cd (medians of 45, 39, 98, 3.6, 1.7 and 0.3mg kg(-1) respectively) was also observed; significant correlations were identified between concentrations and urbanization indicators, including vehicular traffic, urban land use, population density, and timing of urbanization. Analysis of soil heterogeneity and spatial variability of soil composition in the Greater Athens and Piraeus area provided a representation of the extent of anthropogenic modifications on natural element loadings. The concentrations of Ni, Cr, and As were relatively high compared to those in other cities around the world, and further investigation should characterize and evaluate their geochemical reactivity. Copyright © 2014 Elsevier B.V. All rights reserved.

  8. Calculation of isotope burn-up and change in efficiency of absorbing elements of WWER-1000 control and protection system during burn-up

    International Nuclear Information System (INIS)

    Timofeeva, O.A.; Kurakin, K.U.

    2006-01-01

    The report deals with fast and thermal neutron flows distribution in structural elements of WWER-1000 fuel assembly and absorbing rods, determination of absorbing isotope burn-up and worth variation in WWER reactor control and protection system rods. Simulation of absorber rod burn-up is provided using code package SAPPHIRE 9 5 end RC W WER allowing detailed description of the core segment spatial model. Maximum burn-up of absorbing rods and respective worth variation of control and protection system rods is determined on the basis of a number of calculations considering known characteristics of fuel cycles (Authors)

  9. Report on the quality control study NAT-7 for the determination of trace and minor elements in dust artificially loaded on air filters

    International Nuclear Information System (INIS)

    Bleise, A.; Smodis, A.

    2002-02-01

    A quality control study was organized on two air filters artificially loaded with urban dust. One dust material was collected from the air intake ducts of the Vienna General Hospital, the second material was collected from the main ventilation shaft of a road tunnel in Prague. 49 laboratories from 40 countries participated in the study, providing 53 sets of results. The following analytical methods were used: neutron activation analysis (NAA), inductive coupled plasma atomic emission spectrometry (ICP-AES), inductively coupled plasma mass spectrometry (ICP-MS), particle induced X-ray emission spectrometry (PDCE), atomic absorption spectrometry (AAS), and X-ray fluorescence spectrometry (XRF). The results were evaluated following the standard LEA procedures for (1) an interlaboratory comparison exercise and (2) a proficiency test using established target values. For the air filter sample V, 754 laboratory mean values for 38 elements were reported. More than 4 mean values were obtained for 26 measurands and these were statistically evaluated. Only 10 % 71 values) of the results were detected as outliers by the statistical data evaluation. The results and statistical parameters are listed in the appendices I and II. The results were also evaluated as a proficiency test using established target values. Precision and accuracy criteria were applied to 15 elements. 534 laboratory mean values were reported for those elements, 114 values (20%) did not pass the set proficiency test criteria. The individual laboratory results are listed in appendix IV. For the air filter sample P, 694 laboratory mean values for 38 elements were reported. More than 4 mean values were obtained for 26 measurands and these were statistically evaluated. Only 9% (60 values) of the results were detected as outliers by the statistical data evaluation. The results and statistical parameters are listed in the appendices I and II. The results were also evaluated as a proficiency test using target values

  10. Serum levels of chemical elements in esophageal squamous cell carcinoma in Anyang, China: a case-control study based on machine learning methods.

    Science.gov (United States)

    Lin, Tong; Liu, Tiebing; Lin, Yucheng; Zhang, Chaoting; Yan, Lailai; Chen, Zhongxue; He, Zhonghu; Wang, Jingyu

    2017-09-24

    Esophageal squamous cell carcinoma (ESCC) is the predominant form of esophageal carcinoma with extremely aggressive nature and low survival rate. The risk factors for ESCC in the high-incidence areas of China remain unclear. We used machine learning methods to investigate whether there was an association between the alterations of serum levels of certain chemical elements and ESCC. Primary healthcare unit in Anyang city, Henan Province of China. 100 patients with ESCC and 100 healthy controls matched for age, sex and region were included. Primary outcome was the classification accuracy. Secondary outcome was the p Value of the t-test or rank-sum test. Both traditional statistical methods of t-test and rank-sum test and fashionable machine learning approaches were employed. Random Forest achieves the best accuracy of 98.38% on the original feature vectors (without dimensionality reduction), and support vector machine outperforms other classifiers by yielding accuracy of 96.56% on embedding spaces (with dimensionality reduction). All six classifiers can achieve accuracies more than 90% based on the single most important element Sr. The other two elements with distinctive difference are S and P, providing accuracies around 80%. More than half of chemical elements were found to be significantly different between patients with ESCC and the controls. These results suggest clear differences between patients with ESCC and controls, implying some potential promising applications in diagnosis, prognosis, pharmacy and nutrition of ESCC. However, the results should be interpreted with caution due to the retrospective design nature, limited sample size and the lack of several potential confounding factors (including obesity, nutritional status, and fruit and vegetable consumption and potential regional carcinogen contacts). © Article author(s) (or their employer(s) unless otherwise stated in the text of the article) 2017. All rights reserved. No commercial use is permitted

  11. Method for calculating the forces and deformations in the fast reactor fuel assembly accounting for the effects of reactor control system elements and shutdown

    International Nuclear Information System (INIS)

    Likhachev, Yu.I.; Vashlyaev, Yu.N.; Kravchenko, I.N.

    1980-01-01

    Methods for calculating deformations and interaction forces of heat-generating assemblies (HGA) of fast reactor core with account for the effect of control and protection system (CPS) elements at the reactor operation and change of interaction efforts between HGA at the reactor shutdown, are described. The results of testing the suggested methods on example of estimate of HGA behaviour of the BN-350 reactor are presented. For estimating the effect of CPS elements on HGA bending the sector model has been used. It is assumed that HGA deformation inside each sector is independent of HGA deformation of other sectors. A higher calculation accuracy is attained by means of laying out of sectors into regions of preferable influence of emergency protection elements and compensating packets. When determining deformation and interaction efforts between HGA caused by temperature change in the course of shutdown it is supposed that the HGA deformation is purely elastic. The methods described are realized in the form of ABRI-CPS and ABRI-HOL programs written in FORTRAN for the BESM-6 computer. The results of HGA calculations of the BN-350 reactor core show that CPS elements decrease contact efforts in the middle of the central packet, increase contact efforts in the peak of the central packet, increase contact efforts in the peaks of packets from the eight row to the periphery and increase contact efforts in the middles of packets from the 5th to 9th row [ru

  12. Demonstration of frequency control and CW diode laser injection control of a titanium-doped sapphire ring laser with no internal optical elements

    Science.gov (United States)

    Bair, Clayton H.; Brockman, Philip; Hess, Robert V.; Modlin, Edward A.

    1988-01-01

    Theoretical and experimental frequency narrowing studies of a Ti:sapphire ring laser with no intracavity optical elements are reported. Frequency narrowing has been achieved using a birefringent filter between a partially reflecting reverse wave suppressor mirror and the ring cavity output mirror. Results of CW diode laser injection seeding are reported.

  13. REDfly: a Regulatory Element Database for Drosophila.

    Science.gov (United States)

    Gallo, Steven M; Li, Long; Hu, Zihua; Halfon, Marc S

    2006-02-01

    Bioinformatics studies of transcriptional regulation in the metazoa are significantly hindered by the absence of readily available data on large numbers of transcriptional cis-regulatory modules (CRMs). Even the richly annotated Drosophila melanogaster genome lacks extensive CRM information. We therefore present here a database of Drosophila CRMs curated from the literature complete with both DNA sequence and a searchable description of the gene expression pattern regulated by each CRM. This resource should greatly facilitate the development of computational approaches to CRM discovery as well as bioinformatics analyses of regulatory sequence properties and evolution.

  14. Using LDR as Sensing Element for an External Fuzzy Controller Applied in Photovoltaic Pumping Systems with Variable-Speed Drives.

    Science.gov (United States)

    Maranhão, Geraldo Neves De A; Brito, Alaan Ubaiara; Leal, Anderson Marques; Fonseca, Jéssica Kelly Silva; Macêdo, Wilson Negrão

    2015-09-22

    In the present paper, a fuzzy controller applied to a Variable-Speed Drive (VSD) for use in Photovoltaic Pumping Systems (PVPS) is proposed. The fuzzy logic system (FLS) used is embedded in a microcontroller and corresponds to a proportional-derivative controller. A Light-Dependent Resistor (LDR) is used to measure, approximately, the irradiance incident on the PV array. Experimental tests are executed using an Arduino board. The experimental results show that the fuzzy controller is capable of operating the system continuously throughout the day and controlling the direct current (DC) voltage level in the VSD with a good performance.

  15. Using LDR as Sensing Element for an External Fuzzy Controller Applied in Photovoltaic Pumping Systems with Variable-Speed Drives

    Directory of Open Access Journals (Sweden)

    Geraldo Neves De A. Maranhão

    2015-09-01

    Full Text Available In the present paper, a fuzzy controller applied to a Variable-Speed Drive (VSD for use in Photovoltaic Pumping Systems (PVPS is proposed. The fuzzy logic system (FLS used is embedded in a microcontroller and corresponds to a proportional-derivative controller. A Light-Dependent Resistor (LDR is used to measure, approximately, the irradiance incident on the PV array. Experimental tests are executed using an Arduino board. The experimental results show that the fuzzy controller is capable of operating the system continuously throughout the day and controlling the direct current (DC voltage level in the VSD with a good performance.

  16. Mammalian RNA polymerase II core promoters: insights from genome-wide studies

    DEFF Research Database (Denmark)

    Sandelin, Albin; Carninci, Piero; Lenhard, Boris

    2007-01-01

    The identification and characterization of mammalian core promoters and transcription start sites is a prerequisite to understanding how RNA polymerase II transcription is controlled. New experimental technologies have enabled genome-wide discovery and characterization of core promoters, revealing...... in the mammalian transcriptome and proteome. Promoters can be described by their start site usage distribution, which is coupled to the occurrence of cis-regulatory elements, gene function and evolutionary constraints. A comprehensive survey of mammalian promoters is a major step towards describing...

  17. Control of oxygen vacancies and Ce+3 concentrations in doped ceria nanoparticles via the selection of lanthanide element

    International Nuclear Information System (INIS)

    Shehata, N.; Meehan, K.; Hudait, M.; Jain, N.

    2012-01-01

    The effect of lanthanides that have positive association energies with oxygen vacancies, such as samarium and neodymium, and the elements with negative association energies, such as holmium and erbium, on ionization state of cerium and, consequentially, the oxygen vacancy concentration in doped ceria nanoparticles are investigated in this article. Structural and optical characterizations of the doped and undoped ceria nanoparticles, synthesized using chemical precipitation, are carried out using transmission electron microscopy, X-ray diffractometry, optical absorption spectroscopy, and fluorescence spectroscopy. It is deduced that the negative association energy dopants decrease the conversion of Ce +4 into Ce +3 and, hence, scavenge the oxygen vacancies, evidenced by the observed increase in the allowed direct bandgap, decrease in the integrated fluorescence intensity, and increased the size of doped nanoparticles. The opposite trends are obtained when the positive association dopants are used. It is concluded that the determining factor as to whether a lanthanide dopant in ceria acts as a generator or scavenger of oxygen vacancies in ceria nanoparticles is the sign of the association energy between the element and the oxygen vacancies. The ability to tailor the ionization state of cerium and the oxygen vacancy concentration in ceria has applications in a broad range of fields, which include catalysis, biomedicine, electronics, and environmental sensing.

  18. Neuroprotective impact of a vitamin trace element composition - a randomized, double blind, placebo controlled clinical trial with healthy volunteers.

    Science.gov (United States)

    Muss, Claus; Mosgoeller, Wilhelm; Endler, Thomas

    2015-01-01

    Neurotoxic metabolites and oxidative and nitrosative stress reactions play a crucial role in the pathways leading to neuronal cell death and neurodegeneration. The bioavailability of the many antioxidant ingredients a vitamin and trace element composition was investigated, to reveal the neuroprotective (preventive) potential of the composition. We recruited 159 healthy volunteers, assigned them randomly and double blind to a placebo and verum group. Physicians excluded volunteers with severe chronic diseases or interfeering medications. 142 participants finished the six month trial. Laboratory parameters were determined 1) before participation, and 2) after three and 3) six months. We confirmed the bioavailability of ingredients, and determined metabolic parameters associated with the integrity of the blood brain barrier, mitochondrial deficiency (Q 10), neurodegeneration (homocystein), and antioxidative capacity (e.g. lipidperoxidation), and superoxiddismutase activity. Starting from baseleine, after three months neuroprotective ingredients increased within their physiological borders, folic acid (p<0.003), pyridoxin (p<0.001), cobalamin (p=0.001), and the fat soluble vitamin tocopherol (p<0.001). In parallel, homocytein decreased after 3 and 6 months (p<0.001, and p<0.025, respectively). Other paramters like zinc reacted slower, significant changes were observed only after 6 months. The observed metabolic changes and alteration of the oxidative status after 3 and six month of regular intake underlines the compositions' potential to ameliorate neurodegenerative processes. We conclude that the subsitution of vitamins and trace-elements with natural source in a proper manner may be effective for neuroprotection in healthy population.

  19. Mutational studies reveal a complex set of positive and negative control elements within the chicken vitellogenin II promoter.

    Science.gov (United States)

    Seal, S N; Davis, D L; Burch, J B

    1991-05-01

    The endogenous chicken vitellogenin II (VTGII) gene is transcribed exclusively in hepatocytes in response to estrogen. We previously identified two estrogen response elements (EREs) upstream of this gene. We now present an analysis of the VTGII promoter activated by these EREs in response to estrogen. Chimeric VTGII-CAT genes were cotransfected into LMH chicken hepatoma cells along with an estrogen receptor expression vector, and transient CAT expression was assayed after culturing the cells in the absence or presence of estrogen. An analysis of constructs bearing deletions downstream of the more proximal ERE indicated that promoter elements relevant to transcription in LMH cells extend to between -113 and -96. The relative importance of sequences within the VTGII promoter was examined by using 10 contiguous linker scanner mutations spanning the region from -117 to -24. Although most of these mutations compromised VTGII promoter function, one dramatically increased expression in LMH cells and also rendered the VTGII promoter capable of being activated by cis-linked EREs in fibroblasts cotransfected with an estrogen receptor expression vector. Gel retardation and DNase I footprinting assays revealed four factor-binding sites within this promoter. We demonstrate that three of these sites bind C/EBP, SP1, and USF (or related factors), respectively; the fourth site binds a factor that we denote TF-V beta. The biological relevance of these findings is suggested by the fact that three of these binding sites map to sites previously shown to be occupied in vivo in response to estrogen.

  20. Lentiviral vectors containing mouse Csf1r control elements direct macrophage-restricted expression in multiple species of birds and mammals

    Directory of Open Access Journals (Sweden)

    Clare Pridans

    2014-01-01

    Full Text Available The development of macrophages requires signaling through the lineage-restricted receptor Csf1r. Macrophage-restricted expression of transgenic reporters based upon Csf1r requires the highly conserved Fms-intronic regulatory element (FIRE. We have created a lentiviral construct containing mouse FIRE and promoter. The lentivirus is capable of directing macrophage-restricted reporter gene expression in mouse, rat, human, pig, cow, sheep, and even chicken. Rat bone marrow cells transduced with the lentivirus were capable of differentiating into macrophages expressing the reporter gene in vitro. Macrophage-restricted expression may be desirable for immunization or immune response modulation, and for gene therapy for lysosomal storage diseases and some immunodeficiencies. The small size of the Csf1r transcription control elements will allow the insertion of large “cargo” for applications in gene therapy and vaccine delivery.

  1. Trace elements in olivine of ultramafic lamprophyres controlled by phlogopite-rich mineral assemblages in the mantle source

    Science.gov (United States)

    Veter, Marina; Foley, Stephen F.; Mertz-Kraus, Regina; Groschopf, Nora

    2017-11-01

    Carbonate-rich ultramafic lamprophyres (aillikites) and associated rocks characteristically occur during the early stages of thinning and rifting of cratonic mantle lithosphere, prior to the eruption of melilitites, nephelinites and alkali basalts. It is accepted that they require volatile-rich melting conditions, and the presence of phlogopite and carbonate in the source, but the exact source rock assemblages are debated. Melts similar to carbonate-rich ultramafic lamprophyres (aillikites) have been produced by melting of peridotites in the presence of CO2 and H2O, whereas isotopes and trace elements appear to favor distinct phlogopite-bearing rocks. Olivine macrocrysts in aillikites are usually rounded and abraded, so that it is debated whether they are phenocrysts or mantle xenocrysts. We have analyzed minor and trace element composition in olivines from the type aillikites from Aillik Bay in Labrador, Canada. We characterize five groups of olivines: [1] mantle xenocrysts, [2] the main phenocryst population, and [3] reversely zoned crystals interpreted as phenocrysts from earlier, more fractionated, magma batches, [4] rims on the phenocrysts, which delineate aillikite melt fractionation trends, and [5] rims around the reversely zoned olivines. The main phenocryst population is characterized by mantle-like Ni (averaging 3400 μg g- 1) and Ni/Mg at Mg# of 88-90, overlapping with phenocrysts in ocean island basalts and Mediterranean lamproites. However, they also have low 100 Mn/Fe of 0.9-1.3 and no correlation between Ni and other trace elements (Sc, Co, Li) that would indicate recycled oceanic or continental crust in their sources. The low Mn/Fe without high Ni/Mg, and the high V/Sc (2-5) are inherited from phlogopite in the source that originated by solidification of lamproitic melts at the base of the cratonic lithosphere in a previous stage of igneous activity. The olivine phenocryst compositions are interpreted to result from phlogopite and not high modal

  2. Transplutonium elements

    Energy Technology Data Exchange (ETDEWEB)

    Sivaramakrishnan, C. K.; Jadhav, A. V.; Reghuraman, K.; Mathew, K. A.; Nair, P. S.; Ramaniah, M. V.

    1973-07-01

    Research progress is reported on studies of the transplutonium elements including recovery and purification of americium, preparation of /sup 238/Pu, extraction studies using diethylhexyl phosphate. (DHM)

  3. Thermoelastic and Pyroelectric Couplings Effects on Dynamics and Active Control of Smart Piezolaminated Beam Modeled by Finite Element Method

    OpenAIRE

    Sanbi, M.; Saadani, R.; Sbai, K.; Rahmoune, M.

    2014-01-01

    Smart structures with integrated sensors, actuators, and control electronics are of importance to the next generation high-performance structural systems. In this study, thermopiezoelastic characteristics of piezoelectric beam continua are studied and applications of the theory to active structures in sensing and optimal control are discussed. Using linear thermopiezoelastic theory and Timoshenko assumptions, a generic thermopiezoelastic theory for piezolaminated composite beam is derived. Fi...

  4. Toxic Elements

    DEFF Research Database (Denmark)

    Hajeb, Parvaneh; Shakibazadeh, Shahram; Sloth, Jens Jørgen

    2016-01-01

    Food is considered the main source of toxic element (arsenic, cadmium, lead, and mercury) exposure to humans, and they can cause major public health effects. In this chapter, we discuss the most important sources for toxic element in food and the foodstuffs which are significant contributors to h...

  5. Two estrogen response element sequences near the PCNA gene are not responsible for its estrogen-enhanced expression in MCF7 cells.

    Directory of Open Access Journals (Sweden)

    Cheng Wang

    Full Text Available The proliferating cell nuclear antigen (PCNA is an essential component of DNA replication, cell cycle regulation, and epigenetic inheritance. High expression of PCNA is associated with poor prognosis in patients with breast cancer. The 5'-region of the PCNA gene contains two computationally-detected estrogen response element (ERE sequences, one of which is evolutionarily conserved. Both of these sequences are of undocumented cis-regulatory function. We recently demonstrated that estradiol (E2 enhances PCNA mRNA expression in MCF7 breast cancer cells. MCF7 cells proliferate in response to E2.Here, we demonstrate that E2 rapidly enhanced PCNA mRNA and protein expression in a process that requires ERalpha as well as de novo protein synthesis. One of the two upstream ERE sequences was specifically bound by ERalpha-containing protein complexes, in vitro, in gel shift analysis. Yet, each ERE sequence, when cloned as a single copy, or when engineered as two tandem copies of the ERE-containing sequence, was not capable of activating a luciferase reporter construct in response to E2. In MCF7 cells, neither ERE-containing genomic region demonstrated E2-dependent recruitment of ERalpha by sensitive ChIP-PCR assays.We conclude that E2 enhances PCNA gene expression by an indirect process and that computational detection of EREs, even when evolutionarily conserved and when near E2-responsive genes, requires biochemical validation.

  6. Two estrogen response element sequences near the PCNA gene are not responsible for its estrogen-enhanced expression in MCF7 cells.

    Science.gov (United States)

    Wang, Cheng; Yu, Jie; Kallen, Caleb B

    2008-01-01

    The proliferating cell nuclear antigen (PCNA) is an essential component of DNA replication, cell cycle regulation, and epigenetic inheritance. High expression of PCNA is associated with poor prognosis in patients with breast cancer. The 5'-region of the PCNA gene contains two computationally-detected estrogen response element (ERE) sequences, one of which is evolutionarily conserved. Both of these sequences are of undocumented cis-regulatory function. We recently demonstrated that estradiol (E2) enhances PCNA mRNA expression in MCF7 breast cancer cells. MCF7 cells proliferate in response to E2. Here, we demonstrate that E2 rapidly enhanced PCNA mRNA and protein expression in a process that requires ERalpha as well as de novo protein synthesis. One of the two upstream ERE sequences was specifically bound by ERalpha-containing protein complexes, in vitro, in gel shift analysis. Yet, each ERE sequence, when cloned as a single copy, or when engineered as two tandem copies of the ERE-containing sequence, was not capable of activating a luciferase reporter construct in response to E2. In MCF7 cells, neither ERE-containing genomic region demonstrated E2-dependent recruitment of ERalpha by sensitive ChIP-PCR assays. We conclude that E2 enhances PCNA gene expression by an indirect process and that computational detection of EREs, even when evolutionarily conserved and when near E2-responsive genes, requires biochemical validation.

  7. Estrogen receptor β (ERβ1) transactivation is differentially modulated by the transcriptional coregulator Tip60 in a cis-acting element-dependent manner.

    Science.gov (United States)

    Lee, Ming-Tsung; Leung, Yuet-Kin; Chung, Irving; Tarapore, Pheruza; Ho, Shuk-Mei

    2013-08-30

    Estrogen receptor (ER) β1 and ERα have overlapping and distinct functions despite their common use of estradiol as the physiological ligand. These attributes are explained in part by their differential utilization of coregulators and ligands. Although Tip60 has been shown to interact with both receptors, its regulatory role in ERβ1 transactivation has not been defined. In this study, we found that Tip60 enhances transactivation of ERβ1 at the AP-1 site but suppresses its transcriptional activity at the estrogen-response element (ERE) site in an estradiol-independent manner. However, different estrogenic compounds can modify the Tip60 action. The corepressor activity of Tip60 at the ERE site is abolished by diarylpropionitrile, genistein, equol, and bisphenol A, whereas its coactivation at the AP-1 site is augmented by fulvestrant (ICI 182,780). GRIP1 is an important tethering mediator for ERs at the AP-1 site. We found that coexpression of GRIP1 synergizes the action of Tip60. Although Tip60 is a known acetyltransferase, it is unable to acetylate ERβ1, and its coregulatory functions are independent of its acetylation activity. In addition, we showed the co-occupancy of ERβ1 and Tip60 at ERE and AP-1 sites of ERβ1 target genes. Tip60 differentially regulates the endogenous expression of the target genes by modulating the binding of ERβ1 to the cis-regulatory regions. Thus, we have identified Tip60 as the first dual-function coregulator of ERβ1.

  8. A pilot double-blind, randomized, placebo-controlled trial of the efficacy of trace elements in the treatment of endometriosis-related pain: study design and methodology

    Directory of Open Access Journals (Sweden)

    Oberweis D

    2016-02-01

    Full Text Available Didier Oberweis,1 Patrick Madelenat,2 Michelle Nisolle,3 Etienne Demanet4 1Department of Gynecology and Obstetrics, CHU de Charleroi, Hôpital André Vésale, Montigny-le-Tilleul, Belgium; 2Private Consultation, Paris, France; 3Department of Gynecology and Obstetrics, CHR Citadelle, Liège, 4Clinical Research Unit, Charleroi, Belgium Abstract: Endometriosis is one of the most common benign gynecological disorders, affecting almost 10%–15% of all women of reproductive age and >30% of infertile women. The pathology is associated with various distressing symptoms, particularly pelvic pain, which adversely affect patients' quality of life. It is an estrogen-dependent disease. There is evidence both in animals and in humans that metal ions can activate the estrogen receptors. They are defined as a variety of xenoestrogens, called metalloestrogens, which could act as endocrine disruptors. Therefore, it could be considered to act on this gynecological disorder using food supplements containing trace elements (ie, nutripuncture. The assumption is that they could modulate estrogen receptors and thus influence the tropism and the survival of cells involved in endometriosis. By a modulation of the antioxidant system, they might also interact with various parameters influencing tissue biochemistry. The objective of this article is to describe and discuss the design and methodology of an ongoing double-blind, randomized, placebo-controlled study aiming to evaluate the efficacy of metal trace elements on the reduction of pain and improvement of quality of life, in patients with a revised American Fertility Society Score Stages II–IV endometriosis, combined or not with adenomyosis, during a treatment period of 4 months. Trace elements or placebo is proposed in the absence of any other treatment or as an add-on to current therapies, such as sexual hormones, nonsteroidal anti-inflammatory drugs, and surgery. A placebo run-in period of one menstrual cycle or

  9. Studies of Sound Absorption by and Transmission Through Layers of Elastic Noise Control Foams: Finite Element Modeling and Effects of Anisotropy

    Science.gov (United States)

    Kang, Yeon June

    In this thesis an elastic-absorption finite element model of isotropic elastic porous noise control materials is first presented as a means of investigating the effects of finite dimension and edge constraints on the sound absorption by, and transmission through, layers of acoustical foams. Methods for coupling foam finite elements with conventional acoustic and structural finite elements are also described. The foam finite element model based on the Biot theory allows for the simultaneous propagation of the three types of waves known to exist in an elastic porous material. Various sets of boundary conditions appropriate for modeling open, membrane-sealed and panel-bonded foam surfaces are formulated and described. Good agreement was achieved when finite element predictions were compared with previously established analytical results for the plane wave absorption coefficient and transmission loss in the case of wave propagation both in foam-filled waveguides and through foam-lined double panel structures of infinite lateral extent. The primary effect of the edge constraints of a foam layer was found to be an acoustical stiffening of the foam. Constraining the ends of the facing panels in foam-lined double panel systems was also found to increase the sound transmission loss significantly in the low frequency range. In addition, a theoretical multi-dimensional model for wave propagation in anisotropic elastic porous materials was developed to study the effect of anisotropy on the sound transmission of foam-lined noise control treatments. The predictions of the theoretical anisotropic model have been compared with experimental measurements for the random incidence sound transmission through double panel structure lined with polyimide foam. The predictions were made by using the measured and estimated macroscopic physical parameters of polyimide foam samples which were known to be anisotropic. It has been found that the macroscopic physical parameters in the direction

  10. Trace element emissions from coal

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    2012-09-15

    Trace elements are emitted during coal combustion. The quantity, in general, depends on the physical and chemical properties of the element itself, the concentration of the element in the coal, the combustion conditions and the type of particulate control device used, and its collection efficiency as a function of particle size. Some trace elements become concentrated in certain particle streams following combustion such as bottom ash, fly ash, and flue gas particulate matter, while others do not. Various classification schemes have been developed to describe this partitioning behaviour. These classification schemes generally distinguish between: Class 1: elements that are approximately equally concentrated in the fly ash and bottom ash, or show little or no fine particle enrichment, examples include Mn, Be, Co and Cr; Class 2: elements that are enriched in the fly ash relative to bottom ash, or show increasing enrichment with decreasing particle size, examples include As, Cd, Pb and Sb; Class 3: elements which are emitted in the gas phase (primarily Hg (not discussed in this review), and in some cases, Se). Control of class 1 trace elements is directly related to control of total particulate matter emissions, while control of the class 2 elements depends on collection of fine particulates. Due to the variability in particulate control device efficiencies, emission rates of these elements can vary substantially. The volatility of class 3 elements means that particulate controls have only a limited impact on the emissions of these elements.

  11. Strong supramolecular control over protein self-assembly using a polyamine decorated β-cyclodextrin as synthetic recognition element

    NARCIS (Netherlands)

    Uhlenheuer, D.A.; Milroy, L.G.; Neirynck, P.; Brunsveld, L.

    2011-01-01

    The supramolecular host molecule heptakis-[6-deoxy-6-(2-aminoethylsulfanyl)]-ß-cyclodextrin provides strong control over protein self-assembly in synthetic supramolecular protein constructs. Mono-functionalization of this modified ß-cyclodextrin with a cysteine residue allows for site-selective

  12. Dicer-like 3 produces transposable element-associated 24-nt siRNAs that control agricultural traits in rice

    Science.gov (United States)

    Wei, Liya; Gu, Lianfeng; Song, Xianwei; Cui, Xiekui; Lu, Zhike; Zhou, Ming; Wang, Lulu; Hu, Fengyi; Zhai, Jixian; Meyers, Blake C.; Cao, Xiaofeng

    2014-01-01

    Transposable elements (TEs) and repetitive sequences make up over 35% of the rice (Oryza sativa) genome. The host regulates the activity of different TEs by different epigenetic mechanisms, including DNA methylation, histone H3K9 methylation, and histone H3K4 demethylation. TEs can also affect the expression of host genes. For example, miniature inverted repeat TEs (MITEs), dispersed high copy-number DNA TEs, can influence the expression of nearby genes. In plants, 24-nt small interfering RNAs (siRNAs) are mainly derived from repeats and TEs. However, the extent to which TEs, particularly MITEs associated with 24-nt siRNAs, affect gene expression remains elusive. Here, we show that the rice Dicer-like 3 homolog OsDCL3a is primarily responsible for 24-nt siRNA processing. Impairing OsDCL3a expression by RNA interference caused phenotypes affecting important agricultural traits; these phenotypes include dwarfism, larger flag leaf angle, and fewer secondary branches. We used small RNA deep sequencing to identify 535,054 24-nt siRNA clusters. Of these clusters, ∼82% were OsDCL3a-dependent and showed significant enrichment of MITEs. Reduction of OsDCL3a function reduced the 24-nt siRNAs predominantly from MITEs and elevated expression of nearby genes. OsDCL3a directly targets genes involved in gibberellin and brassinosteroid homeostasis; OsDCL3a deficiency may affect these genes, thus causing the phenotypes of dwarfism and enlarged flag leaf angle. Our work identifies OsDCL3a-dependent 24-nt siRNAs derived from MITEs as broadly functioning regulators for fine-tuning gene expression, which may reflect a conserved epigenetic mechanism in higher plants with genomes rich in dispersed repeats or TEs. PMID:24554078

  13. Human element of corporate espionage risk management : literature review on assessment and control of outsider and insider threats

    OpenAIRE

    Sandberg, Jarkko

    2015-01-01

    The primary purpose of this study is to determine how suitable human risk management con- trols are against corporate espionage. Information risks are ascending problem with corpora- tions all over the world. Cyber attacks are commonplace, and the attackers are often trying to compromise valuable data assets. These malicious targeted attacks are bypassing traditional information security controls; therefore, organizations are endangered by these threats. Since the traditional information secu...

  14. The centralized control of elemental mercury emission from the flue gas by a magnetic rengenerable Fe-Ti-Mn spinel.

    Science.gov (United States)

    Liao, Yong; Xiong, Shangchao; Dang, Hao; Xiao, Xin; Yang, Shijian; Wong, Po Keung

    2015-12-15

    A magnetic Fe-Ti-Mn spinel was developed to adsorb gaseous Hg(0) in our previous study. However, it is currently extremely restricted in the control of Hg(0) emission from the flue gas for at least three reasons: sorbent recovery, sorbent regeneration and the interference of the chemical composition in the flue gas. Therefore, the effect of SO2 and H2O on the adsorption of gaseous Hg(0) on the Fe-Ti-Mn spinel and the regeneration of spent Fe-Ti-Mn spinel were investigated in this study. Meanwhile, the procedure of the centralized control of Hg(0) emission from the flue gas by the magnetic Fe-Ti-Mn spinel has been analyzed for industrial application. The spent Fe-Ti-Mn spinel can be regenerated by water washing followed by the thermal treatment at 450 °C with no obvious decrease of its ability for Hg(0) capture. Meanwhile, gaseous Hg(0) in the flue gas can be remarkably concentrated during the regeneration, facilitating its safe disposal. Initial pilot test demonstrated that gaseous Hg(0) in the real flue gas can be concentrated at least 100 times by the Fe-Ti-Mn spinel. Therefore, Fe-Ti-Mn spinel was a novel magnetic regenerable sorbent, which can be used for the centralized control of Hg(0) emission from the flue gas. Copyright © 2015 Elsevier B.V. All rights reserved.

  15. Anthropogenic versus natural control on trace element and Sr-Nd-Pb isotope stratigraphy in peat sediments of southeast Florida (USA), ˜1500 AD to present

    Science.gov (United States)

    Kamenov, George D.; Brenner, Mark; Tucker, Jaimie L.

    2009-06-01

    Analysis of a well-dated peat core from Blue Cypress Marsh (BCM) provides a detailed record of natural and anthropogenic factors that controlled the geochemical cycles of a number of trace elements in Florida over the last five centuries. The trace elements were divided into "natural" and "anthropogenic" groups using concentration trends from the bottom to the top of the core. The "natural" group includes Li, Sc, Cr, Co, Ga, Ge, Zr, Nb, Cs, Ba, Hf, Y, Ta, Th, and REE (Rare Earth Elements). These elements show similar concentrations throughout the core, indicating that changes in human activities after European arrival in the "New World" did not affect their geochemical cycles. The "anthropogenic" group includes Pb, Cu, Zn, V, Sb, Sn, Bi, and Cd. Upcore enrichment of these elements indicates enhancement by anthropogenic activities. From the early 1500s to present, fluxes of the "anthropogenic" metals to the marsh increased significantly, with modern accumulation rates several-fold (e.g., V) to hundreds of times (e.g., Zn) greater than pre-colonial rates. The dominant input mechanism for trace elements from both groups to the marsh has been atmospheric deposition. Atmospheric input of a number of the elements, including the anthropogenic metals, was dominated by local sources during the last century. For several elements, long-distant transport may be important. For instance, REE and Nd isotopes provide evidence for long-range atmospheric transport dominated by Saharan dust. The greatest increase in flux of the "anthropogenic" metals occurred during the 20th century and was caused by changes in the chemical composition of atmospheric deposition entering the marsh. Increased atmospheric inputs were a consequence of several anthropogenic activities, including fossil fuel combustion (coal and oil), agricultural activities, and quarrying and mining operations. Pb and V exhibit similar trends, with peak accumulation rates in 1970. The principal anthropogenic source of V

  16. Applicability of the successive approximation methods in the control elements treatment in nuclear systems with irregular geometry

    International Nuclear Information System (INIS)

    El Maftoum, W.R.

    1983-01-01

    The solution of the steady-state wave equation was found by a Fourier series expansion in an arbitrarily shaped n-dimensional domain. This solution, subject to a homogeneous boundary condition (Dirichlet), was applied to a reactor with partially inserted control rods. A Fortran IV program was developed which solves the equation for two media. Criticality calculations were carried out and the worth of partially inserted rod was determined for several problems with an accuracy comparable with that in the existing literature. As a further consequence the technique, associated with the method of sucessive approximations, allowed to derive perturbative formulas for the eigenvalues of the wave equation and related equations. (Author) [pt

  17. A Survey of 6,300 Genomic Fragments for cis-Regulatory Activity in the Imaginal Discs of Drosophila melanogaster

    Directory of Open Access Journals (Sweden)

    Aurélie Jory

    2012-10-01

    Full Text Available Over 6,000 fragments from the genome of Drosophila melanogaster were analyzed for their ability to drive expression of GAL4 reporter genes in the third-instar larval imaginal discs. About 1,200 reporter genes drove expression in the eye, antenna, leg, wing, haltere, or genital imaginal discs. The patterns ranged from large regions to individual cells. About 75% of the active fragments drove expression in multiple discs; 20% were expressed in ventral, but not dorsal, discs (legs, genital, and antenna, whereas ∼23% were expressed in dorsal but not ventral discs (wing, haltere, and eye. Several patterns, for example, within the leg chordotonal organ, appeared a surprisingly large number of times. Unbiased searches for DNA sequence motifs suggest candidate transcription factors that may regulate enhancers with shared activities. Together, these expression patterns provide a valuable resource to the community and offer a broad overview of how transcriptional regulatory information is distributed in the Drosophila genome.

  18. Fuel element

    International Nuclear Information System (INIS)

    Armijo, J.S.

    1976-01-01

    A fuel element for nuclear reactors is proposed which has a higher corrosion resisting quality in reactor operations. The zirconium alloy coating around the fuel element (uranium or plutonium compound) has on its inside a protection layer of metal which is metallurgically bound to the substance of the coating. As materials are namned: Alluminium, copper, niobium, stainless steel, and iron. This protective metallic layer has another inner layer, also metallurgically bound to its surface, which consists usually of a zirconium alloy. (UWI) [de

  19. Gaseous elemental mercury emissions and CO2 respiration rates in terrestrial soils under controlled aerobic and anaerobic laboratory conditions

    International Nuclear Information System (INIS)

    Obrist, Daniel; Fain, Xavier; Berger, Carsen

    2010-01-01

    Mercury (Hg) levels in terrestrial soils are linked to the presence of organic carbon (C). Carbon pools are highly dynamic and subject to mineralization processes, but little is known about the fate of Hg during decomposition. This study evaluated relationships between gaseous Hg emissions from soils and carbon dioxide (CO 2 ) respiration under controlled laboratory conditions to assess potential losses of Hg to the atmosphere during C mineralization. Results showed a linear correlation (r 2 = 0.49) between Hg and CO 2 emissions in 41 soil samples, an effect unlikely to be caused by temperature, radiation, different Hg contents, or soil moisture. Stoichiometric comparisons of Hg/C ratios of emissions and underlying soil substrates suggest that 3% of soil Hg was subject to evasion. Even minute emissions of Hg upon mineralization, however, may be important on a global scale given the large Hg pools sequestered in terrestrial soils and C stocks. We induced changes in CO 2 respiration rates and observed Hg flux responses, including inducement of anaerobic conditions by changing chamber air supply from N 2 /O 2 (80% and 20%, respectively) to pure N 2 . Unexpectedly, Hg emissions almost quadrupled after O 2 deprivation while oxidative mineralization (i.e., CO 2 emissions) was greatly reduced. This Hg flux response to anaerobic conditions was lacking when repeated with sterilized soils, possibly due to involvement of microbial reduction of Hg 2+ by anaerobes or indirect abiotic effects such as alterations in soil redox conditions. This study provides experimental evidence that Hg volatilization, and possibly Hg 2+ reduction, is related to O 2 availability in soils from two Sierra Nevada forests. If this result is confirmed in soils from other areas, the implication is that Hg volatilization from terrestrial soils is partially controlled by soil aeration and that low soil O 2 levels and possibly low soil redox potentials lead to increased Hg volatilization from soils.

  20. The Drosophila Translational Control Element (TCE) is required for high-level transcription of many genes that are specifically expressed in testes.

    Science.gov (United States)

    Katzenberger, Rebeccah J; Rach, Elizabeth A; Anderson, Ashley K; Ohler, Uwe; Wassarman, David A

    2012-01-01

    To investigate the importance of core promoter elements for tissue-specific transcription of RNA polymerase II genes, we examined testis-specific transcription in Drosophila melanogaster. Bioinformatic analyses of core promoter sequences from 190 genes that are specifically expressed in testes identified a 10 bp A/T-rich motif that is identical to the translational control element (TCE). The TCE functions in the 5' untranslated region of Mst(3)CGP mRNAs to repress translation, and it also functions in a heterologous gene to regulate transcription. We found that among genes with focused initiation patterns, the TCE is significantly enriched in core promoters of genes that are specifically expressed in testes but not in core promoters of genes that are specifically expressed in other tissues. The TCE is variably located in core promoters and is conserved in melanogaster subgroup species, but conservation dramatically drops in more distant species. In transgenic flies, short (300-400 bp) genomic regions containing a TCE directed testis-specific transcription of a reporter gene. Mutation of the TCE significantly reduced but did not abolish reporter gene transcription indicating that the TCE is important but not essential for transcription activation. Finally, mutation of testis-specific TFIID (tTFIID) subunits significantly reduced the transcription of a subset of endogenous TCE-containing but not TCE-lacking genes, suggesting that tTFIID activity is limited to TCE-containing genes but that tTFIID is not an obligatory regulator of TCE-containing genes. Thus, the TCE is a core promoter element in a subset of genes that are specifically expressed in testes. Furthermore, the TCE regulates transcription in the context of short genomic regions, from variable locations in the core promoter, and both dependently and independently of tTFIID. These findings set the stage for determining the mechanism by which the TCE regulates testis-specific transcription and understanding the

  1. Optimizing Combinations of Flavonoids Deriving from Astragali Radix in Activating the Regulatory Element of Erythropoietin by a Feedback System Control Scheme

    Directory of Open Access Journals (Sweden)

    Hui Yu

    2013-01-01

    Full Text Available Identifying potent drug combination from a herbal mixture is usually quite challenging, due to a large number of possible trials. Using an engineering approach of the feedback system control (FSC scheme, we identified the potential best combinations of four flavonoids, including formononetin, ononin, calycosin, and calycosin-7-O-β-D-glucoside deriving from Astragali Radix (AR; Huangqi, which provided the best biological action at minimal doses. Out of more than one thousand possible combinations, only tens of trials were required to optimize the flavonoid combinations that stimulated a maximal transcriptional activity of hypoxia response element (HRE, a critical regulator for erythropoietin (EPO transcription, in cultured human embryonic kidney fibroblast (HEK293T. By using FSC scheme, 90% of the work and time can be saved, and the optimized flavonoid combinations increased the HRE mediated transcriptional activity by ~3-fold as compared with individual flavonoid, while the amount of flavonoids was reduced by ~10-fold. Our study suggests that the optimized combination of flavonoids may have strong effect in activating the regulatory element of erythropoietin at very low dosage, which may be used as new source of natural hematopoietic agent. The present work also indicates that the FSC scheme is able to serve as an efficient and model-free approach to optimize the drug combination of different ingredients within a herbal decoction.

  2. Application of INAA for chemical quality control analysis of C-C composite and high purity graphite by determining trace elemental concentrations

    International Nuclear Information System (INIS)

    Shinde, Amol D.; Reddy, A.V.R.; Acharya, R.; Venugopalan, Ramani

    2015-01-01

    Carbon based materials like graphite and C-C composites are used for various scientific and technological applications. Owing to its low neutron capture cross section and good moderating properties, graphite is used as a moderator or reflector in nuclear reactors. For high temperature reactors like CHTR, graphite and C-C composites are proposed as structural materials. Studies are in progress to use C-C composites as prospective candidate instead of graphite due to their excellent mechanical and thermal properties. The advantage of carbon-carbon composite is that the microstructure and the properties can be tailor made. Impurities like rare earth elements and neutron poisons which have high neutron absorption cross section and elements whose activation products of have longer half-lives like 60 Co (5.27 y), 65 Zn (244.3 d) and 59 Fe (44.5 d) are not desired in structural materials. For chemical quality control (CQC) it is necessary to evaluate accurately the impurity concentrations using a suitable non-destructive analytical technique. In the present work, two carbon/carbon composite samples and two high purity graphite samples were analyzed by Instrumental Neutron Activation Analysis (INAA) using high-flux reactor neutrons. Samples, sealed in Al foil, were irradiated in tray-rod position of Dhruva reactor, BARC at a neutron flux of ∼ 5 x 10 13 cm -2 s -1 . Radioactive assay was carried out using high resolution gamma ray spectrometry using 40% HPGe detector

  3. Realization of Current Mode Universal Filter and a Dual-Mode Single Resistance Controlled Quadrature Oscillator Employing VDCC and Only Grounded Passive Elements

    Directory of Open Access Journals (Sweden)

    Manish Gupta

    2017-01-01

    Full Text Available The manuscript presents a circuit that can act as a universal filter as well as a single resistence controlled oscillator by unpretentiously changing the switch positions. The circuit employs only two active devices and all grounded passive elements. The utilization of only grounded passive components makes this circuit a better choice for integrated circuit implementation. The current mode biquadratic filter offers all the five basic responses along with independent tunability of its quality factor. The dual-mode quadrature sinusoidal oscillator offers explicit current outputs along with voltage outputs. The circuit also offers a simple and uncoupled condition of oscillation and frequency of oscillation. The typical analysis such as non-ideal, sensitivity and parasitic analysis along with the regular simulation results as well as experimental results are exposed here, to strengthen the design idea.

  4. Ribosomal proteins S12 and S13 function as control elements for translocation of the mRNA:tRNA complex.

    Science.gov (United States)

    Cukras, Anthony R; Southworth, Daniel R; Brunelle, Julie L; Culver, Gloria M; Green, Rachel

    2003-08-01

    Translocation of the mRNA:tRNA complex through the ribosome is promoted by elongation factor G (EF-G) during the translation cycle. Previous studies established that modification of ribosomal proteins with thiol-specific reagents promotes this event in the absence of EF-G. Here we identify two small subunit interface proteins S12 and S13 that are essential for maintenance of a pretranslocation state. Omission of these proteins using in vitro reconstitution procedures yields ribosomal particles that translate in the absence of enzymatic factors. Conversely, replacement of cysteine residues in these two proteins yields ribosomal particles that are refractive to stimulation with thiol-modifying reagents. These data support a model where S12 and S13 function as control elements for the more ancient rRNA- and tRNA-driven movements of translocation.

  5. Hydrothermal replacement of biogenic and abiogenic aragonite by Mg-carbonates - Relation between textural control on effective element fluxes and resulting carbonate phase

    Science.gov (United States)

    Jonas, Laura; Müller, Thomas; Dohmen, Ralf; Immenhauser, Adrian; Putlitz, Benita

    2017-01-01

    Dolomitization, i.e., the secondary replacement of calcite or aragonite (CaCO3) by dolomite (CaMg[CO3]2), is one of the most volumetrically important carbonate diagenetic processes. It occurs under near surface and shallow burial conditions and can significantly modify rock properties through changes in porosity and permeability. Dolomitization fronts are directly coupled to fluid pathways, which may be related to the initial porosity/permeability of the precursor limestone, an existing fault network or secondary porosity/permeability created through the replacement reaction. In this study, the textural control on the replacement of biogenic and abiogenic aragonite by Mg-carbonates, that are typical precursor phases in the dolomitization process, was experimentally studied under hydrothermal conditions. Aragonite samples with different textural and microstructural properties exhibiting a compact (inorganic aragonite single crystal), an intermediate (bivalve shell of Arctica islandica) and open porous structure (skeleton of coral Porites sp.) were reacted with a solution of 0.9 M MgCl2 and 0.015 M SrCl2 at 200 °C. The replacement of aragonite by a Ca-bearing magnesite and a Mg-Ca carbonate of non-stoichiometric dolomitic composition takes place via a dissolution-precipitation process and leads to the formation of a porous reaction front that progressively replaces the aragonite precursor. The reaction leads to the development of porosity within the reaction front and distinctive microstructures such as gaps and cavities at the reaction interface. The newly formed reaction rim consists of chemically distinct phases separated by sharp boundaries. It was found that the number of phases and their chemical variation decreases with increasing initial porosity and reactive surface area. This observation is explained by variations in effective element fluxes that result in differential chemical gradients in the fluid within the pore space of the reaction rim. Observed

  6. Fuel element

    International Nuclear Information System (INIS)

    Kennedy, S.T.

    1982-01-01

    A nuclear reactor fuel element wherein a stack of nuclear fuel is prevented from displacement within its sheath by a retainer comprising a tube member which is radially expanded into frictional contact with the sheath by means of a captive ball within a tapered bore. (author)

  7. Transactinide elements

    International Nuclear Information System (INIS)

    Hemingway, J.D.

    1975-01-01

    The review is covered in sections, entitled: predicted nuclear properties - including closed shells, decay characteristics; predicted chemical properties - including electronic structure and calculated properties, X-radiation, extrapolated chemical properties, separation chemistry; methods of synthesis; the natural occurrence of superheavy elements. (U.K.)

  8. Effects of an Oral Elemental Nutritional Supplement on Post-gastrectomy Body Weight Loss in Gastric Cancer Patients: A Randomized Controlled Clinical Trial.

    Science.gov (United States)

    Imamura, Hiroshi; Nishikawa, Kazuhiro; Kishi, Kentaro; Inoue, Kentaro; Matsuyama, Jin; Akamaru, Yusuke; Kimura, Yutaka; Tamura, Shigeyuki; Kawabata, Ryohei; Kawada, Junji; Fujiwara, Yoshiyuki; Kawase, Tomono; Fukui, Junichi; Takagi, Mari; Takeno, Atsushi; Shimokawa, Toshio

    2016-09-01

    Post-gastrectomy weight loss is associated with deterioration in quality of life, and influences the long-term prognosis of gastric cancer patients. We conducted a prospective, randomized controlled, open-label study to examine whether an oral elemental diet (Elental(®), Ajinomoto Pharmaceuticals, Tokyo, Japan; hereafter referred to as ED) prevents postoperative weight loss in post-gastrectomy patients. Patients were randomly divided to receive the ED or control diet. The ED group received 300 kcal of ED plus their regular diet for 6-8 weeks after surgery, starting from the day the patient started a soft rice or equivalent diet after surgery, while the control group received the regular diet alone. The primary endpoint was the percentage of body weight loss (%BWL) from the presurgical body weight to that at 6-8 weeks after surgery. Secondary endpoints were dietary adherence, nutrition-related blood parameters, and adverse events. This study included 112 patients in eight hospitals. The mean treatment compliance rate in the ED group was 68.7 ± 30.4 % (median 81.2 %). The %BWL was significantly different between the ED and control groups (4.86 ± 3.72 vs. 6.60 ± 4.90 %, respectively; p = 0.047). In patients who underwent total gastrectomy, the %BWL was significantly different between the two groups (5.03 ± 3.65 vs. 9.13 ± 5.43 %, respectively; p = 0.012). In multivariate analysis, ED treatment, surgery type, and preoperative performance status were independently associated with %BWL. No significant differences were observed in the other clinical variables. ED supplementation reduced postoperative weight loss in gastric cancer patients undergoing gastrectomy.

  9. Irradiation resistance of intravolume shading elements embedded in photomasks used for CD uniformity control by local intra-field transmission attenuation

    Science.gov (United States)

    Zait, Eitan; Ben-Zvi, Guy; Dmitriev, Vladimir; Oshemkov, Sergey; Pforr, Rainer; Hennig, Mario

    2006-05-01

    Intra-field CD variation is, besides OPC errors, a main contributor to the total CD variation budget in IC manufacturing. It is caused mainly by mask CD errors. In advanced memory device manufacturing the minimum features are close to the resolution limit resulting in large mask error enhancement factors hence large intra-field CD variations. Consequently tight CD Control (CDC) of the mask features is required, which results in increasing significantly the cost of mask and hence the litho process costs. Alternatively there is a search for such techniques (1) which will allow improving the intrafield CD control for a given moderate mask and scanner imaging performance. Currently a new technique (2) has been proposed which is based on correcting the printed CD by applying shading elements generated in the substrate bulk of the mask by ultrashort pulsed laser exposure. The blank transmittance across a feature is controlled by changing the density of light scattering pixels. The technique has been demonstrated to be very successful in correcting intra-field CD variations caused by the mask and the projection system (2). A key application criterion of this technique in device manufacturing is the stability of the absorbing pixels against DUV light irradiation being applied during mask projection in scanners. This paper describes the procedures and results of such an investigation. To do it with acceptable effort a special experimental setup has been chosen allowing an evaluation within reasonable time. A 193nm excimer laser with pulse duration of 25 ns has been used for blank irradiation. Accumulated dose equivalent to 100,000 300 mm wafer exposures has been applied to Half Tone PSM mask areas with and without CDC shadowing elements. This allows the discrimination of effects appearing in treated and untreated glass regions. Several intensities have been investigated to define an acceptable threshold intensity to avoid glass compaction or generation of color centers in

  10. The epigenetic control of transposable elements and imprinted genes in newborns is affected by the mode of conception: ART versus spontaneous conception without underlying infertility.

    Science.gov (United States)

    Choux, C; Binquet, C; Carmignac, V; Bruno, C; Chapusot, C; Barberet, J; Lamotte, M; Sagot, P; Bourc'his, D; Fauque, P

    2018-02-01

    Do assisted reproductive technologies alter DNA methylation and/or transcription of transposable elements and imprinted genes in cord blood and placenta? After ART, DNA methylation and/or transcription changes of some transposable elements and imprinted genes were found in placenta samples while transcription modifications for some transposable elements were also discovered in cord blood. Recent studies have confirmed the increased risk of placenta-related adverse pregnancy outcomes and the excess of imprinted disorders with abnormal methylation patterns after ART, which raises the issue of a potential ART-induced epigenetic risk. A total of 51 IVF/ICSI (15 conventional and 36 ICSI) singleton pregnancies were prospectively included from January 2013 to April 2015 and compared to 48 spontaneously conceived singleton pregnancies. The DNA methylation and transcription of three imprinted loci (H19/IGF2, KCNQ1OT1 and SNURF DMRs) and four transposon families (LINE-1, ERVFRD, AluYa5 and ERVW) in cord blood and placenta obtained at birth were assessed by pyrosequencing and quantitative RT-PCR, respectively. All data were adjusted for gestational age at delivery, sex of the newborn, parity and maternal age. DNA methylation levels of H19/IGF2, KCNQ1OT1, LINE-1Hs and ERVFRD-1 were significantly lower in IVF/ICSI placentas than in control placentas, while there was no difference for cord blood. Moreover, the expression of ERVFRD-1 and LINE-1 ORF2 in cord blood and ERVFRD-1 in placenta was lower in the IVF/ICSI group than in controls. The expression of ERVFRD-1 in placenta correlated positively with birth weight and placenta weight, but only in the control group, thus pointing to the potential deregulation of syncytin function after ART. N/A. The control group of fertile couples having conceived within 1 year prevented us from deciphering the distinct roles of ART and infertility. These novel findings of ERVFRD (syncytin-2) expression correlating with birth weight and placenta

  11. New elements

    International Nuclear Information System (INIS)

    Flerov, G.

    1976-01-01

    The history is briefly described of the investigation of superheavy elements at the Joint Institute for Nuclear Research at Dubna. The significance of the investigation is assessed from the point of view of the nuclear structure study and major problems encountered in experimental efforts are indicated. Current experimental methods aiming at the discovery or the production of superheavy nuclei with Z approximately 114 are listed. (I.W.)

  12. The Drosophila Translational Control Element (TCE is required for high-level transcription of many genes that are specifically expressed in testes.

    Directory of Open Access Journals (Sweden)

    Rebeccah J Katzenberger

    Full Text Available To investigate the importance of core promoter elements for tissue-specific transcription of RNA polymerase II genes, we examined testis-specific transcription in Drosophila melanogaster. Bioinformatic analyses of core promoter sequences from 190 genes that are specifically expressed in testes identified a 10 bp A/T-rich motif that is identical to the translational control element (TCE. The TCE functions in the 5' untranslated region of Mst(3CGP mRNAs to repress translation, and it also functions in a heterologous gene to regulate transcription. We found that among genes with focused initiation patterns, the TCE is significantly enriched in core promoters of genes that are specifically expressed in testes but not in core promoters of genes that are specifically expressed in other tissues. The TCE is variably located in core promoters and is conserved in melanogaster subgroup species, but conservation dramatically drops in more distant species. In transgenic flies, short (300-400 bp genomic regions containing a TCE directed testis-specific transcription of a reporter gene. Mutation of the TCE significantly reduced but did not abolish reporter gene transcription indicating that the TCE is important but not essential for transcription activation. Finally, mutation of testis-specific TFIID (tTFIID subunits significantly reduced the transcription of a subset of endogenous TCE-containing but not TCE-lacking genes, suggesting that tTFIID activity is limited to TCE-containing genes but that tTFIID is not an obligatory regulator of TCE-containing genes. Thus, the TCE is a core promoter element in a subset of genes that are specifically expressed in testes. Furthermore, the TCE regulates transcription in the context of short genomic regions, from variable locations in the core promoter, and both dependently and independently of tTFIID. These findings set the stage for determining the mechanism by which the TCE regulates testis-specific transcription and

  13. Statistical elements in calculations procedures for air quality control; Elementi di statistica nelle procedure di calcolo per il controllo della qualita' dell'aria

    Energy Technology Data Exchange (ETDEWEB)

    Mura, M.C. [Istituto Superiore di Sanita' , Laboratorio di Igiene Ambientale, Rome (Italy)

    2001-07-01

    The statistical processing of data resulting from the monitoring of chemical atmospheric pollution aimed at air quality control is presented. The form of procedural models may offer a practical instrument to the operators in the sector. The procedural models are modular and can be easily integrated with other models. They include elementary calculation procedures and mathematical methods for statistical analysis. The calculation elements have been developed by probabilistic induction so as to relate them to the statistical analysis. The calculation elements have been developed by probabilistic induction so as to relate them to the statistical models, which are the basis of the methods used for the study and the forecast of atmospheric pollution. This report is part of the updating and training activity that the Istituto Superiore di Sanita' has been carrying on for over twenty years, addressed to operators of the environmental field. [Italian] Il processo di elaborazione statistica dei dati provenienti dal monitoraggio dell'inquinamento chimico dell'atmosfera, finalizzato al controllo della qualita' dell'aria, e' presentato in modelli di procedure al fine di fornire un sintetico strumento di lavoro agli operatori del settore. I modelli di procedure sono modulari ed integrabili. Includono gli elementi di calcolo elementare ed i metodi statistici d'analisi. Gli elementi di calcolo sono sviluppati con metodo d'induzione probabilistica per collegarli ai modelli statistici, che sono alla base dei metodi d'analisi nello studio del fenomeno dell'inquinamento atmosferico anche a fini previsionali. Il rapporto si inserisce nell'attivita' di aggiornamento e di formazione che fin dagli anni ottanta l'Istituto Superiore di Sanita' indirizza agli operatori del settore ambientale.

  14. Murine homeobox-containing gene, Msx-1: analysis of genomic organization, promoter structure, and potential autoregulatory cis-acting elements.

    Science.gov (United States)

    Kuzuoka, M; Takahashi, T; Guron, C; Raghow, R

    1994-05-01

    Detailed molecular organization of the coding and upstream regulatory regions of the murine homeodomain-containing gene, Msx-1, is reported. The protein-encoding portion of the gene is contained in two exons, 590 and 1214 bp in length, separated by a 2107-bp intron; the homeodomain is located in the second exon. The two-exon organization of the murine Msx-1 gene resembles a number of other homeodomain-containing genes. The 5'-(GTAAGT) and 3'-(CCCTAG) splicing junctions and the mRNA polyadenylation signal (UAUAA) of the murine Msx-1 gene are also characteristic of other vertebrate genes. By nuclease protection and primer extension assays, the start of transcription of the Msx-1 gene was located 256 bp upstream of the first AUG. Computer analysis of the promoter proximal 1280-bp sequence revealed a number of potentially important cis-regulatory sequences; these include the recognition elements for Ap-1, Ap-2, Ap-3, Sp-1, a possible binding site for RAR:RXR, and a number of TCF-1 consensus motifs. Importantly, a perfect reverse complement of (C/G)TTAATTG, which was recently shown to be an optimal binding sequence for the homeodomain of Msx-1 protein (K.M. Catron, N. Iler, and C. Abate (1993) Mol. Cell. Biol. 13:2354-2365), was also located in the murine Msx-1 promoter. Binding of bacterially expressed Msx-1 homeodomain polypeptide to Msx-1-specific oligonucleotide was experimentally demonstrated, raising a distinct possibility of autoregulation of this developmentally regulated gene.

  15. Chromatin Heterogeneity and Distribution of Regulatory Elements in the Late-Replicating Intercalary Heterochromatin Domains of Drosophila melanogaster Chromosomes.

    Directory of Open Access Journals (Sweden)

    Varvara A Khoroshko

    Full Text Available Late-replicating domains (intercalary heterochromatin in the Drosophila genome display a number of features suggesting their organization is quite unique. Typically, they are quite large and encompass clusters of functionally unrelated tissue-specific genes. They correspond to the topologically associating domains and conserved microsynteny blocks. Our study aims at exploring further details of molecular organization of intercalary heterochromatin and has uncovered surprising heterogeneity of chromatin composition in these regions. Using the 4HMM model developed in our group earlier, intercalary heterochromatin regions were found to host chromatin fragments with a particular epigenetic profile. Aquamarine chromatin fragments (spanning 0.67% of late-replicating regions are characterized as a class of sequences that appear heterogeneous in terms of their decompactization. These fragments are enriched with enhancer sequences and binding sites for insulator proteins. They likely mark the chromatin state that is related to the binding of cis-regulatory proteins. Malachite chromatin fragments (11% of late-replicating regions appear to function as universal transitional regions between two contrasting chromatin states. Namely, they invariably delimit intercalary heterochromatin regions from the adjacent active chromatin of interbands. Malachite fragments also flank aquamarine fragments embedded in the repressed chromatin of late-replicating regions. Significant enrichment of insulator proteins CP190, SU(HW, and MOD2.2 was observed in malachite chromatin. Neither aquamarine nor malachite chromatin types appear to correlate with the positions of highly conserved non-coding elements (HCNE that are typically replete in intercalary heterochromatin. Malachite chromatin found on the flanks of intercalary heterochromatin regions tends to replicate earlier than the malachite chromatin embedded in intercalary heterochromatin. In other words, there exists a

  16. A modification of a conventional feed water three-element control strategy to solve problems of drum level control; Una modificacion de un sistema convencional de control de agua de alimentacion de tres elementos para resolver problemas de control de nivel del tambor

    Energy Technology Data Exchange (ETDEWEB)

    Delgadillo Valencia, Miguel Angel; Hernandez Cuellar, Maria Aurora [Instituto de Investigaciones Electricas, Cuernavaca, Morelos (Mexico)

    2008-07-01

    A control strategy for the drum level control of a combined cycle power plant is presented. This strategy is based on the conventional three element system with variable proportional gain in the master and slave controllers. The dynamic behavior of the proposed strategy is compared with a former one showing a better answer especially at full load (generated electric energy) with the supplementary fire (duct burners or after burners) in operation. When the feed water control valve is near its full opening, this strategy can avoid as much as possible the saturation of the control signal to the valve, with elimination of the permanent oscillation of the controlled variable (drum level). The control system behavior also shows good stability from start up to full load, including the transition from one to three elements operating mode and vice verse, as well as the duct burners' ignition. Similar stability is shown during the stop of the Heat Recovery Steam Generator (HRSG) from full load with duct fire in operation to the HRSG out of service. Due to the performance of the blocks communication software of the commercial equipment in use, a transition band of the steam flow signal is proposed, in order to assure a three to one or one to three element bump less transfer operation. Simulation laboratory tests were applied to the proposed control strategy with a simplified dynamic process model, before the control system was put into operation in site. Real process runs and the control-tune parameters are presented. [Spanish] Estudios de investigacion muestran interes en resolver problemas de inestabilidad de control de nivel, en generadores de vapor de plantas generadoras de energia electrica, disenando modelos del fenomeno del nivel del domo, para establecer una estrategia de control para sistemas de control de agua de alimentacion. Sin embargo, una estrategia de control basada en un modelo puede ser dificil de entender para los ingenieros de control, especialmente

  17. Radiographic element

    International Nuclear Information System (INIS)

    Abbott, T.I.; Jones, C.G.

    1984-01-01

    Radiographic elements are disclosed comprised of first and second silver halide emulsion layers separated by an interposed support capable of transmitting radiation to which the second image portion is responsive. At least the first imaging portion contains a silver halide emulsion in which thin tubular silver halide grains of intermediate aspect ratios (from 5:1 to 8:1) are present. Spectral sensitizing dye is adsorbed to the surface of the tubular grains. Increased photographic speeds can be realized at comparable levels of crossover. (author)

  18. Superheavy elements

    CERN Document Server

    Hofmann, S

    1999-01-01

    The outstanding aim of experimental investigations of heavy nuclei is the exploration of spherical 'SuperHeavy Elements' (SHEs). On the basis of the nuclear shell model, the next double magic shell-closure beyond sup 2 sup 0 sup 8 Pb is predicted at proton numbers between Z=114 and 126 and at neutron number N=184. All experimental efforts aiming at identifying SHEs (Z>=114) were negative so far. A highly sensitive search experiment was performed in November-December 1995 at SHIP. The isotope sup 2 sup 9 sup 0 116 produced by 'radiative capture' was searched for in the course of a 33 days irradiation of a sup 2 sup 0 sup 8 Pb target with sup 8 sup 2 Se projectiles, however, only cross-section limits were measured. Positive results were obtained in experiments searching for elements from 110 to 112 using cold fusion and the 1n evaporation channel. The produced isotopes were unambiguously identified by means of alpha-alpha correlations. Not fission, but alpha emission is the dominant decay mode. The measurement ...

  19. Fuel element

    International Nuclear Information System (INIS)

    Hirose, Yasuo.

    1982-01-01

    Purpose: To increase the plenum space in a fuel element used for a liquid metal cooled reactor. Constitution: A fuel pellet is secured at one end with an end plug and at the other with a coil spring in a tubular container. A mechanism for fixing the coil spring composed of a tubular unit is mounted by friction with the inner surface of the tubular container. Accordingly, the recoiling force of the coil spring can be retained by fixing mechanism with a small volume, and since a large amount of plenum space can be obtained, the internal pressure rise in the cladding tube can be suppressed even if large quantities of fission products are discharged. (Kamimura, M.)

  20. Analog elements for transuranic chemistries

    International Nuclear Information System (INIS)

    Weimer, W.C.

    1982-01-01

    The analytical technique for measuring trace concentrations of the analog rare earth elements has been refined for optimal detection. The technique has been used to determine the rare earth concentrations in a series of geological and biological materials, including samples harvested from controlled lysimeter investigations. These studies have demonstrated that any of the trivalent rare earth elements may be used as analog elements for the trivalent transuranics, americium and curium

  1. Fuel Element Technical Manual

    Energy Technology Data Exchange (ETDEWEB)

    Burley, H.H. [ed.

    1956-08-01

    It is the purpose of the Fuel Element Technical Manual to Provide a single document describing the fabrication processes used in the manufacture of the fuel element as well as the technical bases for these processes. The manual will be instrumental in the indoctrination of personnel new to the field and will provide a single data reference for all personnel involved in the design or manufacture of the fuel element. The material contained in this manual was assembled by members of the Engineering Department and the Manufacturing Department at the Hanford Atomic Products Operation between the dates October, 1955 and June, 1956. Arrangement of the manual. The manual is divided into six parts: Part I--introduction; Part II--technical bases; Part III--process; Part IV--plant and equipment; Part V--process control and improvement; and VI--safety.

  2. Automatic Inspection of Co-Laminated Elements; Controle Automatique d'Elements Colamines; Avtomaticheskij kontrol' ul'trazvukom sovmestno prokatannykh ehlementov; Metodo para la Verificacion Automatica de Elementos Colaminados

    Energy Technology Data Exchange (ETDEWEB)

    Destribats, Marie-Therese [Centre d' Etudes Nucleaires de Saclay (France); Dory, J. [Realisations Ultrasoniques Meaux (S. et M.) (France)

    1965-09-15

    The paper describes an automatic device for the ultrasonic inspection of co-laminated fuel element claddings. The elements are placed in a stainless steel tank filled with water and are carried under the ultrasonic beam by rollers. An auxiliary reflector makes it possible to use the same transducer for both emission and reception. The plates are scanned by six transducers fixed around the edge of a rotating disc, each transducer being brought into action every one-sixth turn by relays triggered by magnetized sectors, so that the ultrasonic pencil traces a series of linked arcs on the surface of the plate. The amount of energy passing through the plate is measured accurately at each point. The measured value is fed into a special recorder which traces a full-scale image of the element inspected (the instrument uses ordinary paper and records by means of carbon papery. Flaws appear as dark patches on the recording. The apparatus can operate either at all-or-nothing response with a pre-determined marking threshold, or at half-tone response. The transducers, which work on a variable frequency between 3 and 15 MHz, are excited by short pulses; they are of barium titanate and 3 mm in diam. The scanning track can be varied from 0.3 to 0.6 mm,, with a linear speed of 5-20 mm/s. The apparatus can accept elements of the following maximum dimensions: width - 150 mm, length - 2000 mm, thickness - 25 mm. Trials already carried out have disclosed unbonded areas of 0.5 mm diam. in elements 2 mm thick. (author) [French] Les auteurs decrivent un appareillage automatique destine a verifier, par une methode ultrasonore, la qualite du gainage des elements colamines. Ces elements, immerges dans une cuve en acier inoxydable remplie d'eau et entraines par des rouleaux, defilent sous le faisceau ultrasonore. Un reflecteur auxiliaire permet d'utiliser le meme traducteur pour remission et la reception. L'exploration des plaques est realisee par six traducteurs situes a la peripherie d

  3. From soil water to surface water – how the riparian zone controls element transport from a boreal forest to a stream

    Directory of Open Access Journals (Sweden)

    F. Lidman

    2017-06-01

    Full Text Available Boreal headwaters are often lined by strips of highly organic soils, which are the last terrestrial environment to leave an imprint on discharging groundwater before it enters a stream. Because these riparian soils are so different from the Podzol soils that dominate much of the boreal landscape, they are known to have a major impact on the biogeochemistry of important elements such as C, N, P and Fe and the transfer of these elements from terrestrial to aquatic ecosystems. For most elements, however, the role of the riparian zone has remained unclear, although it should be expected that the mobility of many elements is affected by changes in, for example, pH, redox potential and concentration of organic carbon as they are transported through the riparian zone. Therefore, soil water and groundwater was sampled at different depths along a 22 m hillslope transect in the Krycklan catchment in northern Sweden using soil lysimeters and analysed for a large number of major and trace elements (Al, As, B, Ba, Ca, Cd, Cl, Co, Cr, Cs, Cu, Fe, K, La, Li, Mg, Mn, Na, Ni, Pb, Rb, Se, Si, Sr, Th, Ti, U, V, Zn, Zr and other parameters such as sulfate and total organic carbon (TOC. The results showed that the concentrations of most investigated elements increased substantially (up to 60 times as the water flowed from the uphill mineral soils and into the riparian zone, largely as a result of higher TOC concentrations. The stream water concentrations of these elements were typically somewhat lower than in the riparian zone, but still considerably higher than in the uphill mineral soils, which suggests that riparian soils have a decisive impact on the water quality of boreal streams. The degree of enrichment in the riparian zone for different elements could be linked to the affinity for organic matter, indicating that the pattern with strongly elevated concentrations in riparian soils is typical for organophilic substances. One likely explanation is that the

  4. Estrogen Receptor β (ERβ1) Transactivation Is Differentially Modulated by the Transcriptional Coregulator Tip60 in a cis-Acting Element-dependent Manner*

    Science.gov (United States)

    Lee, Ming-Tsung; Leung, Yuet-Kin; Chung, Irving; Tarapore, Pheruza; Ho, Shuk-Mei

    2013-01-01

    Estrogen receptor (ER) β1 and ERα have overlapping and distinct functions despite their common use of estradiol as the physiological ligand. These attributes are explained in part by their differential utilization of coregulators and ligands. Although Tip60 has been shown to interact with both receptors, its regulatory role in ERβ1 transactivation has not been defined. In this study, we found that Tip60 enhances transactivation of ERβ1 at the AP-1 site but suppresses its transcriptional activity at the estrogen-response element (ERE) site in an estradiol-independent manner. However, different estrogenic compounds can modify the Tip60 action. The corepressor activity of Tip60 at the ERE site is abolished by diarylpropionitrile, genistein, equol, and bisphenol A, whereas its coactivation at the AP-1 site is augmented by fulvestrant (ICI 182,780). GRIP1 is an important tethering mediator for ERs at the AP-1 site. We found that coexpression of GRIP1 synergizes the action of Tip60. Although Tip60 is a known acetyltransferase, it is unable to acetylate ERβ1, and its coregulatory functions are independent of its acetylation activity. In addition, we showed the co-occupancy of ERβ1 and Tip60 at ERE and AP-1 sites of ERβ1 target genes. Tip60 differentially regulates the endogenous expression of the target genes by modulating the binding of ERβ1 to the cis-regulatory regions. Thus, we have identified Tip60 as the first dual-function coregulator of ERβ1. PMID:23857583

  5. Identification of two evolutionarily conserved 5' cis-elements involved in regulating spatiotemporal expression of Nolz-1 during mouse embryogenesis.

    Directory of Open Access Journals (Sweden)

    Sunny Li-Yun Chang

    Full Text Available Proper development of vertebrate embryos depends not only on the crucial funtions of key evolutionarily conserved transcriptional regulators, but also on the precisely spatiotemporal expression of these transcriptional regulators. The mouse Nolz-1/Znf503/Zfp503 gene is a mammalian member of the conserved zinc-finger containing NET family. The expression pattern of Nolz-1 in mouse embryos is highly correlated with that of its homologues in different species. To study the spatiotemporal regulation of Nolz-1, we first identified two evolutionarily conserved cis-elements, UREA and UREB, in 5' upstream regions of mouse Nolz-1 locus. We then generated UREA-LacZ and UREB-LacZ transgenic reporter mice to characterize the putative enhancer activity of UREA and UREB. The results indicated that both UREA and UREB contained tissue-specific enhancer activity for directing LacZ expression in selective tissue organs during mouse embryogensis. UREA directed LacZ expression preferentially in selective regions of developing central nervous system, including the forebrain, hindbrain and spinal cord, whereas UREB directed LacZ expression mainly in other developing tissue organs such as the Nolz-1 expressing branchial arches and its derivatives, the apical ectodermal ridge of limb buds and the urogenital tissues. Both UREA and UREB directed strong LacZ expression in the lateral plate mesoderm where endogenous Nolz-1 was also expressed. Despite that the LacZ expression pattern did not full recapitulated the endogenous Nolz-1 expression and some mismatched expression patterns were observed, co-expression of LacZ and Nolz-1 did occur in many cells of selective tissue organs, such as in the ventrolateral cortex and ventral spinal cord of UREA-LacZ embryos, and the urogenital tubes of UREB-LacZ embryos. Taken together, our study suggests that UREA and UREB may function as evolutionarily conserved cis-regulatory elements that coordinate with other cis-elements to regulate

  6. Executive function training with game elements for obese children: A novel treatment to enhance self-regulatory abilities for weight-control

    NARCIS (Netherlands)

    Verbeken, S.; Braet, C.; Goossens, L.; van der Oord, S.

    2013-01-01

    For obese children behavioral treatment results in only small changes in relative weight and frequent relapse. The current study investigated the effects of an Executive Functioning (EF) training with game-elements on weight loss maintenance in obese children, over and above the care as usual in an

  7. The T box regulatory element controlling expression of the class I lysyl-tRNA synthetase of Bacillus cereus strain 14579 is functional and can be partially induced by reduced charging of asparaginyl-tRNAAsn

    LENUS (Irish Health Repository)

    Foy, Niall

    2010-07-22

    Abstract Background Lysyl-tRNA synthetase (LysRS) is unique within the aminoacyl-tRNA synthetase family in that both class I (LysRS1) and class II (LysRS2) enzymes exist. LysRS1 enzymes are found in Archaebacteria and some eubacteria while all other organisms have LysRS2 enzymes. All sequenced strains of Bacillus cereus (except AH820) and Bacillus thuringiensis however encode both a class I and a class II LysRS. The lysK gene (encoding LysRS1) of B. cereus strain 14579 has an associated T box element, the first reported instance of potential T box control of LysRS expression. Results A global study of 891 completely sequenced bacterial genomes identified T box elements associated with control of LysRS expression in only four bacterial species: B. cereus, B. thuringiensis, Symbiobacterium thermophilum and Clostridium beijerinckii. Here we investigate the T box element found in the regulatory region of the lysK gene in B. cereus strain 14579. We show that this T box element is functional, responding in a canonical manner to an increased level of uncharged tRNALys but, unusually, also responding to an increased level of uncharged tRNAAsn. We also show that B. subtilis strains with T box regulated expression of the endogenous lysS or the heterologous lysK genes are viable. Conclusions The T box element controlling lysK (encoding LysRS1) expression in B. cereus strain 14579 is functional, but unusually responds to depletion of charged tRNALys and tRNAAsn. This may have the advantage of making LysRS1 expression responsive to a wider range of nutritional stresses. The viability of B. subtilis strains with a single LysRS1 or LysRS2, whose expression is controlled by this T box element, makes the rarity of the occurrence of such control of LysRS expression puzzling.

  8. Testing on air cleaning systems: Testing of the components in-place tests; Controle des installations d'epuration de l'air essais de conformite des elements: Tests in situ

    Energy Technology Data Exchange (ETDEWEB)

    Billard, F; Brion, J [Commissariat a l' Energie Atomique, Fontenay-aux-Roses (France). Centre d' Etudes Nucleaires

    1967-07-01

    The reliability of air cleaning systems is dependent on testing they are submitted to. Although in-place tests are the most important as they act as final tests upon achieved plants, component tests are necessary too. They allow detection of defective units before they are installed, partition of unit defects from mounting defects and they are more sensitive. For similar reasons, material teats are most useful. The various tests are described, about aerosol filters for one part, iodine trap for the other. The checked features are: materials nature, units sizes, efficiency, air resistance, flammability, humidity resistance, temperature resistance, adsorbent friability, etc... On iodine trapping systems, small check traps, working by-pass with the main trap are periodically subjected to efficiency test. This control allow to cut down the in-place tests frequency, particularly when poisoning from organic vapours is to be feared. (authors) [French] La surete de fonctionnement des installations d'epuratition de l'air esf fonction des controles auxquels ces installations sont soumises. Si les tests in situ sont les plus importants puisqu'ils constituent le controle final de l'installation terminee, les essais de conformite des elements constitutifs sont egalement necessaires. Ils permettent l'elimination d'elements defectueux avant leur mise en place, la discrimination des defauts du montage de ceux de l'element et sont en outre plus sensibles. De meme, le controle des materiaux constitutifs de l'element s'avere fort utile. On decrit les differents controles, d'une part, pour les fittres a aerosols, d'autre part, pour les pieges a iode. Les caracteristiques verifiees sont: nature des materiaux, dimenesions des elements, efficacite, perte de charge, resistance mecanique, inflammabilite, tenue a l'humidite, tenue a la temperature, resistance au detassement des pieges a iode, friabilite du materiau adsorbant, etc... En ce qui concerne les installations de piegeage d

  9. How geometry and structure control the seismic radiation : spectral element simulation of the dynamic rupture of the Mw 9.0 Tohoku earthquake

    Science.gov (United States)

    Festa, G.; Vilotte, J.; Scala, A.

    2012-12-01

    The M 9.0, 2011 Tohoku earthquake, along the North American-Pacific plate boundary, East of the Honshu Island, yielded a complex broadband rupture extending southwards over 600 km along strike and triggering a large tsunami that ravaged the East coast of North Japan. Strong motion and high-rate continuous GPS data, recorded all along the Japanese archipelago by the national seismic networks K-Net and Kik-net and geodetic network Geonet, together with teleseismic data, indicated a complex frequency dependent rupture. Low frequency signals (fmeters), extending along-dip over about 100 km, between the hypocenter and the trench, and 150 to 200 km along strike. This slip asperity was likely the cause of the localized tsunami source and of the large amplitude tsunami waves. High-frequency signals (f>0.5 Hz) were instead generated close to the coast in the deeper part of the subduction zone, by at least four smaller size asperities, with possible repeated slip, and were mostly the cause for the ground shaking felt in the Eastern part of Japan. The deep origin of the high-frequency radiation was also confirmed by teleseismic high frequency back projection analysis. Intermediate frequency analysis showed a transition between the shallow and deeper part of the fault, with the rupture almost confined in a small stripe containing the hypocenter before propagating southward along the strike, indicating a predominant in-plane rupture mechanism in the initial stage of the rupture itself. We numerically investigate the role of the geometry of the subduction interface and of the structural properties of the subduction zone on the broadband dynamic rupture and radiation of the Tohoku earthquake. Based upon the almost in-plane behavior of the rupture in its initial stage, 2D non-smooth spectral element dynamic simulations of the earthquake rupture propagation are performed including the non planar and kink geometry of the subduction interface, together with bi-material interfaces

  10. Finite element analysis of the macro fiber composite actuator: macroscopic elastic and piezoelectric properties and active control thereof by means of negative capacitance shunt circuit

    Czech Academy of Sciences Publication Activity Database

    Steiger, Kateřina; Mokrý, P.

    2015-01-01

    Roč. 24, č. 2 (2015), 025026-025026 ISSN 0964-1726 R&D Projects: GA MŠk(CZ) LO1206; GA ČR GA13-10365S Institutional support: RVO:61389021 Keywords : piezoelectric macro-fiber composite actuator * macroscopic material properties * finite element analysis (FEA) Subject RIV: BI - Acoustics Impact factor: 2.769, year: 2015 http://iopscience.iop.org/0964-1726

  11. Utilization of plastic detector for pool water radioactivity control of IEA-R1 reactor. Examination of fuel element irradiation behaviour fabricated at IPEN/CNEN-SP

    International Nuclear Information System (INIS)

    Berretta, J.R.; Mesquita, C.H. de; Madi Filho, T.

    1989-01-01

    For the examination of fuel element irradiation behavior that were fabricated at IPEN/CNEN/SP Metalurgical Departament, it was provided a detection system for pool water radioactivity measurements. This system uses a plastic scintillator detector produced at IPEN/CNEN-SP Health Physics Department, with dimensions and shape apropriated for such work. The detection system shows a sensibility of 4.125x10 -2 dps/cm 3 and 20% of efficiency for 131 I radiations. (author) [pt

  12. Transcriptional attenuation controls macrolide inducible efflux and resistance in Streptococcus pneumoniae and in other Gram-positive bacteria containing mef/mel(msr(D)) elements.

    Science.gov (United States)

    Chancey, Scott T; Bai, Xianhe; Kumar, Nikhil; Drabek, Elliott F; Daugherty, Sean C; Colon, Thomas; Ott, Sandra; Sengamalay, Naomi; Sadzewicz, Lisa; Tallon, Luke J; Fraser, Claire M; Tettelin, Hervé; Stephens, David S

    2015-01-01

    Macrolide resistance, emerging in Streptococcus pneumoniae and other Gram-positive bacteria, is increasingly due to efflux pumps encoded by mef/mel(msr) operons found on discrete mobile genetic elements. The regulation of mef/mel(msr) in these elements is not well understood. We identified the mef(E)/mel transcriptional start, localized the mef(E)/mel promoter, and demonstrated attenuation of transcription as a mechanism of regulation of macrolide-inducible mef-mediated macrolide resistance in S. pneumoniae. The mef(E)/mel transcriptional start site was a guanine 327 bp upstream of mef(E). Consensus pneumococcal promoter -10 (5'-TATACT-3') and -35 (5'-TTGAAC-3') boxes separated by 17 bp were identified 7 bp upstream of the start site. Analysis of the predicted secondary structure of the 327 5' region identified four pairs of inverted repeats R1-R8 predicted to fold into stem-loops, a small leader peptide [MTASMRLR, (Mef(E)L)] required for macrolide induction and a Rho-independent transcription terminator. RNA-seq analyses provided confirmation of transcriptional attenuation. In addition, expression of mef(E)L was also influenced by mef(E)L-dependent mRNA stability. The regulatory region 5' of mef(E) was highly conserved in other mef/mel(msr)-containing elements including Tn1207.1 and the 5612IQ complex in pneumococci and Tn1207.3 in Group A streptococci, indicating a regulatory mechanism common to a wide variety of Gram-positive bacteria containing mef/mel(msr) elements.

  13. Hydrogen in CANDU fuel elements

    International Nuclear Information System (INIS)

    Sejnoha, R.; Manzer, A.M.; Surette, B.A.

    1995-01-01

    Unirradiated and irradiated CANDU fuel cladding was tested to compare the role of stress-corrosion cracking and of hydrogen in the development of fuel defects. The results of the tests are compared with information on fuel performance in-reactor. The role of hydriding (deuteriding) from the coolant and from the fuel element inside is discussed, and the control of 'hydrogen gas' content in the element is confirmed as essential for defect-free fuel performance. Finally, implications for fuel element design are discussed. (author)

  14. Fluidic Elements based on Coanda Effect

    Directory of Open Access Journals (Sweden)

    Constantin OLIVOTTO

    2010-12-01

    Full Text Available This paper contains first some definitions and classifications regarding the fluidic elements. Thegeneral current status is presented, nominating the main specific elements based on the Coanda effect developedspecially in Romania. In particularly the development of an original bistable element using industrial compressedair at industrial pressure supply is presented. The function of this element is based on the controlled attachmentof the main jet at a curved wall through the Coanda effect. The methods used for particular calculation andexperiments are nominated. The main application of these elements was to develop a specific execution element:a fluidic step–by-step motor based on the Coanda effect.

  15. A unified architecture of transcriptional regulatory elements

    DEFF Research Database (Denmark)

    Andersson, Robin; Sandelin, Albin Gustav; Danko, Charles G.

    2015-01-01

    Gene expression is precisely controlled in time and space through the integration of signals that act at gene promoters and gene-distal enhancers. Classically, promoters and enhancers are considered separate classes of regulatory elements, often distinguished by histone modifications. However...... and enhancers are considered a single class of functional element, with a unified architecture for transcription initiation. The context of interacting regulatory elements and the surrounding sequences determine local transcriptional output as well as the enhancer and promoter activities of individual elements....

  16. Close linkage of the mouse and human CD3 γ- and δ-chain genes suggests that their transcription is controlled by common regulatory elements

    International Nuclear Information System (INIS)

    Saito, H.; Koyama, T.; Georgopoulos, K.; Clevers, H.; Haser, W.G.; LeBien, T.; Tonegawa, S.; Terhorst, C.

    1987-01-01

    Antigen receptors on the T-cell surface are noncovalently associated with at least four invariant polypeptide chains, CD3-γ, -δ, -epsilon, and -zeta. The mouse CD3-γ gene, consisting of seven exons, was found to be highly homologous to the CD3-γ described earlier. Both the high level of sequence homology and the exon/intron organization indicate that the CD3-γ and -δ genes arose by gene duplication. Surprisingly, murine and human genomic DNA clones could be isolated that contained elements of both the CD3-γ and CD3-δ genes. In fact, the putative transcription start site of the mouse CD3-γ gene is less than 1.4 kilobases from the transcription initiation site of the mouse CD3-δ gene. Common elements that regulate the divergent transcription of the two genes are therefore proposed to be located in the intervening 1.4-kilobase DNA segment. This might contribute to the coordinate expression of the CD3-γ and -δ genes during intrathymic maturation of T lymphocytes

  17. Finite element modelling of the oxidation kinetics of Zircaloy-4 with a controlled metal-oxide interface and the influence of growth stress

    International Nuclear Information System (INIS)

    Zumpicchiat, Guillaume; Pascal, Serge; Tupin, Marc; Berdin-Méric, Clotilde

    2015-01-01

    Highlights: We developed two finite element models of zirconium-based alloy oxidation using the CEA Cast3M code to simulate the oxidation kinetics of Zircaloy-4: the diffuse interface model and the sharp interface model. We also studied the effect of stresses on the oxidation kinetics. The main results are: • Both models lead to parabolic oxidation kinetics in agreement with the Wagner’s theory. • The modellings enable to calculate the stress distribution in the oxide as well as in the metal. • A strong effect of the hydrostatic stress on the oxidation kinetics has been evidenced. • The stress gradient effect changes the parabolic kinetics into a sub-parabolic law closer to the experimental kinetics because of the stress gradient itself, but also because of the growth stress increase with the oxide thickness. - Abstract: Experimentally, zirconium-based alloys oxidation kinetics is sub-parabolic, by contrast with the Wagner theory which predicts a parabolic kinetics. Two finite element models have been developed to simulate this phenomenon: the diffuse interface model and the sharp interface model. Both simulate parabolic oxidation kinetics. The growth stress effects on oxygen diffusion are studied to try to explain the gap between theory and experience. Taking into account the influence of the hydrostatic stress and its gradient into the oxygen flux expression, sub-parabolic oxidation kinetics have been simulated. The sub-parabolic behaviour of the oxidation kinetics can be explained by a non-uniform compressive stress level into the oxide layer.

  18. Discrete Element Modeling

    Energy Technology Data Exchange (ETDEWEB)

    Morris, J; Johnson, S

    2007-12-03

    The Distinct Element Method (also frequently referred to as the Discrete Element Method) (DEM) is a Lagrangian numerical technique where the computational domain consists of discrete solid elements which interact via compliant contacts. This can be contrasted with Finite Element Methods where the computational domain is assumed to represent a continuum (although many modern implementations of the FEM can accommodate some Distinct Element capabilities). Often the terms Discrete Element Method and Distinct Element Method are used interchangeably in the literature, although Cundall and Hart (1992) suggested that Discrete Element Methods should be a more inclusive term covering Distinct Element Methods, Displacement Discontinuity Analysis and Modal Methods. In this work, DEM specifically refers to the Distinct Element Method, where the discrete elements interact via compliant contacts, in contrast with Displacement Discontinuity Analysis where the contacts are rigid and all compliance is taken up by the adjacent intact material.

  19. Fuel element for nuclear reactors

    International Nuclear Information System (INIS)

    Cadwell, D.J.

    1982-01-01

    The invention concerns a fuel element for nuclear reactors with fuel rods and control rod guide tubes, where the control rod guide tubes are provided with flat projections projecting inwards, in the form of local deformations of the guide tube wall, in order to reduce the radial play between the control rod concerned and the guide tube, and to improve control rod movement. This should ensure that wear on the guide tubes is largely prevented which would be caused by lateral vibration of the control rods in the guide tubes, induced by the flow of coolant. (orig.) [de

  20. Differential Internalization Rates and Postendocytic Sorting of the Norepinephrine and Dopamine Transporters Are Controlled by Structural Elements in the N Termini

    DEFF Research Database (Denmark)

    Vuorenpää, Anne Elina; Jørgensen, Trine Nygaard; Newman, Amy H

    2016-01-01

    . Moreover, mitigating Rab11 function by overexpression of dominant negative Rab11 impaired NET function. Sorting of NET to the Rab11 recycling compartment was further supported by confocal imaging and reversible biotinylation experiments in transfected differentiated CATH.a cells. In contrast to NET......, the dopamine transporter displayed markedly less constitutive internalization and limited sorting to the Rab11 recycling compartment in the differentiated CATH.a cells. Exchange of domains between the two homologous transporters revealed that this difference was determined by non-conserved structural elements...... in the intracellular N terminus. We conclude that NET displays a distinct trafficking itinerary characterized by continuous shuffling between the plasma membrane and the Rab11 recycling compartment and that the functional integrity of the Rab11 compartment is critical for maintaining proper presynaptic NET function....

  1. The use of decision trees and naïve Bayes algorithms and trace element patterns for controlling the authenticity of free-range-pastured hens' eggs.

    Science.gov (United States)

    Barbosa, Rommel Melgaço; Nacano, Letícia Ramos; Freitas, Rodolfo; Batista, Bruno Lemos; Barbosa, Fernando

    2014-09-01

    This article aims to evaluate 2 machine learning algorithms, decision trees and naïve Bayes (NB), for egg classification (free-range eggs compared with battery eggs). The database used for the study consisted of 15 chemical elements (As, Ba, Cd, Co, Cs, Cu, Fe, Mg, Mn, Mo, Pb, Se, Sr, V, and Zn) determined in 52 eggs samples (20 free-range and 32 battery eggs) by inductively coupled plasma mass spectrometry. Our results demonstrated that decision trees and NB associated with the mineral contents of eggs provide a high level of accuracy (above 80% and 90%, respectively) for classification between free-range and battery eggs and can be used as an alternative method for adulteration evaluation. © 2014 Institute of Food Technologists®

  2. Chemistry of the elements

    International Nuclear Information System (INIS)

    Greenwood, N.N.; Earnshaw, A.

    1984-01-01

    This textbook presents an account of the chemistry of the elements for both undergraduate and postgraduate students. It covers not only the 'inorganic' chemistry of the elements, but also analytical, theoretical, industrial, organometallic;, bio-inorganic and other areas of chemistry which apply. The following elements of special nuclear interest are included: Rb, Cs, Fr, Sr, Ba, Ra, Po, At, Rn, Sc, Y, Zr, Hf, V, Nb, Ta, Mo, Tc, Ru, the Lanthanide Elements, the Actinide Elements. (U.K.)

  3. Rare earth elements (REE) and yttrium in stream waters, stream sediments, and Fe Mn oxyhydroxides: Fractionation, speciation, and controls over REE + Y patterns in the surface environment

    Science.gov (United States)

    Leybourne, Matthew I.; Johannesson, Karen H.

    2008-12-01

    We have collected ˜500 stream waters and associated bed-load sediments over an ˜400 km 2 region of Eastern Canada and analyzed these samples for Fe, Mn, and the rare earth elements (REE + Y). In addition to analyzing the stream sediments by total digestion (multi-acid dissolution with metaborate fusion), we also leached the sediments with 0.25 M hydroxylamine hydrochloride (in 0.05 M HCl), to determine the REE + Y associated with amorphous Fe- and Mn-oxyhydroxide phases. We are thus able to partition the REE into "dissolved" (primary sources, the host lithologies (i.e., mechanical dispersion) and hydromorphically transported (the labile fraction). Furthermore, Eu appears to be more mobile than the other REE, whereas Ce is preferentially removed from solution and accumulates in the stream sediments in a less labile form than the other REEs + Y. Despite poor statistical correlations between the REEs + Y and Mn in either the total sediment or partial extractions, based on apparent distribution coefficients and the pH of the stream waters, we suggest that either sediment organic matter and/or possibly δ-MnO 2/FeOOH are likely the predominant sinks for Ce, and to a lesser extent the other REE, in the stream sediments.

  4. The HOG pathway controls osmotic regulation of transcription via the stress response element (STRE) of the Saccharomyces cerevisiae CTT1 gene.

    Science.gov (United States)

    Schüller, C; Brewster, J L; Alexander, M R; Gustin, M C; Ruis, H

    1994-09-15

    The HOG signal pathway of the yeast Saccharomyces cerevisiae is defined by the PBS2 and HOG1 genes encoding members of the MAP kinase kinase and of the MAP kinase family, respectively. Mutations in this pathway (deletions of PBS2 or HOG1, or point mutations in HOG1) almost completely abolish the induction of transcription by osmotic stress that is mediated by stress response elements (STREs). We have demonstrated previously that STREs also mediate induction of transcription by heat shock, nitrogen starvation and oxidative stress. This study shows that they are also activated by low external pH, sorbate, benzoate or ethanol stress. Induction by these other stress signals appears to be HOG pathway independent. HOG1-dependent osmotic induction of transcription of the CTT1 gene encoding the cytosolic catalase T occurs in the presence of a protein synthesis inhibitor and can be detected rapidly after an increase of tyrosine phosphorylation of Hog1p triggered by high osmolarity. Consistent with a role of STREs in the induction of stress resistance, a number of other stress protein genes (e.g. HSP104) are regulated like CTT1. Furthermore, catalase T was shown to be important for viability under severe osmotic stress, and heat shock was demonstrated to provide cross-protection against osmotic stress.

  5. Genes and quantitative trait loci (QTL) controlling trace element concentrations in perennial grasses grown on phytotoxic soil contaminated with heavy metals

    Science.gov (United States)

    Perennial grasses cover diverse soils throughout the world, including sites contaminated with heavy metals, producing forages that must be safe for livestock and wildlife. Chromosome regions known as quantitative trait loci (QTLs) controlling forage mineral concentrations were mapped in a populatio...

  6. Differential Internalization Rates and Postendocytic Sorting of the Norepinephrine and Dopamine Transporters Are Controlled by Structural Elements in the N Termini*

    Science.gov (United States)

    Vuorenpää, Anne; Jørgensen, Trine N.; Newman, Amy H.; Madsen, Kenneth L.; Scheinin, Mika

    2016-01-01

    The norepinephrine transporter (NET) mediates reuptake of synaptically released norepinephrine in central and peripheral noradrenergic neurons. The molecular processes governing availability of NET in the plasma membrane are poorly understood. Here we use the fluorescent cocaine analogue JHC 1-64, as well as several other approaches, to investigate the trafficking itinerary of NET in live noradrenergic neurons. Confocal imaging revealed extensive constitutive internalization of JHC 1-64-labeled NET in the neuronal somata, proximal extensions and presynaptic boutons. Phorbol 12-myristate 13-acetate increased intracellular accumulation of JHC 1-64-labeled NET and caused a parallel reduction in uptake capacity. Internalized NET strongly colocalized with the “long loop” recycling marker Rab11, whereas less overlap was seen with the “short loop” recycling marker Rab4 and the late endosomal marker Rab7. Moreover, mitigating Rab11 function by overexpression of dominant negative Rab11 impaired NET function. Sorting of NET to the Rab11 recycling compartment was further supported by confocal imaging and reversible biotinylation experiments in transfected differentiated CATH.a cells. In contrast to NET, the dopamine transporter displayed markedly less constitutive internalization and limited sorting to the Rab11 recycling compartment in the differentiated CATH.a cells. Exchange of domains between the two homologous transporters revealed that this difference was determined by non-conserved structural elements in the intracellular N terminus. We conclude that NET displays a distinct trafficking itinerary characterized by continuous shuffling between the plasma membrane and the Rab11 recycling compartment and that the functional integrity of the Rab11 compartment is critical for maintaining proper presynaptic NET function. PMID:26786096

  7. Data Element Registry Services

    Data.gov (United States)

    U.S. Environmental Protection Agency — Data Element Registry Services (DERS) is a resource for information about value lists (aka code sets / pick lists), data dictionaries, data elements, and EPA data...

  8. Quality assurance of fuel elements

    International Nuclear Information System (INIS)

    Hoerber, J.

    1980-01-01

    The quality assurance activities for reactor fuel elements are based on a quality assurance system which implies the requirements resulting from the specifications, regulations of the authorities, national standards and international rules and regulations. The quality assurance related to production of reactor fuel will be shown for PWR fuel elements in all typical fabrication steps as conversion into UO 2 -powder, pelletizing, rodmanufacture and assembling. A wide range of destructive and nondestructive techniques is applied. Quality assurance is not only verified by testing techniques but also by process monitoring by means of parameter control in production and testing procedures. (RW)

  9. Basic Finite Element Method

    International Nuclear Information System (INIS)

    Lee, Byeong Hae

    1992-02-01

    This book gives descriptions of basic finite element method, which includes basic finite element method and data, black box, writing of data, definition of VECTOR, definition of matrix, matrix and multiplication of matrix, addition of matrix, and unit matrix, conception of hardness matrix like spring power and displacement, governed equation of an elastic body, finite element method, Fortran method and programming such as composition of computer, order of programming and data card and Fortran card, finite element program and application of nonelastic problem.

  10. Radiolabelled cellular blood elements

    International Nuclear Information System (INIS)

    Sinzinger, H.

    1990-01-01

    This book reports on radiolabelled cellular blood elements, covering new advances made during the past several years, in particular the use of Tc-99 as a tracer for blood elements. Coverage extends to several radiolabelled monoclonal antibodies that are specific for blood components and may label blood elements in vivo

  11. Software development assurance for special control computer sets on the base of the Electronica-60M microcomputer in the stations of fuel element nondestructive testing

    International Nuclear Information System (INIS)

    Vasil'kova, A.D.; Grachev, S.N.; Salakatova, L.S.

    1987-01-01

    A special computational control complex (SCCC) including the ''Elektronika-60M'' microcomputer, a device for communication with an object (DCO) based on the typical microprocessing set (TMS) based on LIUS-2 KTS means and an adapter for communication of the ''Elektronika-60M'' microcomputer bus with IK1 TMS bus developed for their conjugation is used for development of nondestructive control post software. An instrumental SCCC including SM-4 microcomputer, TMS units as DCO, an adapter for communication of the common bus of the SM-4 minicomputer with the IK1 TMS bus developed for their conjugation and devices for simulation of the facility operation is suggested to increase labour productivity of programmers. The SM-4 microcomputer permits to develop programs in the FORTRAN language and to carry out their effective adjustment. A subprogram library for communication with TMS units is compiled, and the technique for testing FORTRAN programs in programmable read-only memory TMS as well as start of these programs are developed

  12. Identification, occurrence, and validation of DRE and ABRE Cis-regulatory motifs in the promoter regions of genes of Arabidopsis thaliana.

    Science.gov (United States)

    Mishra, Sonal; Shukla, Aparna; Upadhyay, Swati; Sanchita; Sharma, Pooja; Singh, Seema; Phukan, Ujjal J; Meena, Abha; Khan, Feroz; Tripathi, Vineeta; Shukla, Rakesh Kumar; Shrama, Ashok

    2014-04-01

    Plants posses a complex co-regulatory network which helps them to elicit a response under diverse adverse conditions. We used an in silico approach to identify the genes with both DRE and ABRE motifs in their promoter regions in Arabidopsis thaliana. Our results showed that Arabidopsis contains a set of 2,052 genes with ABRE and DRE motifs in their promoter regions. Approximately 72% or more of the total predicted 2,052 genes had a gap distance of less than 400 bp between DRE and ABRE motifs. For positional orientation of the DRE and ABRE motifs, we found that the DR form (one in direct and the other one in reverse orientation) was more prevalent than other forms. These predicted 2,052 genes include 155 transcription factors. Using microarray data from The Arabidopsis Information Resource (TAIR) database, we present 44 transcription factors out of 155 which are upregulated by more than twofold in response to osmotic stress and ABA treatment. Fifty-one transcripts from the one predicted above were validated using semiquantitative expression analysis to support the microarray data in TAIR. Taken together, we report a set of genes containing both DRE and ABRE motifs in their promoter regions in A. thaliana, which can be useful to understand the role of ABA under osmotic stress condition. © 2013 Institute of Botany, Chinese Academy of Sciences.

  13. Investigation of power and frequency for 3D conformal MRI-controlled transurethral ultrasound therapy with a dual frequency multi-element transducer.

    Science.gov (United States)

    N'djin, William Apoutou; Burtnyk, Mathieu; Bronskill, Michael; Chopra, Rajiv

    2012-01-01

    Transurethral ultrasound therapy uses real-time magnetic resonance (MR) temperature feedback to enable the 3D control of thermal therapy accurately in a region within the prostate. Previous canine studies showed the feasibility of this method in vivo. The aim of this study was to reduce the procedure time, while maintaining targeting accuracy, by investigating new combinations of treatment parameters. Simulations and validation experiments in gel phantoms were used, with a collection of nine 3D realistic target prostate boundaries obtained from previous preclinical studies, where multi-slice MR images were acquired with the transurethral device in place. Acoustic power and rotation rate were varied based on temperature feedback at the prostate boundary. Maximum acoustic power and rotation rate were optimised interdependently, as a function of prostate radius and transducer operating frequency. The concept of dual frequency transducers was studied, using the fundamental frequency or the third harmonic component depending on the prostate radius. Numerical modelling enabled assessment of the effects of several acoustic parameters on treatment outcomes. The range of treatable prostate radii extended with increasing power, and tended to narrow with decreasing frequency. Reducing the frequency from 8 MHz to 4 MHz or increasing the surface acoustic power from 10 to 20 W/cm(2) led to treatment times shorter by up to 50% under appropriate conditions. A dual frequency configuration of 4/12 MHz with 20 W/cm(2) ultrasound intensity exposure can treat entire prostates up to 40 cm(3) in volume within 30 min. The interdependence between power and frequency may, however, require integrating multi-parametric functions in the controller for future optimisations.

  14. Rare (Earth Elements [score

    Directory of Open Access Journals (Sweden)

    Camilo Méndez

    2014-12-01

    Full Text Available Rare (Earth Elements is a cycle of works for solo piano. The cycle was inspired by James Dillon’s Book of Elements (Vol. I-V. The complete cycle will consist of 14 pieces; one for each selected rare (earth element. The chosen elements are Neodymium, Erbium, Tellurium, Hafnium, Tantalum, Technetium, Indium, Dysprosium, Lanthanium, Cerium, Europium, Terbium, Yttrium and Darmstadtium. These elements were selected due to their special atomic properties that in many cases make them extremely valuable for the development of new technologies, and also because of their scarcity. To date, only 4 works have been completed Yttrium, Technetium, Indium and Tellurium.

  15. Generalized finite elements

    International Nuclear Information System (INIS)

    Wachspress, E.

    2009-01-01

    Triangles and rectangles are the ubiquitous elements in finite element studies. Only these elements admit polynomial basis functions. Rational functions provide a basis for elements having any number of straight and curved sides. Numerical complexities initially associated with rational bases precluded extensive use. Recent analysis has reduced these difficulties and programs have been written to illustrate effectiveness. Although incorporation in major finite element software requires considerable effort, there are advantages in some applications which warrant implementation. An outline of the basic theory and of recent innovations is presented here. (authors)

  16. Elements beyond uranium

    International Nuclear Information System (INIS)

    Seaborg, G.T.; Loveland, W.D.

    1990-01-01

    This book is the 12th volume in a series on transuranium elements. Varied techniques for production of these elements, the methods used in the identification, and the exquisitely refined microchemical techniques required to deal wth samples sometimes involving only a few atoms are described in detail. The chapter on synthesis of the new elements is liberally laced with reminiscences of the proud progenitors as well as the criteria for the discovery of a new chemical element. The authors lament that the superheavy elements (elements in the region of atomic number 114) still elude detection even though their creation should be possible, and some, at least, should survive long enough to be detected. One chapter in the book is devoted to practical applictions of uranium, and the transuranic elements

  17. Gaseous elemental mercury emissions and CO{sub 2} respiration rates in terrestrial soils under controlled aerobic and anaerobic laboratory conditions

    Energy Technology Data Exchange (ETDEWEB)

    Obrist, Daniel, E-mail: daniel.obrist@dri.edu [Desert Research Institute, Division of Atmospheric Sciences, 2215 Raggio Parkway, Reno, Nevada, 89512 (United States); Fain, Xavier; Berger, Carsen [Desert Research Institute, Division of Atmospheric Sciences, 2215 Raggio Parkway, Reno, Nevada, 89512 (United States)

    2010-03-01

    Mercury (Hg) levels in terrestrial soils are linked to the presence of organic carbon (C). Carbon pools are highly dynamic and subject to mineralization processes, but little is known about the fate of Hg during decomposition. This study evaluated relationships between gaseous Hg emissions from soils and carbon dioxide (CO{sub 2}) respiration under controlled laboratory conditions to assess potential losses of Hg to the atmosphere during C mineralization. Results showed a linear correlation (r{sup 2} = 0.49) between Hg and CO{sub 2} emissions in 41 soil samples, an effect unlikely to be caused by temperature, radiation, different Hg contents, or soil moisture. Stoichiometric comparisons of Hg/C ratios of emissions and underlying soil substrates suggest that 3% of soil Hg was subject to evasion. Even minute emissions of Hg upon mineralization, however, may be important on a global scale given the large Hg pools sequestered in terrestrial soils and C stocks. We induced changes in CO{sub 2} respiration rates and observed Hg flux responses, including inducement of anaerobic conditions by changing chamber air supply from N{sub 2}/O{sub 2} (80% and 20%, respectively) to pure N{sub 2}. Unexpectedly, Hg emissions almost quadrupled after O{sub 2} deprivation while oxidative mineralization (i.e., CO{sub 2} emissions) was greatly reduced. This Hg flux response to anaerobic conditions was lacking when repeated with sterilized soils, possibly due to involvement of microbial reduction of Hg{sup 2+} by anaerobes or indirect abiotic effects such as alterations in soil redox conditions. This study provides experimental evidence that Hg volatilization, and possibly Hg{sup 2+} reduction, is related to O{sub 2} availability in soils from two Sierra Nevada forests. If this result is confirmed in soils from other areas, the implication is that Hg volatilization from terrestrial soils is partially controlled by soil aeration and that low soil O{sub 2} levels and possibly low soil redox

  18. Cognitive behavioural therapy for the management of inflammatory bowel disease-fatigue with a nested qualitative element: study protocol for a randomised controlled trial.

    Science.gov (United States)

    Artom, Micol; Czuber-Dochan, Wladyslawa; Sturt, Jackie; Norton, Christine

    2017-05-11

    Fatigue is one of the most prevalent and burdensome symptoms for patients with inflammatory bowel disease (IBD). Although fatigue increases during periods of inflammation, for some patients it persists when disease is in remission. Compared to other long-term conditions where fatigue has been extensively researched, optimal management of fatigue in patients with IBD is unknown and fatigue has rarely been the primary outcome in intervention studies. To date, interventions for the management of IBD-fatigue are sparse, have short-term effects and have not been implemented within the existing health system. There is a need to integrate current best evidence across different conditions, patient experience and clinical expertise in order to develop interventions for IBD-fatigue management that are feasible and effective. Modifying an existing intervention for patients with multiple sclerosis, this study aims to assess the feasibility and initial estimates of efficacy of a cognitive behavioural therapy (CBT) intervention for the management of fatigue in patients with IBD. The study will be a two-arm pilot randomised controlled trial. Patients will be recruited from one outpatient IBD clinic and randomised individually to either: Group 1 (CBT manual for the management of fatigue, one 60-min session and seven 30-min telephone/Skype sessions with a therapist over an eight-week period); or Group 2 (fatigue information sheet to use without therapist help). Self-reported IBD-fatigue (Inflammatory Bowel Disease-Fatigue Scale) and IBD-quality of life (United Kingdom Inflammatory Bowel Disease Questionnaire) and self-reported disease activity will be collected at baseline, three, six and 12 months post randomisation. Illness perceptions, daytime sleepiness, anxiety and depression explanatory variables will be collected only at three months post randomisation. Clinical and sociodemographic data will be retrieved from the patients' medical notes. A nested qualitative study will

  19. Chilean fuel elements fabrication progress report

    International Nuclear Information System (INIS)

    Baeza, J.; Contreras, H.; Chavez, J.; Klein, J.; Mansilla, R.; Marin, J.; Medina, R.

    1993-01-01

    Due to HEU-LEU core conversion necessity for the Chilean MTR reactors, the Fuel Elements Plant is being implemented to LEU nuclear fuel elements fabrication. A glove box line for powder-compact processing designed at CCHEN, which supposed to operate under an automatic control system, is at present under initial tests. Results of first natural uranium fuel plates manufacturing runs are shown

  20. Modelling drawbeads with finite elements and verification

    NARCIS (Netherlands)

    Carleer, B.D.; Carleer, B.D.; Vreede, P.T.; Vreede, P.T.; Louwes, M.F.M.; Louwes, M.F.M.; Huetink, Han

    1994-01-01

    Drawbeads are commonly used in deep drawing processes to control the flow of the blank during the forming operation. In finite element simulations of deep drawing the drawbead geometries are seldom included because of the small radii; because of these small radii a very large number of elements is

  1. Evolutionary Novelty in a Butterfly Wing Pattern through Enhancer Shuffling

    Science.gov (United States)

    Pardo-Diaz, Carolina; Hanly, Joseph J.; Martin, Simon H.; Mallet, James; Dasmahapatra, Kanchon K.; Salazar, Camilo; Joron, Mathieu; Nadeau, Nicola; McMillan, W. Owen; Jiggins, Chris D.

    2016-01-01

    An important goal in evolutionary biology is to understand the genetic changes underlying novel morphological structures. We investigated the origins of a complex wing pattern found among Amazonian Heliconius butterflies. Genome sequence data from 142 individuals across 17 species identified narrow regions associated with two distinct red colour pattern elements, dennis and ray. We hypothesise that these modules in non-coding sequence represent distinct cis-regulatory loci that control expression of the transcription factor optix, which in turn controls red pattern variation across Heliconius. Phylogenetic analysis of the two elements demonstrated that they have distinct evolutionary histories and that novel adaptive morphological variation was created by shuffling these cis-regulatory modules through recombination between divergent lineages. In addition, recombination of modules into different combinations within species further contributes to diversity. Analysis of the timing of diversification in these two regions supports the hypothesis of introgression moving regulatory modules between species, rather than shared ancestral variation. The dennis phenotype introgressed into Heliconius melpomene at about the same time that ray originated in this group, while ray introgressed back into H. elevatus much more recently. We show that shuffling of existing enhancer elements both within and between species provides a mechanism for rapid diversification and generation of novel morphological combinations during adaptive radiation. PMID:26771987

  2. Induction of neutral trehalase Nth1 by heat and osmotic stress is controlled by STRE elements and Msn2/Msn4 transcription factors: variations of PKA effect during stress and growth.

    Science.gov (United States)

    Zähringer, H; Thevelein, J M; Nwaka, S

    2000-01-01

    Saccharomyces cerevisiae neutral trehalase, encoded by NTH1, controls trehalose hydrolysis in response to multiple stress conditions, including nutrient limitation. The presence of three stress responsive elements (STREs, CCCCT) in the NTH1 promoter suggested that the transcriptional activator proteins Msn2 and Msn4, as well as the cAMP-dependent protein kinase (PKA), control the stress-induced expression of Nth1. Here, we give direct evidence that Msn2/Msn4 and the STREs control the heat-, osmotic stress- and diauxic shift-dependent induction of Nth1. Disruption of MSN2 and MSN4 abolishes or significantly reduces the heat- and NaCl-induced increases in Nth1 activity and transcription. Stress-induced increases in activity of a lacZ reporter gene put under control of the NTH1 promoter is nearly absent in the double mutant. In all instances, basal expression is also reduced by about 50%. The trehalose concentration in the msn2 msn4 double mutant increases less during heat stress and drops more slowly during recovery than in wild-type cells. This shows that Msn2/Msn4-controlled expression of enzymes of trehalose synthesis and hydrolysis help to maintain trehalose concentration during stress. However, the Msn2/Msn4-independent mechanism exists for heat control of trehalose metabolism. Site-directed mutagenesis of the three STREs (CCCCT changed to CATCT) in NTH1 promoter fused to a reporter gene indicates that the relative proximity of STREs to each other is important for the function of NTH1. Elimination of the three STREs abolishes the stress-induced responses and reduces basal expression by 30%. Contrary to most STRE-regulated genes, the PKA effect on the induction of NTH1 by heat and sodium chloride is variable. During diauxic growth, NTH1 promoter-controlled reporter activity strongly increases, as opposed to the previously observed decrease in Nth1 activity, suggesting a tight but opposite control of the enzyme at the transcriptional and post-translational levels

  3. Report on results 1998. Technological development to create high quality crystal material for low loss power controlling element; 1998 nendo seika hokokusho. Teisonshitsu denryoku seigyo soshiyo kohinshitsu kessho zairyo sosei gijutsu kaihatsu

    Energy Technology Data Exchange (ETDEWEB)

    NONE

    1999-03-01

    This paper refers to the development of basic technology for manufacturing crystal materials of a large diameter and uniform properties for the purpose of sophistication and low loss of semiconductor controlling elements for electric power. An experiment was conducted using the drop tower of the underground agravity center. Results in fiscal 1998 were explained. With counter-measures taken in for improving measuring accuracy of an electromagnetic floating furnace, the accumulation and evaluation were performed of the highly reliable data of the surface tension and density of Si. The measurement of the viscosity coefficient of Si under micro-gravity was successful for the first time in the world, as was the measurement of the contact angle between solid/liquid, other than the measurement of specific heat, thermal conductivity and spectral emissivity of Si. The viscosity coefficient, unlike the conventional report, showed Arrhenius' linearity. In the comupter simulation, boundary data were exchanged between element analysis programs, developing a basic general analysis program as scheduled. The result of a micro simulation by molecular dynamics method was in agreement with the observation result by a transmission type electron microscope, bringing the first success in the world. In the Cz furnace model experiment, effect of rotation for example was elucidated on turbulence in the melt by using lasers. (NEDO)

  4. Limitless Analytic Elements

    Science.gov (United States)

    Strack, O. D. L.

    2018-02-01

    We present equations for new limitless analytic line elements. These elements possess a virtually unlimited number of degrees of freedom. We apply these new limitless analytic elements to head-specified boundaries and to problems with inhomogeneities in hydraulic conductivity. Applications of these new analytic elements to practical problems involving head-specified boundaries require the solution of a very large number of equations. To make the new elements useful in practice, an efficient iterative scheme is required. We present an improved version of the scheme presented by Bandilla et al. (2007), based on the application of Cauchy integrals. The limitless analytic elements are useful when modeling strings of elements, rivers for example, where local conditions are difficult to model, e.g., when a well is close to a river. The solution of such problems is facilitated by increasing the order of the elements to obtain a good solution. This makes it unnecessary to resort to dividing the element in question into many smaller elements to obtain a satisfactory solution.

  5. Analysis and control of erosion by solid particles in the elements of the flow system of steam turbines; Analisis y control de erosion por particulas solidas en los elementos del sistema de flujo de turbinas de vapor

    Energy Technology Data Exchange (ETDEWEB)

    Mazur Czerwiec, Zdzislaw; Campos Amezcua, Alfonso; Campos Amezcua, Rafael [Instituto de Investigaciones Electricas, Cuernavaca, Morelos (Mexico)

    2010-07-01

    The analysis of erosion by solid particles is presented of different elements of the flow channel of the steam turbines that operate in Mexico: nozzles, stop valves, blade bosses, labyrinth seals and rotor disc; using tools of of Computational Fluid Dynamics (CFD). In these main elements of turbines a strong problem of erosion was registered that threatens the reliable operation of the turbines, its availability and its optimal yield. With base on the results of the numerical analyses, the design modifications of the different elements were developed from the flow channel of the steam turbines, in order to reduce the erosion and thus diminishing the energy losses and increasing the steam turbine efficiency. This work presents the main benefits that the Thermoelectric Power Plants obtain with the reduction of the erosion by solid particles that affect the critical components of steam turbines: extension of the period between maintenance, replacement of components, reduction of operation and maintenance costs of the turbines, and extension of the useful life of the main components. [Spanish] Se presenta el analisis de erosion por particulas solidas de diferentes elementos del canal de flujo de las turbinas de vapor que operan en Mexico: toberas, valvula de paro, tetones de los alabes, sellos de laberinto y disco del rotor; utilizando herramientas de Dinamica de Fluidos Computacional (DFC). En estos elementos principales de turbinas se registro un fuerte problema de erosion que amenaza la operacion confiable de las turbinas, su disponibilidad y su rendimiento optimo. Con base en los resultados de los analisis numericos, se desarrollaron las modificaciones de diseno de los diferentes elementos del canal de flujo de las turbinas de vapor, con el proposito de reducir la erosion y asi, disminuir las perdidas de energia e incrementar el rendimiento de las turbinas de vapor. Este trabajo presenta los principales beneficios que obtienen las Centrales Termoelectricas con la

  6. Determination of efficiencies, loss mechanisms, and performance degradation factors in chopper controlled dc vehical motors. Section 2: The time dependent finite element modeling of the electromagnetic field in electrical machines: Methods and applications. Ph.D. Thesis

    Science.gov (United States)

    Hamilton, H. B.; Strangas, E.

    1980-01-01

    The time dependent solution of the magnetic field is introduced as a method for accounting for the variation, in time, of the machine parameters in predicting and analyzing the performance of the electrical machines. The method of time dependent finite element was used in combination with an also time dependent construction of a grid for the air gap region. The Maxwell stress tensor was used to calculate the airgap torque from the magnetic vector potential distribution. Incremental inductances were defined and calculated as functions of time, depending on eddy currents and saturation. The currents in all the machine circuits were calculated in the time domain based on these inductances, which were continuously updated. The method was applied to a chopper controlled DC series motor used for electric vehicle drive, and to a salient pole sychronous motor with damper bars. Simulation results were compared to experimentally obtained ones.

  7. Estimation of the Thickness and the Material Combination of the Thermal Stress Control Layer (TSCL) for the Stellite21 Hardfaced STD61 Hot Working Tool Steel Using Three-Dimensional Finite Element Analysis

    International Nuclear Information System (INIS)

    Park, Na-Ra; Ahn, Dong-Gyu; Oh, Jin-Woo

    2014-01-01

    The research on a thermal stress control layer (TSCL) begins to undertake to reduce residual stress and strain in the vicinity of the joined region between the hardfacing layer and the base part. The goal of this paper is to estimate the material combination and the thickness of TSCL for the Stellite21 hardfaced STD61 hot working tool steel via three-dimensional finite element analysis (FEA). TSCL is created by the combination of Stellite21 and STD61. The thickness of TSCL ranges from 0.5 mm to 1.5 mm. The influence of the material combination and the thickness of TSCL on temperature, thermal stress and thermal strain distributions of the hardfaced part have been investigated. The results of the investigation have been revealed that a proper material combination of TSCL is Stellite21 of 50 % and STD61 of 50 %, and its appropriate thickness is 1.0 mm

  8. The solar element

    DEFF Research Database (Denmark)

    Kragh, Helge

    2009-01-01

    of the nineteenth century. In the modest form of a yellow spectral line known as D3, 'helium' was sometimes supposed to exist in the Sun's atmosphere, an idea which is traditionally ascribed to J. Norman Lockyer. Did Lockyer discover helium as a solar